InstitutionBaylor College of Medicine
DepartmentDepartment of Molecular Virology & Microbiology
AddressOne Baylor Plaza
Houston, TX 77030
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    Other Positions
    InstitutionBaylor College of Medicine
    DepartmentDepartment of Molecular Virology & Microbiology
    DivisionMolecular Virology & Microbiology

    InstitutionBaylor College of Medicine
    DepartmentDepartment of Ophthalmology

    InstitutionBaylor College of Medicine
    DepartmentHuman Genome Sequencing Center
    DivisionHuman Genome Sequencing Center

    Collapse Biography 
    Collapse awards and honors
    2013 - 2014Honoree of Houston Men of Distinction, Houston Men of Distinction
    2012 - 2014ASM Distinguished Lecturer, American Society for Microbiology
    2005 - 2007Career Development Award, Western Regional Center of Excellence for Biodefense and Emerging Infectious Disease
    2000 - 2003Breast Cancer Initiative Postdoctoral Fellowship, United States Army Materiel Command
    2000Postdoctoral Fellowship (declined), American Cancer Society
    2000National Research Service Award Postdoctoral Fellowship (declined), National Institutes of Health
    1999Postdoctoral Genetics Training Grant Appointee, National Institutes of Health
    1997Honorable Mention, S.E. Sulkin Award for Clinical and Applied Microbiology, American Society for Microbiology-Texas Branch

    Collapse Overview 
    Collapse overview
    Within the body of a healthy adult, microbial cells are estimated to outnumber human cells by a factor of ten to one. The total number of genes in the human microbiome may exceed the total number of human genes by a factor of 100 to 1. These microbial communities comprise what has come to be known as the ‘human microbiome’. Until recently, the human microbiome has been largely unstudied, leaving its influence upon human health largely unknown. Traditional microbiology has focused on the study of individual isolated species, with most organisms (>80%) having never been successfully cultured. However, advances in DNA sequencing technologies have created the ability to examine microbial communities, including uncultivable organisms. These advances have led to ‘metagenomic’ approaches that allow the analysis of genetic material derived from complete microbial communities harvested from natural environments, thus facilitating the study of the human microbiome as well as the microbiomes of other animals and environmental niches.

    To take advantage of these recent technological advances, the NIH Roadmap Office/Common Fund initiated the Human Microbiome Project (HMP) in 2006 with the mission of generating resources enabling characterization of the human microbiota and analysis of its role in human health and disease. As a Primary Investigator in the HMP, and in directing a number of other microbiome projects, my interests are focused on developing and implementing measures to sample and analyze microbial communities from niches on and in the human body and related animal models for the understanding of how commensal organisms impact health and disease.

    Knowledge of how the microbiota impact and/or respond to various states of health and illness is vital for the development of treatments that can diagnose, treat and/or eliminate heritable or infectious disease. For example, microbiome-associated diagnostics may be more sensitive for detecting certain diseases and/or predicting susceptibility to others so that appropriate precautions can be made (e.g., taking a probiotic or antibiotic when traveling when it’s known that an individual is highly susceptible to travelers’ diarrhea or Norwalk virus infection).

    Since the onset of the HMP, we along with collaborators in the Department of Molecular Virology and Microbiology (MVM) and the Human Genome Sequencing Center have been pursuing diverse projects in metagenomics and microbiome research. In 2011 I established the Alkek Center for Metagenomics and Microbiome Research (CMMR) at BCM to maintain our position as leaders in this field, and to further develop and expand the infrastructure and expertise that will propel microbiome research in the future with the following mission foci:

    Support existing metagenomic research programs that are ongoing at BCM and affiliated institutions

    Provide support for investigators/clinical collaborators who have ideal model systems for metagenomics but who do not know where to begin such studies.

    Expand metagenomic research into animal and molecular model systems so that hypothesis-driven research could be initiated and supported.

    Provide a critical mass in bioinformatic expertise for analyzing and providing statistical support for metagenomic data.

    Translate novel discoveries from microbiome studies to effective clinical therapeutics and diagnostics.

    Among the largest of the more than 250 projects we are engaging/have engaged with over 120 collaborating groups from around the world during the past 4 years is a comprehensive microbiome analysis supporting the NIDDK-funded TEDDY (The Environmental Determinants of Diabetes in the Young) Project. The goal of this study is to identify microbial associations and triggers that may underlie the onset of type 1 diabetes. This knowledge will hopefully lead to better diagnostics, interventions, and perhaps even a cure, for juvenile diabetes.

    Other collaborations with researchers at BCM and other area institutions have led to a number of ongoing lucrative projects, some of which have been highlighted elsewhere in the BCM and national spotlight. We anticipate these studies will produce results that may translate directly into therapeutics and diagnostics that impact human health. Among these are projects with Drs. Danny Jones and Stephen Pflugfelder, Department of Ophthalmology, studying the ocular surface microbiome associated with health and disease, Dr. James Versalovic, Department of Pathology, TCH Microbiome Center, focusing on microbiome associations to pediatric bowel pain, Dr. Kjersti Aagaard, Department of Obstetrics and Gynecology, on microbiome associations to pre-term birth, Drs. Herbert DuPont and David Graham, Department of Medicine, examining microbiota associations with gastrointestinal disease and treatment with fecal transplants and defined microbial communities. Each of these projects has posed unique study design and technology challenges that CMMR staff and collaborators are addressing to generate provocative results that will hopefully benefit human health in the near future.


    Independent from our research on the human microbiome, we are also actively studying the biodefense concern, Francisella tularensis.

    The facultative intracellular pathogen, Francisella tularensis, is the causative agent of tularemia, and is among the most infectious pathogens known, both in terms of the number of zoonotic species it infects (>250), and the number of organisms needed to establish a potentially lethal infection (<10 by the airborne route). F. tularensis is a Category A biodefense agent because of its ability to cause incapacitating, potentially fatal, illness, its ability to spread via aerosolization, and for the potential burden it would have on the public health system in the event of an outbreak. There are four subspecies of Francisella tularensis: subspecies tularensis (Type A), subspecies holarctica (Type B), subspecies novicida, and subspecies mediasiatica. Type A, found exclusively in North America and Mexico, causes the most severe form of human disease, while Type B is less pathogenic in humans and is found throughout the northern hemisphere. Several decades ago, in the former Soviet Union, an attenuated live vaccine strain (LVS) was derived from repeated passage of a Type B strain. LVS offers protection against both Type A and Type B infection, but is not licensed for use in the U.S. because it’s immunogenicity in humans is poorly characterized, the mechanism of attenuation for this strain is unknown, and the strain kills mice with a LD50 of one bacterium when injected intraperitoneally.

    Using state-of-the-art technologies and resources in the Baylor College of Medicine Human Genome Sequencing Center, we are determining the genomic sequences of multiple F. tularensis strains. Comparisons of Type A, Type B, LVS, and other Francisella sequences are highlighting genetic differences that will answer the following questions:

    Why are Type A Francisella strains more virulent than Type B strains?

    How are Francisella subspecies evolutionarily related?

    What makes Francisella so pathogenic in the absence of an obvious toxin?

    What genes mediate robust replication of Francisella in macrophages?

    What mutations attenuate LVS?

    What mutations are capable of rationally attenuating pathogenic strains?

    Isogenic Francisella mutant strains will be constructed subsequently to test the roles of candidate alleles in strain attenuation and host specificity. These studies will reveal the pathogenicity mechanisms of one of the most virulent bacteria known and will further the development of improved attenuated vaccines and immunodiagnostics targeted against Francisella.

    Functional genomics approaches are being used to identify proteins important for F. tularensis recognition by the host immune response. With our collaborators, we are using the recombination-based, Gateway system (Invitrogen, Carlsbad, CA) to clone and express approximately 2000 open reading frames (ORFs) belonging to the Type A and Type B Francisella subspecies. This strategy permits the rapid conversion of the original plasmid clone set to other functional vectors containing various promoters or tag sequences. Through further collaboration with the BCM Vaccine Treatment and Evaluation Unit (VTEU) we are using this clone set, along with the shotgun library constructed to sequence the Francisella genome, to systematically identify F. tularensis proteins recognized by the human humoral and cell-mediated immune responses. Results from this work will further characterize the human response to LVS vaccination and will lead to the development of novel F. tularensis vaccines and immunodiagnostics.

    The approaches outlined here are being adapted for additional functional genomics studies in other biodefense and emerging and infectious disease concerns to advance vaccine and diagnostic discovery in these organisms.

    Collapse Research 
    Collapse research activities and funding
    R01DK124581     (LLOYD, RICHARD E)Aug 20, 2020 - Jun 30, 2024
    Gut Viral and Bacterial Associations with Celiac Disease in the TEDDY Cohort
    Role: Co-Principal Investigator

    U19AI144297     (GIBBS, RICHARD A;PETROSINO, JOSEPH FRANK)Apr 15, 2019 - Mar 31, 2024
    Integrated Genomics of Mucosal Infections
    Role: Principal Investigator

    R56ES030221     (MOORTHY, BHAGAVATULA)Feb 1, 2019 - Jan 31, 2021
    Prenatal exposure to PAHs and hyperoxic lung injury: Role of the microbiome
    Role: Co-Principal Investigator

    R21ES029493     (PETROSINO, JOSEPH FRANK)Mar 1, 2018 - Feb 28, 2021
    Incorporating the Microbiome into DR2 Activities to Inform Health Outcomes
    Role: Principal Investigator

    R01DK109588     (GOODARZI, MARK)Apr 1, 2017 - Mar 31, 2022
    Impact of the gut microbiome and diet on change in insulin homeostasis and cardiometabolic risk
    Role: Co-Principal Investigator

    U54HG004973     (GIBBS, RICHARD A)Jun 19, 2009 - Apr 30, 2013
    A Microbial Genome Reference Platform for Metagenomics
    Role: Co-Principal Investigator

    Collapse Bibliographic 
    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
    Newest   |   Oldest   |   Most Cited   |   Most Discussed   |   Timeline   |   Field Summary   |   Plain Text
    PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Avadhanula V, Creighton C, Ferlic-Stark L, Sucgang R, Zhang Y, Nagaraj D, Nicholson E, Rajan A, Menon V, Doddapaneni H, Muzny D, Metcalf G, Cregeen SJ, Hoffman K, Gibbs R, Petrosino J, Piedra P. Longitudinal host transcriptional responses to SARS-CoV-2 infection in adults with extremely high viral load. Res Sq. 2023 Jun 05. PMID: 37333115; PMCID: PMC10274945.
    2. Carter H, Clark J, Carlin LG, Vaughan E, Rajan A, Olvera A, Yu X, Zeng XL, Kambal A, Holder M, Qin X, Gibbs RA, Petrosino JF, Muzny DM, Doddapaneni H, Menon VK, Hoffman KL, Meng Q, Ross MC, Javornik Cregeen SJ, Metcalf G, Jenq R, Blutt S, Estes MK, TMC-GCID team, Maresso A, Okhuysen PC. Functional Genomics of Gastrointestinal Escherichia coli Isolated from Patients with Cancer and Diarrhea. bioRxiv. 2023 Jun 01. PMID: 37398483; PMCID: PMC10312547.
    3. Prado C, Espinoza A, Mart?nez-Hern?ndez JE, Petrosino J, Riquelme E, Martin AJM, Pacheco R. GPR43 stimulation on TCRa?+ intraepithelial colonic lymphocytes inhibits the recruitment of encephalitogenic T-cells into the central nervous system and attenuates the development of autoimmunity. J Neuroinflammation. 2023 Jun 01; 20(1):135. PMID: 37264394; PMCID: PMC10233874.
      Citations:    Fields:    Translation:Animals
    4. Avadhanula V, Creighton CJ, Ferlic-Stark L, Sucgang R, Zhang Y, Nagaraj D, Nicholson EG, Rajan A, Menon VK, Doddapaneni H, Muzny DM, Metcalf G, Cregeen SJJ, Hoffman KL, Gibbs RA, Petrosino J, Piedra PA. Longitudinal host transcriptional responses to SARS-CoV-2 infection in adults with extremely high viral load. bioRxiv. 2023 May 25. PMID: 37292999; PMCID: PMC10245966.
    5. Di Ges? CM, Matz LM, Bolding IJ, Fultz R, Hoffman KL, Gammazza AM, Petrosino JF, Buffington SA. Maternal gut microbiota mediate intergenerational effects of high-fat diet on descendant social behavior. Cell Rep. 2023 May 30; 42(5):112498. PMID: 37133995; PMCID: PMC10399135.
      Citations:    Fields:    
    6. Dai A, Hoffman K, Xu AA, Gurwara S, White DL, Kanwal F, Jang A, El-Serag HB, Petrosino JF, Jiao L. The Association between Caffeine Intake and the Colonic Mucosa-Associated Gut Microbiota in Humans-A Preliminary Investigation. Nutrients. 2023 Apr 03; 15(7). PMID: 37049587; PMCID: PMC10096519.
      Citations: 1     Fields:    Translation:Humans
    7. Clark JR, Terwilliger A, Avadhanula V, Tisza M, Cormier J, Javornik-Cregeen S, Ross MC, Hoffman KL, Troisi C, Hanson B, Petrosino J, Balliew J, Piedra PA, Rios J, Deegan J, Bauer C, Wu F, Mena KD, Boerwinkle E, Maresso AW. Wastewater pandemic preparedness: Toward an end-to-end pathogen monitoring program. Front Public Health. 2023; 11:1137881. PMID: 37026145; PMCID: PMC10070845.
      Citations:    Fields:    Translation:HumansCellsPHPublic Health
    8. Rohr JC, Bourassa KA, Thompson DS, Fowler JC, Frueh BC, Weinstein BL, Petrosino J, Madan A. History of childhood physical abuse is associated with gut microbiota diversity among adult psychiatric inpatients. J Affect Disord. 2023 06 15; 331:50-56. PMID: 36933668; PMCID: PMC10278557.
      Citations:    Fields:    Translation:Humans
    9. Hajjar J, Voigt A, Conner M, Swennes A, Fowler S, Calarge C, Mendonca D, Armstrong D, Chang CY, Walter J, Butte M, Savidge T, Oh J, Kheradmand F, Petrosino J. Common Variable Immunodeficiency Patient Fecal Microbiota Transplant Recapitulates Gut Dysbiosis. Res Sq. 2023 Mar 13. PMID: 36993518; PMCID: PMC10055500.
    10. Piedra FA, Henke D, Rajan A, Muzny DM, Doddapaneni H, Menon VK, Hoffman KL, Ross MC, Javornik Cregeen SJ, Metcalf G, Gibbs RA, Petrosino JF, Avadhanula V, Piedra PA. Modeling nonsegmented negative-strand RNA virus (NNSV) transcription with ejective polymerase collisions and biased diffusion. Front Mol Biosci. 2022; 9:1095193. PMID: 36699700; PMCID: PMC9868645.
    11. Gitter A, Bauer C, Wu F, Ramphul R, Chavarria C, Zhang K, Petrosino J, Mezzari M, Gallegos G, Terwilliger AL, Clark JR, Feliz K, Avadhanula V, Piedra T, Weesner K, Maresso A, Mena KD. Assessment of a SARS-CoV-2 wastewater monitoring program in El Paso, Texas, from November 2020 to June 2022. Int J Environ Health Res. 2023 Jan 03; 1-11. PMID: 36595614.
      Citations: 1     Fields:    
    12. Tierney BT, Versalovic J, Fasano A, Petrosino JF, Chumpitazi BP, Mayer EA, Boetes J, Smits G, Parkar SG, Voreades N, Kartal E, Al-Ghalith GA, Pane M, Bron PA, Reid G, Dhir R, Mason CE. Functional response to a microbial synbiotic in the gastrointestinal system of children: a randomized clinical trial. Pediatr Res. 2023 Jun; 93(7):2005-2013. PMID: 36319696; PMCID: PMC10313516.
      Citations: 1     Fields:    Translation:Humans
    13. Cui J, Ramesh G, Wu M, Jensen ET, Crago O, Bertoni AG, Gao C, Hoffman KL, Sheridan PA, Wong KE, Wood AC, Chen YI, Rotter JI, Petrosino JF, Rich SS, Goodarzi MO. Butyrate-Producing Bacteria and Insulin Homeostasis: The Microbiome and Insulin Longitudinal Evaluation Study (MILES). Diabetes. 2022 11 01; 71(11):2438-2446. PMID: 35972231; PMCID: PMC9630078.
    14. Di Ges? CM, Matz LM, Bolding IJ, Fultz R, Hoffman KL, Gammazza AM, Petrosino JF, Buffington SA. Maternal gut microbiota mediate intergenerational effects of high-fat diet on descendant social behavior. Cell Rep. 2022 10 11; 41(2):111461. PMID: 36223744; PMCID: PMC9597666.
    15. Zhang J, Fan H, Gross M, Liu N, Carlson H, Wood A, Hoffman K, Petrosino J, Pankratz N, Thyagarajan B, Fisher W. Progressive reduction in circulating levels of carotenoids and other micronutrients in patients with chronic pancreatitis. Pancreatology. 2022 Dec; 22(8):1126-1133. PMID: 36198488.
    16. Finnicum CT, Rahal Z, Hassane M, Treekitkarnmongkol W, Sinjab A, Morris R, Liu Y, Tang EL, Viet S, Petersen JL, Lorenzi PL, Tan L, Petrosino J, Hoffman KL, Fujimoto J, Moghaddam SJ, Kadara H. Pathogenesis of Tobacco-Associated Lung Adenocarcinoma Is Closely Coupled with Changes in the Gut and Lung Microbiomes. Int J Mol Sci. 2022 Sep 18; 23(18). PMID: 36142843; PMCID: PMC9502774.
    17. Thompson DS, Fu C, Gandhi T, Fowler JC, Frueh BC, Weinstein BL, Petrosino J, Hadden JK, Carlson M, Coarfa C, Madan A. Differential co-expression networks of the gut microbiota are associated with depression and anxiety treatment resistance among psychiatric inpatients. Prog Neuropsychopharmacol Biol Psychiatry. 2023 01 10; 120:110638. PMID: 36122838; PMCID: PMC10278556.
    18. Karpinets TV, Wu X, Solley T, El Alam MB, Sims TT, Yoshida-Court K, Lynn E, Ahmed-Kaddar M, Biegert G, Yue J, Song X, Sun H, Petrosino JF, Mezzari MP, Okhuysen P, Eifel PJ, Jhingran A, Lin LL, Schmeler KM, Ramondetta L, Ajami N, Jenq RR, Futreal A, Zhang J, Klopp AH, Colbert LE. Metagenomes of rectal swabs in larger, advanced stage cervical cancers have enhanced mucus degrading functionalities and distinct taxonomic structure. BMC Cancer. 2022 Sep 01; 22(1):945. PMID: 36050658; PMCID: PMC9438314.
    19. Li-Gao R, Grubbs K, Bertoni AG, Hoffman KL, Petrosino JF, Ramesh G, Wu M, Rotter JI, Chen YI, Evans AM, Robinson RJ, Sommerville L, Mook-Kanamori D, Goodarzi MO, Michelotti GA, Sheridan PA. The Roles of Gut Microbiome and Plasma Metabolites in the Associations between ABO Blood Groups and Insulin Homeostasis: The Microbiome and Insulin Longitudinal Evaluation Study (MILES). Metabolites. 2022 Aug 25; 12(9). PMID: 36144194; PMCID: PMC9505353.
    20. Waldron RT, Jones EK, Anani VI, Hines JM, Zhao J, Lugea A, Diniz MA, Kim S, Habtezion A, Hoffman KL, Petrosino JF, Fisher WE, Li L, Lennon RJ, Singh RJ, Vege SS, Pandol SJ, Topazian MD. Salivary Biomarker Evaluation of Chronic Pancreatitis Patients Reveals Alterations in Human Proteins, Cytokines, Prostaglandin E2 Levels, and Bacterial Diversity. Pancreas. 2022 08 01; 51(7):723-732. PMID: 36395395; PMCID: PMC9681020.
      Citations:    Fields:    Translation:Humans
    21. Xu AA, Kennedy LK, Hoffman K, White DL, Kanwal F, El-Serag HB, Petrosino JF, Jiao L. Dietary Fatty Acid Intake and the Colonic Gut Microbiota in Humans. Nutrients. 2022 Jun 29; 14(13). PMID: 35807903; PMCID: PMC9268849.
      Citations:    Fields:    Translation:HumansAnimalsCells
    22. Auchtung TA, Stewart CJ, Smith DP, Triplett EW, Hagopian WA, Rewers MJ, She JX, Toppari J, Akolkar B, Krischer JP, Vehik K, Auchtung JM, Ajami NJ, Petrosino JF, Agardh D, Ziegler AG, Lernmark ?. Temporal changes in gastrointestinal fungi and the risk of autoimmunity during early childhood: the TEDDY study. Nat Commun. 2022 06 07; 13(1):3151. PMID: 35672407; PMCID: PMC9174155.
      Citations:    Fields:    Translation:HumansAnimalsCells
    23. Shi H, Nelson JW, Phillips S, Petrosino JF, Bryan RM, Durgan DJ. Alterations of the gut microbial community structure and function with aging in the spontaneously hypertensive stroke prone rat. Sci Rep. 2022 05 20; 12(1):8534. PMID: 35595870; PMCID: PMC9122926.
      Citations: 1     Fields:    Translation:Animals
    24. Lin D, El Alam MB, Jaoude JA, Kouzy R, Phan JL, Elnaggar JH, Resendiz B, Medrano AYD, Lynn EJ, Nguyen ND, Noticewala SS, Mathew GG, Holliday EB, Minsky BD, Das P, Morris VK, Eng C, Mezzari MP, Petrosino JF, Ajami NJ, Klopp AH, Taniguchi CM, Colbert LE. Microbiome Dynamics During Chemoradiation Therapy for Anal Cancer. Int J Radiat Oncol Biol Phys. 2022 08 01; 113(5):974-984. PMID: 35513187.
      Citations:    Fields:    Translation:Humans
    25. Rajan A, Aideyan L, McBride T, Robertson M, Johnson HL, Aloisio GM, Henke D, Coarfa C, Stossi F, Menon VK, Doddapaneni H, Muzny DM, Javornik Cregeen SJ, Hoffman KL, Petrosino J, Gibbs RA, Avadhanula V, Piedra PA, Piedra FA. Multiple Respiratory Syncytial Virus (RSV) Strains Infecting HEp-2 and A549 Cells Reveal Cell Line-Dependent Differences in Resistance to RSV Infection. J Virol. 2022 04 13; 96(7):e0190421. PMID: 35285685; PMCID: PMC9006923.
      Citations: 1     Fields:    Translation:HumansCells
    26. Menon VK, Okhuysen PC, Chappell CL, Mahmoud M, Mahmoud M, Meng Q, Doddapaneni H, Vee V, Han Y, Salvi S, Bhamidipati S, Kottapalli K, Weissenberger G, Shen H, Ross MC, Hoffman KL, Cregeen SJ, Muzny DM, Metcalf GA, Gibbs RA, Petrosino JF, Sedlazeck FJ. Fully resolved assembly of Cryptosporidium parvum. Gigascience. 2022 02 15; 11. PMID: 35166336; PMCID: PMC8848321.
      Citations:    Fields:    Translation:HumansAnimals
    27. Ghare S, Singhal R, Bryant V, Gautam S, Tirumala CC, Srisailam PK, Reyes-Vega A, Ghooray D, McClain CJ, Hoffman K, Petrosino J, Bryant K, Govind V, Cohen R, Cook RL, Barve S. Age-Associated Gut Dysbiosis, Marked by Loss of Butyrogenic Potential, Correlates With Altered Plasma Tryptophan Metabolites in Older People Living With HIV. J Acquir Immune Defic Syndr. 2022 02 01; 89(Suppl 1):S56-S64. PMID: 35015746; PMCID: PMC8751293.
      Citations:    Fields:    Translation:Humans
    28. Spencer CN, McQuade JL, Gopalakrishnan V, McCulloch JA, Vetizou M, Cogdill AP, Khan MAW, Zhang X, White MG, Peterson CB, Wong MC, Morad G, Rodgers T, Badger JH, Helmink BA, Andrews MC, Rodrigues RR, Morgun A, Kim YS, Roszik J, Hoffman KL, Zheng J, Zhou Y, Medik YB, Kahn LM, Johnson S, Hudgens CW, Wani K, Gaudreau PO, Harris AL, Jamal MA, Baruch EN, Perez-Guijarro E, Day CP, Merlino G, Pazdrak B, Lochmann BS, Szczepaniak-Sloane RA, Arora R, Anderson J, Zobniw CM, Posada E, Sirmans E, Simon J, Haydu LE, Burton EM, Wang L, Dang M, Clise-Dwyer K, Schneider S, Chapman T, Anang NAS, Duncan S, Toker J, Malke JC, Glitza IC, Amaria RN, Tawbi HA, Diab A, Wong MK, Patel SP, Woodman SE, Davies MA, Ross MI, Gershenwald JE, Lee JE, Hwu P, Jensen V, Samuels Y, Straussman R, Ajami NJ, Nelson KC, Nezi L, Petrosino JF, Futreal PA, Lazar AJ, Hu J, Jenq RR, Tetzlaff MT, Yan Y, Garrett WS, Huttenhower C, Sharma P, Watowich SS, Allison JP, Cohen L, Trinchieri G, Daniel CR, Wargo JA. Dietary fiber and probiotics influence the gut microbiome and melanoma immunotherapy response. Science. 2021 Dec 24; 374(6575):1632-1640. PMID: 34941392; PMCID: PMC8970537.
      Citations: 31     Fields:    Translation:HumansAnimalsCells
    29. Masi AC, Fofanova TY, Lamb CA, Auchtung JM, Britton RA, Estes MK, Ramani S, Cockell SJ, Coxhead J, Embleton ND, Berrington JE, Petrosino JF, Stewart CJ. Distinct gene expression profiles between human preterm-derived and adult-derived intestinal organoids exposed to Enterococcus faecalis: a pilot study. Gut. 2021 Dec 17. PMID: 34921063; PMCID: PMC9231289.
      Citations:    Fields:    
    30. Petrova E, Farinholt T, Joshi TP, Moreno H, Al Mohajer M, Patel SM, Petrosino J, Anandasabapathy S. A Community-Based Management of COVID-19 in a Mobile Container Unit. Vaccines (Basel). 2021 Nov 19; 9(11). PMID: 34835293; PMCID: PMC8624920.
    31. Essigmann HT, Hoffman KL, Petrosino JF, Jun G, Aguilar D, Hanis CL, DuPont HL, Brown EL. The impact of the Th17:Treg axis on the IgA-Biome across the glycemic spectrum. PLoS One. 2021; 16(10):e0258812. PMID: 34669745; PMCID: PMC8528330.
      Citations:    Fields:    Translation:HumansCells
    32. Criss ZK, Bhasin N, Di Rienzi SC, Rajan A, Deans-Fielder K, Swaminathan G, Kamyabi N, Zeng XL, Doddapaneni H, Menon VK, Chakravarti D, Estrella C, Yu X, Patil K, Petrosino JF, Fleet JC, Verzi MP, Christakos S, Helmrath MA, Arimura S, DePinho RA, Britton RA, Maresso AW, Grande-Allen KJ, Blutt SE, Crawford SE, Estes MK, Ramani S, Shroyer NF. Drivers of transcriptional variance in human intestinal epithelial organoids. Physiol Genomics. 2021 11 01; 53(11):486-508. PMID: 34612061; PMCID: PMC8616596.
      Citations: 3     Fields:    Translation:HumansCells
    33. Farinholt T, Doddapaneni H, Qin X, Menon V, Meng Q, Metcalf G, Chao H, Gingras MC, Avadhanula V, Farinholt P, Agrawal C, Muzny DM, Piedra PA, Gibbs RA, Petrosino J. Transmission event of SARS-CoV-2 delta variant reveals multiple vaccine breakthrough infections. BMC Med. 2021 10 01; 19(1):255. PMID: 34593004; PMCID: PMC8483940.
      Citations: 73     Fields:    Translation:HumansCells
    34. Vitko D, McQuaid JW, Gheinani AH, Hasegawa K, DiMartino S, Davis KH, Chung CY, Petrosino JF, Adam RM, Mansbach JM, Lee RS. Urinary Tract Infections in Children with Vesicoureteral Reflux Are Accompanied by Alterations in Urinary Microbiota and Metabolome Profiles. Eur Urol. 2022 02; 81(2):151-154. PMID: 34538688.
      Citations: 1     Fields:    Translation:Humans
    35. Greathouse KL, Padgett RN, Petrosino J, Hastings-Tolsma M, Faucher MA. Exploration of Diet Quality by Obesity Severity in Association with Gestational Weight Gain and Distal Gut Microbiota in Pregnant African American Women: Opportunities for Intervention. Matern Child Health J. 2022 Apr; 26(4):882-894. PMID: 34462812.
      Citations:    Fields:    Translation:HumansAnimals
    36. Doddapaneni H, Cregeen SJ, Sucgang R, Meng Q, Qin X, Avadhanula V, Chao H, Menon V, Nicholson E, Henke D, Piedra FA, Rajan A, Momin Z, Kottapalli K, Hoffman KL, Sedlazeck FJ, Metcalf G, Piedra PA, Muzny DM, Petrosino JF, Gibbs RA. Oligonucleotide capture sequencing of the SARS-CoV-2 genome and subgenomic fragments from COVID-19 individuals. PLoS One. 2021; 16(8):e0244468. PMID: 34432798; PMCID: PMC8386831.
      Citations: 8     Fields:    Translation:HumansCells
    37. Farinholt T, Doddapaneni H, Qin X, Menon V, Meng Q, Metcalf G, Chao H, Gingras MC, Farinholt P, Agrawal C, Muzny DM, Piedra PA, Gibbs RA, Petrosino J. Transmission event of SARS-CoV-2 Delta variant reveals multiple vaccine breakthrough infections. medRxiv. 2021 Jul 12. PMID: 34268529; PMCID: PMC8282118.
      Citations: 2     
    38. Andrews MC, Duong CPM, Gopalakrishnan V, Iebba V, Chen WS, Derosa L, Khan MAW, Cogdill AP, White MG, Wong MC, Ferrere G, Roberti MP, Opolon P, Alou MT, Yonekura S, Roh W, Spencer CN, Curbelo IF, Vence L, Reuben A, Johnson S, Arora R, Morad G, Lastrapes M, Baruch EN, Little L, Gumbs C, Cooper ZA, Prieto PA, Wani K, Lazar AJ, Tetzlaff MT, Hudgens CW, Callahan MK, Adamow M, Postow MA, Ariyan CE, Gaudreau PO, Nezi L, Mihalcioiu C, Elkrief A, Pezo RC, Haydu LE, Simon JM, Tawbi HA, McQuade J, Hwu P, Hwu WJ, Amaria RN, Burton EM, Woodman SE, Watowich S, Diab A, Patel SP, Glitza IC, Wong MK, Zhao L, Zhang J, Ajami NJ, Petrosino J, Jenq RR, Davies MA, Gershenwald JE, Futreal PA, Sharma P, Allison JP, Routy B, Zitvogel L, Wargo JA, Fluckiger A, Raoult D. Gut microbiota signatures are associated with toxicity to combined CTLA-4 and PD-1 blockade. Nat Med. 2021 08; 27(8):1432-1441. PMID: 34239137.
      Citations: 39     Fields:    Translation:HumansAnimalsCells
    39. Jiao L, Kourkoumpetis T, Hutchinson D, Ajami NJ, Hoffman K, White DL, Graham DY, Hair C, Shah R, Kanwal F, Jarbrink-Sehgal M, Husain N, Hernaez R, Hou J, Cole R, Velez M, Ketwaroo G, Kramer J, El-Serag HB, Petrosino JF. Spatial Characteristics of Colonic Mucosa-Associated Gut Microbiota in Humans. Microb Ecol. 2022 Apr; 83(3):811-821. PMID: 34223947.
      Citations: 1     Fields:    Translation:HumansCells
    40. Agrawal R, Ajami NJ, Malhotra S, Chen L, White DL, Sharafkhaneh A, Hoffman KL, Graham DY, El-Serag HB, Petrosino JF, Jiao L. Habitual Sleep Duration and the Colonic Mucosa-Associated Gut Microbiota in Humans-A Pilot Study. Clocks Sleep. 2021 Jul 01; 3(3):387-397. PMID: 34287254; PMCID: PMC8293063.
      Citations: 4     
    41. Britto SL, Hoffman KL, Tessier ME, Petrosino J, Miloh T, Kellermayer R. Microbiome Responses to Vancomycin Treatment in a Child With Primary Sclerosing Cholangitis and Ulcerative Colitis. ACG Case Rep J. 2021 May; 8(5):e00577. PMID: 33997090; PMCID: PMC8116036.
    42. Biegert G, El Alam MB, Karpinets T, Wu X, Sims TT, Yoshida-Court K, Lynn EJ, Yue J, Medrano AD, Petrosino J, Mezzari MP, Ajami NJ, Solley T, Ahmed-Kaddar M, Klopp AH, Colbert LE. Diversity and composition of gut microbiome of cervical cancer patients: Do results of 16S rRNA sequencing and whole genome sequencing approaches align? J Microbiol Methods. 2021 06; 185:106213. PMID: 33785357; PMCID: PMC9157377.
      Citations:    Fields:    Translation:HumansCells
    43. Sims TT, El Alam MB, Karpinets TV, Dorta-Estremera S, Hegde VL, Nookala S, Yoshida-Court K, Wu X, Biegert GWG, Delgado Medrano AY, Solley T, Ahmed-Kaddar M, Chapman BV, Sastry KJ, Mezzari MP, Petrosino JF, Lin LL, Ramondetta L, Jhingran A, Schmeler KM, Ajami NJ, Wargo J, Colbert LE, Klopp AH. Gut microbiome diversity is an independent predictor of survival in cervical cancer patients receiving chemoradiation. Commun Biol. 2021 02 22; 4(1):237. PMID: 33619320; PMCID: PMC7900251.
      Citations: 17     Translation:HumansCells
    44. Shi H, Zhang B, Abo-Hamzy T, Nelson JW, Ambati CSR, Petrosino JF, Bryan RM, Durgan DJ. Restructuring the Gut Microbiota by Intermittent Fasting Lowers Blood Pressure. Circ Res. 2021 04 30; 128(9):1240-1254. PMID: 33596669; PMCID: PMC8085162.
      Citations: 11     Fields:    Translation:Animals
    45. Smith DP, Mezzari MP, Petrosino JF, do Nascimento WM, Machiavelli A, Ferreira LGE, Cruz Silveira L, de Azevedo SSD, Bello G, Delgado Duarte RT, Z?rate-Blad?s CR, Pinto AR. Gut Microbiome Profiles and Associated Metabolic Pathways in HIV-Infected Treatment-Na?ve Patients. Cells. 2021 02 13; 10(2). PMID: 33668457; PMCID: PMC7917727.
      Citations: 1     Fields:    Translation:HumansCells
    46. Nelson JW, Phillips SC, Ganesh BP, Petrosino JF, Durgan DJ, Bryan RM. The gut microbiome contributes to blood-brain barrier disruption in spontaneously hypertensive stroke prone rats. FASEB J. 2021 02; 35(2):e21201. PMID: 33496989; PMCID: PMC8238036.
      Citations: 5     Fields:    Translation:Animals
    47. Matz LM, Petrosino JF. A study of innate immune kinetics reveals a role for a chloride transporter in a virulent Francisella tularensis type B strain. Microbiologyopen. 2021 02; 10(2):e1170. PMID: 33970545; PMCID: PMC8483402.
      Citations:    Fields:    Translation:HumansAnimalsCells
    48. Hoffman KL, Pfirrmann M, Hofelich A, Halfter K, Petrosino JF, Bonifacio E, Assfalg R, Knoop J, Zapardiel-Gonzalo JM, Eugster A, Weigelt M, Matzke C, Reinhardt J, Fuchs Y, Bunk M, Weiss A, Hippich M, Hauck SM, Hasford J, Achenbach P, Ziegler AG. Oral insulin immunotherapy in children at risk for type 1 diabetes in a randomised controlled trial. Diabetologia. 2021 05; 64(5):1079-1092. PMID: 33515070; PMCID: PMC8012335.
      Citations: 7     Fields:    Translation:HumansPHPublic HealthCTClinical Trials
    49. Oluyomi AO, Panthagani K, Sotelo J, Gu X, Armstrong G, Luo DN, Hoffman KL, Rohlman D, Tidwell L, Hamilton WJ, Symanski E, Anderson K, Petrosino JF, Walker CL, Bondy M. Houston hurricane Harvey health (Houston-3H) study: assessment of allergic symptoms and stress after hurricane Harvey flooding. Environ Health. 2021 01 19; 20(1):9. PMID: 33468146; PMCID: PMC7816385.
      Citations: 6     Fields:    Translation:HumansPHPublic Health
    50. Taylor JC, Gao X, Xu J, Holder M, Petrosino J, Kumar R, Liu W, Mackenzie C, Hillhouse A, Brashear W, Nunez MP, Xu Y, H??k M. A type VII secretion system of Streptococcus gallolyticus subsp. gallolyticus contributes to gut colonization and the development of colon tumors. PLoS Pathog. 2021 01; 17(1):e1009182. PMID: 33406160; PMCID: PMC7815207.
      Citations: 8     Fields:    Translation:HumansAnimalsCells
    51. LaPelusa M, Donoviel D, Branzini SE, Carlson PE, Culler S, Cheema AK, Kaddurah-Daouk R, Kelly D, de Cremoux I, Knight R, Krajmalnik-Brown R, Mayo SL, Mazmanian SK, Mayer EA, Petrosino JF, Garrison K. Microbiome for Mars: surveying microbiome connections to healthcare with implications for long-duration human spaceflight, virtual workshop, July 13, 2020. Microbiome. 2021 01 04; 9(1):2. PMID: 33397500; PMCID: PMC7781430.
      Citations: 3     Fields:    Translation:HumansAnimals
    52. Singhal R, Donde H, Ghare S, Stocke K, Zhang J, Vadhanam M, Reddy S, Gobejishvili L, Chilton P, Joshi-Barve S, Feng W, McClain C, Hoffman K, Petrosino J, Vital M, Barve S. Decrease in acetyl-CoA pathway utilizing butyrate-producing bacteria is a key pathogenic feature of alcohol-induced functional gut microbial dysbiosis and development of liver disease in mice. Gut Microbes. 2021 Jan-Dec; 13(1):1946367. PMID: 34369304; PMCID: PMC8354657.
      Citations: 6     Fields:    Translation:HumansAnimalsCells
    53. Masi AC, Embleton ND, Lamb CA, Young G, Granger CL, Najera J, Smith DP, Hoffman KL, Petrosino JF, Bode L, Berrington JE, Stewart CJ. Human milk oligosaccharide DSLNT and gut microbiome in preterm infants predicts necrotising enterocolitis. Gut. 2021 12; 70(12):2273-2282. PMID: 33328245; PMCID: PMC9231288.
      Citations: 25     Fields:    Translation:Humans
    54. Chumpitazi BP, Hoffman KL, Smith DP, McMeans AR, Musaad S, Versalovic J, Petrosino JF, Shulman RJ. Fructan-sensitive children with irritable bowel syndrome have distinct gut microbiome signatures. Aliment Pharmacol Ther. 2021 02; 53(4):499-509. PMID: 33314183; PMCID: PMC8281336.
      Citations: 4     Fields:    Translation:HumansCells
    55. Doddapaneni H, Cregeen SJ, Sucgang R, Meng Q, Qin X, Avadhanula V, Chao H, Menon V, Nicholson E, Henke D, Piedra FA, Rajan A, Momin Z, Kottapalli K, Hoffman KL, Sedlazeck FJ, Metcalf G, Piedra PA, Muzny DM, Petrosino JF, Gibbs RA. Oligonucleotide Capture Sequencing of the SARS-CoV-2 Genome and Subgenomic Fragments from COVID-19 Individuals. bioRxiv. 2020 Dec 11. PMID: 33330863; PMCID: PMC7743067.
    56. Zhang X, Hoffman KL, Wei P, Elhor Gbito KY, Joseph R, Li F, Scheet P, Chang S, Petrosino JF, Daniel CR. Baseline Oral Microbiome and All-cancer Incidence in a Cohort of Nonsmoking Mexican American Women. Cancer Prev Res (Phila). 2021 03; 14(3):383-392. PMID: 33277317; PMCID: PMC8137515.
      Citations: 1     Fields:    Translation:HumansCells
    57. Santiago-Rodriguez TM, Garoutte A, Adams E, Nasser W, Ross MC, La Reau A, Henseler Z, Ward T, Knights D, Petrosino JF, Hollister EB. Metagenomic Information Recovery from Human Stool Samples Is Influenced by Sequencing Depth and Profiling Method. Genes (Basel). 2020 11 21; 11(11). PMID: 33233349; PMCID: PMC7700633.
      Citations: 2     Fields:    Translation:HumansCells
    58. Brown EL, Essigmann HT, Hoffman KL, Palm NW, Gunter SM, Sederstrom JM, Petrosino JF, Jun G, Aguilar D, Perkison WB, Hanis CL, DuPont HL. Impact of Diabetes on the Gut and Salivary IgA Microbiomes. Infect Immun. 2020 11 16; 88(12). PMID: 32900816; PMCID: PMC7671898.
      Citations: 3     Fields:    Translation:HumansCells
    59. Rajan A, Robertson MJ, Carter HE, Poole NM, Clark JR, Green SI, Criss ZK, Zhao B, Karandikar U, Xing Y, Jain N, Wilson RL, Bai F, Hyser JM, Petrosino J, Shroyer NF, Blutt SE, Coarfa C, Song X, Prasad BV, Amieva MR, Grande-Allen J, Estes MK, Okhuysen PC, Maresso AW, Margalef-Catal? M. Enteroaggregative E. coli Adherence to Human Heparan Sulfate Proteoglycans Drives Segment and Host Specific Responses to Infection. PLoS Pathog. 2020 09; 16(9):e1008851. PMID: 32986782; PMCID: PMC7553275.
      Citations: 12     Fields:    Translation:HumansCells
    60. Xu AA, Hoffman K, Gurwara S, White DL, Kanwal F, El-Serag HB, Petrosino JF, Jiao L. Oral Health and the Altered Colonic Mucosa-Associated Gut Microbiota. Dig Dis Sci. 2021 09; 66(9):2981-2991. PMID: 32974807; PMCID: PMC7987909.
      Citations: 1     Fields:    Translation:Humans
    61. Gurwara S, Dai A, Ajami NJ, Graham DY, White DL, Chen L, Jang A, Chen E, El-Serag HB, Petrosino JF, Jiao L. Alcohol use alters the colonic mucosa-associated gut microbiota in humans. Nutr Res. 2020 11; 83:119-128. PMID: 33096423; PMCID: PMC7669629.
      Citations: 6     Fields:    Translation:HumansCells
    62. Toivonen L, Karppinen S, Schuez-Havupalo L, Waris M, He Q, Hoffman KL, Petrosino JF, Dumas O, Camargo CA, Hasegawa K, Peltola V. Longitudinal Changes in Early Nasal Microbiota and the Risk of Childhood Asthma. Pediatrics. 2020 10; 146(4). PMID: 32934151.
      Citations: 5     Fields:    Translation:HumansCells
    63. Karpinets TV, Solley TN, Mikkelson MD, Dorta-Estremera S, Nookala SS, Medrano AYD, Petrosino JF, Mezzari MP, Zhang J, Futreal PA, Sastry KJ, Colbert LE, Klopp A. Effect of Antibiotics on Gut and Vaginal Microbiomes Associated with Cervical Cancer Development in Mice. Cancer Prev Res (Phila). 2020 12; 13(12):997-1006. PMID: 32917644.
      Citations:    Fields:    Translation:AnimalsCells
    64. Lee J, Venna VR, Durgan DJ, Shi H, Hudobenko J, Putluri N, Petrosino J, McCullough LD, Bryan RM. Young versus aged microbiota transplants to germ-free mice: increased short-chain fatty acids and improved cognitive performance. Gut Microbes. 2020 11 09; 12(1):1-14. PMID: 32897773; PMCID: PMC7757789.
      Citations: 20     Fields:    Translation:AnimalsCells
    65. Jensen ET, Bertoni AG, Crago OL, Hoffman KL, Wood AC, Arzumanyan Z, Lam LK, Roll K, Sandow K, Wu M, Rich SS, Rotter JI, Chen YI, Petrosino JF, Goodarzi MO. Rationale, design and baseline characteristics of the Microbiome and Insulin Longitudinal Evaluation Study (MILES). Diabetes Obes Metab. 2020 11; 22(11):1976-1984. PMID: 32687239; PMCID: PMC8444996.
      Citations: 4     Fields:    Translation:Humans
    66. Doddapaneni H, Cregeen SJ, Sucgang R, Meng Q, Qin X, Avadhanula V, Chao H, Menon V, Nicholson E, Henke D, Piedra FA, Rajan A, Momin Z, Kottapalli K, Hoffman KL, Sedlazeck FJ, Metcalf G, Piedra PA, Muzny DM, Petrosino JF, Gibbs RA. Oligonucleotide capture sequencing of the SARS-CoV-2 genome and subgenomic fragments from COVID-19 individuals. bioRxiv. 2020 Jul 27. PMID: 32766579; PMCID: PMC7402036.
    67. Sims TT, Biegert GWG, Ramogola-Masire D, Ngoni K, Solley T, Ning MS, El Alam MB, Mezzari M, Petrosino J, Zetola NM, Schmeler KM, Colbert LE, Klopp AH, Grover S. Tumor microbial diversity and compositional differences among women in Botswana with high-grade cervical dysplasia and cervical cancer. Int J Gynecol Cancer. 2020 08; 30(8):1151-1156. PMID: 32675252; PMCID: PMC7893836.
      Citations:    Fields:    Translation:HumansCells
    68. Tessier MEM, Cavallo L, Yeh J, Harpavat S, Hoffman KL, Petrosino JF, Shneider BL. The Fecal Microbiome in Infants With Biliary Atresia Associates With Bile Flow After Kasai Portoenterostomy. J Pediatr Gastroenterol Nutr. 2020 06; 70(6):789-795. PMID: 32443032.
      Citations: 5     Fields:    Translation:Humans
    69. Zheng J, Hoffman KL, Chen JS, Shivappa N, Sood A, Browman GJ, Dirba DD, Hanash S, Wei P, Hebert JR, Petrosino JF, Schembre SM, Daniel CR. Dietary inflammatory potential in relation to the gut microbiome: results from a cross-sectional study. Br J Nutr. 2020 11 14; 124(9):931-942. PMID: 32475373; PMCID: PMC7554089.
      Citations: 14     Fields:    Translation:Humans
    70. Coy SR, Gann ER, Papoulis SE, Holder ME, Ajami NJ, Petrosino JF, Zinser ER, Van Etten JL, Wilhelm SW. SMRT Sequencing of Paramecium Bursaria Chlorella Virus-1 Reveals Diverse Methylation Stability in Adenines Targeted by Restriction Modification Systems. Front Microbiol. 2020; 11:887. PMID: 32508769; PMCID: PMC7248222.
      Citations: 3     
    71. Engevik MA, Banks LD, Engevik KA, Chang-Graham AL, Perry JL, Hutchinson DS, Ajami NJ, Petrosino JF, Hyser JM. Rotavirus infection induces glycan availability to promote ileum-specific changes in the microbiome aiding rotavirus virulence. Gut Microbes. 2020 09 02; 11(5):1324-1347. PMID: 32404017; PMCID: PMC7524290.
      Citations: 18     Fields:    Translation:AnimalsCells
    72. Lee J, d'Aigle J, Atadja L, Quaicoe V, Honarpisheh P, Ganesh BP, Hassan A, Graf J, Petrosino J, Putluri N, Zhu L, Durgan DJ, Bryan RM, McCullough LD, Venna VR. Gut Microbiota-Derived Short-Chain Fatty Acids Promote Poststroke Recovery in Aged Mice. Circ Res. 2020 07 31; 127(4):453-465. PMID: 32354259; PMCID: PMC7415518.
      Citations: 70     Fields:    Translation:AnimalsCells
    73. Byrd DA, Sinha R, Hoffman KL, Chen J, Hua X, Shi J, Chia N, Petrosino J, Vogtmann E. Comparison of Methods To Collect Fecal Samples for Microbiome Studies Using Whole-Genome Shotgun Metagenomic Sequencing. mSphere. 2020 02 26; 5(1). PMID: 32250964; PMCID: PMC7045388.
      Citations: 8     Fields:    Translation:HumansCells
    74. Wong MC, Javornik Cregeen SJ, Ajami NJ, Petrosino JF. Evidence of recombination in coronaviruses implicating pangolin origins of nCoV-2019. bioRxiv. 2020 Feb 13. PMID: 32511310; PMCID: PMC7217297.
    75. Mindikoglu AL, Abdulsada MM, Jain A, Choi JM, Jalal PK, Devaraj S, Mezzari MP, Petrosino JF, Opekun AR, Jung SY. Intermittent fasting from dawn to sunset for 30 consecutive days is associated with anticancer proteomic signature and upregulates key regulatory proteins of glucose and lipid metabolism, circadian clock, DNA repair, cytoskeleton remodeling, immune system and cognitive function in healthy subjects. J Proteomics. 2020 04 15; 217:103645. PMID: 31927066; PMCID: PMC7429999.
      Citations: 11     Fields:    Translation:HumansAnimalsCells
    76. Simione M, Harshman SG, Castro I, Linnemann R, Roche B, Ajami NJ, Petrosino JF, Raspini B, Portale S, Camargo CA, Taveras EM, Hasegawa K, Fiechtner L. Maternal Fish Consumption in Pregnancy Is Associated with a Bifidobacterium-Dominant Microbiome Profile in Infants. Curr Dev Nutr. 2020 Jan; 4(1):nzz133. PMID: 31875205; PMCID: PMC6923185.
      Citations: 5     
    77. Zhang X, Browman G, Siu W, Basen-Engquist KM, Hanash SM, Hoffman KL, Okhuysen PC, Scheet P, Petrosino JF, Kopetz S, Daniel CR. The BE GONE trial study protocol: a randomized crossover dietary intervention of dry beans targeting the gut microbiome of overweight and obese patients with a history of colorectal polyps or cancer. BMC Cancer. 2019 Dec 18; 19(1):1233. PMID: 31852462; PMCID: PMC6921460.
      Citations: 3     Fields:    Translation:HumansCTClinical Trials
    78. Paul AA, Hoffman KL, Hagan JL, Sampath V, Petrosino JF, Pammi M. Fungal cutaneous microbiome and host determinants in preterm and term neonates. Pediatr Res. 2020 08; 88(2):225-233. PMID: 31816621.
      Citations: 4     Fields:    Translation:HumansAnimals
    79. Vehik K, Lynch KF, Wong MC, Tian X, Ross MC, Gibbs RA, Ajami NJ, Petrosino JF, Rewers M, Toppari J, She JX, Akolkar B, Hagopian WA, Schatz DA, Krischer JP, Lloyd RE, TEDDY Study Group, Ziegler AG, Lernmark A, Hy?ty H. Prospective virome analyses in young children at increased genetic risk for type 1 diabetes. Nat Med. 2019 12; 25(12):1865-1872. PMID: 31792456; PMCID: PMC6898786.
      Citations: 70     Fields:    Translation:HumansCells
    80. Lindfors K, Lin J, Lee HS, Nykter M, Kurppa K, Liu E, Koletzko S, Rewers M, Hagopian W, Toppari J, Akolkar B, Krischer JP, Petrosino JF, Lloyd RE, Agardh D, TEDDY Study Group, Hy?ty H, Ziegler AG. Metagenomics of the faecal virome indicate a cumulative effect of enterovirus and gluten amount on the risk of coeliac disease autoimmunity in genetically at risk children: the TEDDY study. Gut. 2020 08; 69(8):1416-1422. PMID: 31744911; PMCID: PMC7234892.
      Citations: 28     Fields:    Translation:HumansCells
    81. Mansbach JM, Luna PN, Shaw CA, Hasegawa K, Petrosino JF, Piedra PA, Sullivan AF, Espinola JA, Stewart CJ, Camargo CA. Increased Moraxella and Streptococcus species abundance after severe bronchiolitis is associated with recurrent wheezing. J Allergy Clin Immunol. 2020 02; 145(2):518-527.e8. PMID: 31738994; PMCID: PMC7010548.
      Citations: 23     Fields:    Translation:HumansCells
    82. Liu Y, Ajami NJ, El-Serag HB, Hair C, Graham DY, White DL, Chen L, Wang Z, Plew S, Kramer J, Cole R, Hernaez R, Hou J, Husain N, Jarbrink-Sehgal ME, Kanwal F, Ketwaroo G, Natarajan Y, Shah R, Velez M, Mallepally N, Petrosino JF, Jiao L. Dietary quality and the colonic mucosa-associated gut microbiome in humans. Am J Clin Nutr. 2019 09 01; 110(3):701-712. PMID: 31291462; PMCID: PMC6736447.
      Citations: 32     Fields:    Translation:HumansCells
    83. Riquelme E, Zhang Y, Zhang L, Montiel M, Zoltan M, Dong W, Quesada P, Sahin I, Chandra V, San Lucas A, Scheet P, Xu H, Hanash SM, Feng L, Burks JK, Do KA, Peterson CB, Nejman D, Tzeng CD, Kim MP, Sears CL, Ajami N, Petrosino J, Wood LD, Maitra A, Straussman R, Katz M, White JR, Jenq R, Wargo J, McAllister F. Tumor Microbiome Diversity and Composition Influence Pancreatic Cancer Outcomes. Cell. 2019 08 08; 178(4):795-806.e12. PMID: 31398337; PMCID: PMC7288240.
      Citations: 280     Fields:    Translation:HumansAnimalsCells
    84. Faucher MA, Greathouse KL, Hastings-Tolsma M, Padgett RN, Sakovich K, Choudhury A, Sheikh A, Ajami NJ, Petrosino JF. Exploration of the Vaginal and Gut Microbiome in African American Women by Body Mass Index, Class of Obesity, and Gestational Weight Gain: A Pilot Study. Am J Perinatol. 2020 09; 37(11):1160-1172. PMID: 31242511.
      Citations: 5     Fields:    Translation:HumansCells
    85. Curtis K, Stewart CJ, Robinson M, Molfese DL, Gosnell SN, Kosten TR, Petrosino JF, De La Garza R, Salas R. Insular resting state functional connectivity is associated with gut microbiota diversity. Eur J Neurosci. 2019 08; 50(3):2446-2452. PMID: 30554441; PMCID: PMC6697239.
      Citations: 13     Fields:    Translation:Humans
    86. Lloyd-Price J, Arze C, Ananthakrishnan AN, Schirmer M, Avila-Pacheco J, Poon TW, Andrews E, Ajami NJ, Bonham KS, Brislawn CJ, Casero D, Courtney H, Gonzalez A, Graeber TG, Hall AB, Lake K, Landers CJ, Mallick H, Plichta DR, Prasad M, Rahnavard G, Sauk J, Shungin D, White RA, IBDMDB Investigators, Braun J, Denson LA, Jansson JK, Knight R, Kugathasan S, McGovern DPB, Petrosino JF, Stappenbeck TS, Winter HS, Clish CB, Franzosa EA, Vlamakis H, Xavier RJ, Huttenhower C, V?zquez-Baeza Y. Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases. Nature. 2019 05; 569(7758):655-662. PMID: 31142855; PMCID: PMC6650278.
      Citations: 524     Fields:    Translation:HumansAnimalsCells
    87. Stewart CJ, Mansbach JM, Ajami NJ, Petrosino JF, Zhu Z, Liang L, Camargo CA, Hasegawa K. Serum Metabolome Is Associated With the Nasopharyngeal Microbiota and Disease Severity Among Infants With Bronchiolitis. J Infect Dis. 2019 05 24; 219(12):2005-2014. PMID: 30629185; PMCID: PMC6534192.
      Citations: 13     Fields:    Translation:Humans
    88. Toivonen L, Hasegawa K, Waris M, Ajami NJ, Petrosino JF, Camargo CA, Peltola V. Early nasal microbiota and acute respiratory infections during the first years of life. Thorax. 2019 06; 74(6):592-599. PMID: 31076501.
      Citations: 19     Fields:    Translation:HumansCells
    89. Mansbach JM, Hasegawa K, Piedra PA, Avadhanula V, Petrosino JF, Sullivan AF, Espinola JA, Camargo CA. Haemophilus-Dominant Nasopharyngeal Microbiota Is Associated With Delayed Clearance of Respiratory Syncytial Virus in Infants Hospitalized for Bronchiolitis. J Infect Dis. 2019 05 05; 219(11):1804-1808. PMID: 30590603; PMCID: PMC6500556.
      Citations: 12     Fields:    Translation:HumansCells
    90. Hollister EB, Oezguen N, Chumpitazi BP, Luna RA, Weidler EM, Rubio-Gonzales M, Dahdouli M, Cope JL, Mistretta TA, Raza S, Metcalf GA, Muzny DM, Gibbs RA, Petrosino JF, Heitkemper M, Savidge TC, Shulman RJ, Versalovic J. Leveraging Human Microbiome Features to Diagnose and Stratify Children with Irritable Bowel Syndrome. J Mol Diagn. 2019 05; 21(3):449-461. PMID: 31005411; PMCID: PMC6504675.
      Citations: 25     Fields:    Translation:HumansCells
    91. Gurwara S, Ajami NJ, Jang A, Hessel FC, Chen L, Plew S, Wang Z, Graham DY, Hair C, White DL, Kramer J, Kourkoumpetis T, Hoffman K, Cole R, Hou J, Husain N, Jarbrink-Sehgal M, Hernaez R, Kanwal F, Ketwaroo G, Shah R, Velez M, Natarajan Y, El-Serag HB, Petrosino JF, Jiao L. Dietary Nutrients Involved in One-Carbon Metabolism and Colonic Mucosa-Associated Gut Microbiome in Individuals with an Endoscopically Normal Colon. Nutrients. 2019 Mar 13; 11(3). PMID: 30871224; PMCID: PMC6470629.
      Citations: 17     Fields:    Translation:HumansCells
    92. Stewart CJ, Fatemizadeh R, Parsons P, Lamb CA, Shady DA, Petrosino JF, Hair AB. Using formalin fixed paraffin embedded tissue to characterize the preterm gut microbiota in necrotising enterocolitis and spontaneous isolated perforation using marginal and diseased tissue. BMC Microbiol. 2019 03 04; 19(1):52. PMID: 30832576; PMCID: PMC6398254.
      Citations: 9     Fields:    Translation:HumansCells
    93. Tribble GD, Angelov N, Weltman R, Wang BY, Eswaran SV, Gay IC, Parthasarathy K, Dao DV, Richardson KN, Ismail NM, Sharina IG, Hyde ER, Ajami NJ, Petrosino JF, Bryan NS. Frequency of Tongue Cleaning Impacts the Human Tongue Microbiome Composition and Enterosalivary Circulation of Nitrate. Front Cell Infect Microbiol. 2019; 9:39. PMID: 30881924; PMCID: PMC6406172.
      Citations: 26     Fields:    Translation:Humans
    94. Ihekweazu FD, Fofanova TY, Queliza K, Nagy-Szakal D, Stewart CJ, Engevik MA, Hulten KG, Tatevian N, Graham DY, Versalovic J, Petrosino JF, Kellermayer R. Bacteroides ovatus ATCC 8483 monotherapy is superior to traditional fecal transplant and multi-strain bacteriotherapy in a murine colitis model. Gut Microbes. 2019; 10(4):504-520. PMID: 30663928; PMCID: PMC6748610.
      Citations: 18     Fields:    Translation:AnimalsCells
    95. Ramani S, Stewart CJ, Laucirica DR, Ajami NJ, Robertson B, Autran CA, Shinge D, Rani S, Anandan S, Hu L, Ferreon JC, Kuruvilla KA, Petrosino JF, Venkataram Prasad BV, Bode L, Kang G, Estes MK. Human milk oligosaccharides, milk microbiome and infant gut microbiome modulate neonatal rotavirus infection. Nat Commun. 2018 11 27; 9(1):5010. PMID: 30479342; PMCID: PMC6258677.
      Citations: 59     Fields:    Translation:HumansCells
    96. Toivonen L, Hasegawa K, Ajami NJ, Mansbach JM, Petrosino JF, Camargo CA, Celed?n JC. Circulating 25-hydroxyvitamin D, nasopharyngeal microbiota, and bronchiolitis severity. Pediatr Allergy Immunol. 2018 12; 29(8):877-880. PMID: 30152883; PMCID: PMC6294653.
      Citations: 4     Fields:    Translation:Humans
    97. Jiang ZD, Jenq RR, Ajami NJ, Petrosino JF, Alexander AA, Ke S, Iqbal T, DuPont AW, Muldrew K, Shi Y, Peterson C, Do KA, DuPont HL. Safety and preliminary efficacy of orally administered lyophilized fecal microbiota product compared with frozen product given by enema for recurrent Clostridium difficile infection: A randomized clinical trial. PLoS One. 2018; 13(11):e0205064. PMID: 30388112; PMCID: PMC6214502.
      Citations: 34     Fields:    Translation:HumansCells
    98. Ganesh BP, Nelson JW, Eskew JR, Ganesan A, Ajami NJ, Petrosino JF, Bryan RM, Durgan DJ. Prebiotics, Probiotics, and Acetate Supplementation Prevent Hypertension in a Model of Obstructive Sleep Apnea. Hypertension. 2018 11; 72(5):1141-1150. PMID: 30354816; PMCID: PMC6209125.
      Citations: 39     Fields:    Translation:Animals
    99. Vatanen T, Franzosa EA, Schwager R, Tripathi S, Arthur TD, Vehik K, Hagopian WA, Rewers MJ, She JX, Toppari J, Akolkar B, Krischer JP, Stewart CJ, Ajami NJ, Petrosino JF, Gevers D, Vlamakis H, Huttenhower C, Xavier RJ, Lernmark ?, Ziegler AG, L?hdesm?ki H. The human gut microbiome in early-onset type 1 diabetes from the TEDDY study. Nature. 2018 10; 562(7728):589-594. PMID: 30356183; PMCID: PMC6296767.
      Citations: 208     Fields:    Translation:HumansAnimalsCells
    100. Stewart CJ, Ajami NJ, O'Brien JL, Hutchinson DS, Smith DP, Wong MC, Ross MC, Lloyd RE, Doddapaneni H, Metcalf GA, Muzny D, Gibbs RA, Vatanen T, Huttenhower C, Xavier RJ, Rewers M, Hagopian W, Toppari J, She JX, Akolkar B, Hyoty H, Vehik K, Krischer JP, Petrosino JF, Ziegler AG, Lernmark A. Temporal development of the gut microbiome in early childhood from the TEDDY study. Nature. 2018 10; 562(7728):583-588. PMID: 30356187; PMCID: PMC6415775.
      Citations: 435     Fields:    Translation:HumansAnimalsCells
    101. Liu Y, O'Brien JL, Ajami NJ, Scheurer ME, Amirian ES, Armstrong G, Tsavachidis S, Thrift AP, Jiao L, Wong MC, Smith DP, Spitz MR, Bondy ML, Petrosino JF, Kheradmand F. Lung tissue microbial profile in lung cancer is distinct from emphysema. Am J Cancer Res. 2018; 8(9):1775-1787. PMID: 30323970; PMCID: PMC6176189.
      Citations: 27     
    102. Stewart CJ, Auchtung TA, Ajami NJ, Velasquez K, Smith DP, De La Garza R, Salas R, Petrosino JF. Correction: Effects of tobacco smoke and electronic cigarette vapor exposure on the oral and gut microbiota in humans: a pilot study. PeerJ. 2018; 6. PMID: 30148001; PMCID: PMC6106372.
      Citations: 2     
    103. Ajami NJ, Wong MC, Ross MC, Lloyd RE, Petrosino JF. Maximal viral information recovery from sequence data using VirMAP. Nat Commun. 2018 08 10; 9(1):3205. PMID: 30097567; PMCID: PMC6086868.
      Citations: 17     Fields:    Translation:HumansCells
    104. Call L, Stoll B, Oosterloo B, Ajami N, Sheikh F, Wittke A, Waworuntu R, Berg B, Petrosino J, Olutoye O, Burrin D. Metabolomic signatures distinguish the impact of formula carbohydrates on disease outcome in a preterm piglet model of NEC. Microbiome. 2018 06 19; 6(1):111. PMID: 29921329; PMCID: PMC6009052.
      Citations: 12     Fields:    Translation:AnimalsCells
    105. Stewart CJ, Auchtung TA, Ajami NJ, Velasquez K, Smith DP, De La Garza R, Salas R, Petrosino JF. Effects of tobacco smoke and electronic cigarette vapor exposure on the oral and gut microbiota in humans: a pilot study. PeerJ. 2018; 6:e4693. PMID: 29736335; PMCID: PMC5933315.
      Citations: 43     
    106. Hoffman KL, Hutchinson DS, Fowler J, Smith DP, Ajami NJ, Zhao H, Scheet P, Chow WH, Petrosino JF, Daniel CR. Oral microbiota reveals signs of acculturation in Mexican American women. PLoS One. 2018; 13(4):e0194100. PMID: 29694348; PMCID: PMC5918619.
      Citations: 11     Fields:    Translation:HumansCells
    107. Houghton D, Stewart CJ, Stamp C, Nelson A, Aj Ami NJ, Petrosino JF, Wipat A, Trenell MI, Turnbull DM, Greaves LC. Impact of Age-Related Mitochondrial Dysfunction and Exercise on Intestinal Microbiota Composition. J Gerontol A Biol Sci Med Sci. 2018 04 17; 73(5):571-578. PMID: 29045670; PMCID: PMC5905657.
      Citations: 13     Fields:    Translation:Animals
    108. Kaur K, Saxena A, Debnath I, O'Brien JL, Ajami NJ, Auchtung TA, Petrosino JF, Sougiannis AJ, Depaep S, Chumanevich A, Gummadidala PM, Omebeyinje MH, Banerjee S, Chatzistamou I, Chakraborty P, Fayad R, Berger FG, Carson JA, Chanda A. Antibiotic-mediated bacteriome depletion in ApcMin/+ mice is associated with reduction in mucus-producing goblet cells and increased colorectal cancer progression. Cancer Med. 2018 05; 7(5):2003-2012. PMID: 29624892; PMCID: PMC5943478.
      Citations: 18     Fields:    Translation:AnimalsCells
    109. Auchtung TA, Fofanova TY, Stewart CJ, Nash AK, Wong MC, Gesell JR, Auchtung JM, Ajami NJ, Petrosino JF. Investigating Colonization of the Healthy Adult Gastrointestinal Tract by Fungi. mSphere. 2018 Mar-Apr; 3(2). PMID: 29600282; PMCID: PMC5874442.
      Citations: 65     Fields:    Translation:HumansAnimalsPHPublic Health
    110. Ajami NJ, Mogollon C, Urruchurtu I, Di-Ruggiero P, Torres N, Petrosino JF, San-Juan-Vergara H, Zurek E, Pe?a M, Portnoy I, V?lez JI, Cadena-Cruz C, Diaz-Olmos Y, Hurtado-G?mez L, Sanchez-Sit S, Hern?ndez D, Guardo-Garc?a E, Vidal-Orjuela O, Viasus D, Cervantes-Acosta G. A Lachnospiraceae-dominated bacterial signature in the fecal microbiota of HIV-infected individuals from Colombia, South America. Sci Rep. 2018 03 14; 8(1):4479. PMID: 29540734; PMCID: PMC5852036.
      Citations: 15     Fields:    Translation:HumansCells
    111. Stewart CJ, Hasegawa K, Wong MC, Ajami NJ, Petrosino JF, Piedra PA, Espinola JA, Tierney CN, Camargo CA, Mansbach JM. Respiratory Syncytial Virus and Rhinovirus Bronchiolitis Are Associated With Distinct Metabolic Pathways. J Infect Dis. 2018 03 13; 217(7):1160-1169. PMID: 29293990; PMCID: PMC5939849.
      Citations: 28     Fields:    Translation:HumansCells
    112. Penington JS, Penno MAS, Ngui KM, Ajami NJ, Roth-Schulze AJ, Wilcox SA, Bandala-Sanchez E, Wentworth JM, Barry SC, Brown CY, Couper JJ, Petrosino JF, Papenfuss AT, Harrison LC, ENDIA Study Group*. Influence of fecal collection conditions and 16S rRNA gene sequencing at two centers on human gut microbiota analysis. Sci Rep. 2018 03 12; 8(1):4386. PMID: 29531234; PMCID: PMC5847573.
      Citations: 19     Fields:    Translation:Humans
    113. Petrosino JF. The microbiome in precision medicine: the way forward. Genome Med. 2018 02 22; 10(1):12. PMID: 29471863; PMCID: PMC5824491.
      Citations: 29     Fields:    Translation:Humans
    114. Mulukutla SN, Hsu JW, Gaba R, Bohren KM, Guthikonda A, Iyer D, Ajami NJ, Petrosino JF, Hampe CS, Ram N, Jahoor F, Balasubramanyam A. Arginine Metabolism Is Altered in Adults with A-?+?Ketosis-Prone Diabetes. J Nutr. 2018 02 01; 148(2):185-193. PMID: 29490093; PMCID: PMC6251649.
      Citations: 5     Fields:    Translation:HumansCells
    115. Luna PN, Hasegawa K, Ajami NJ, Espinola JA, Henke DM, Petrosino JF, Piedra PA, Sullivan AF, Camargo CA, Shaw CA, Mansbach JM. The association between anterior nares and nasopharyngeal microbiota in infants hospitalized for bronchiolitis. Microbiome. 2018 01 03; 6(1):2. PMID: 29298732; PMCID: PMC5751828.
      Citations: 27     Fields:    Translation:HumansCells
    116. Nash AK, Auchtung TA, Wong MC, Smith DP, Gesell JR, Ross MC, Stewart CJ, Metcalf GA, Muzny DM, Gibbs RA, Ajami NJ, Petrosino JF. The gut mycobiome of the Human Microbiome Project healthy cohort. Microbiome. 2017 Nov 25; 5(1):153. PMID: 29178920; PMCID: PMC5702186.
      Citations: 219     Fields:    Translation:HumansAnimals
    117. Linnemann RW, Mansbach JM, Ajami NJ, Espinola JA, Petrosino JF, Piedra PA, Stevenson MD, Sullivan AF, Thompson AD, Camargo CA, Hasegawa K. Nasal Airway Microbiota Profile and Severe Bronchiolitis in Infants: A Case-control Study. Pediatr Infect Dis J. 2017 Nov; 36(11):1044-1051. PMID: 28005692; PMCID: PMC5479744.
      Citations: 23     Fields:    Translation:HumansCells
    118. Fiechtner L, Roche B, Ajami NJ, Petrosino JF, Camargo CA, Taveras EM, Hasegawa K, Robinson A. Association of Maternal Gestational Weight Gain With the Infant Fecal Microbiota. J Pediatr Gastroenterol Nutr. 2017 11; 65(5):509-515. PMID: 28272161; PMCID: PMC5589469.
      Citations: 7     Fields:    Translation:Humans
    119. Stewart CJ, Mansbach JM, Wong MC, Ajami NJ, Petrosino JF, Camargo CA, Hasegawa K. Associations of Nasopharyngeal Metabolome and Microbiome with Severity among Infants with Bronchiolitis. A Multiomic Analysis. Am J Respir Crit Care Med. 2017 10 01; 196(7):882-891. PMID: 28530140; PMCID: PMC5649976.
      Citations: 49     Fields:    Translation:Humans
    120. Mansbach JM, Hasegawa K, Ajami NJ, Petrosino JF, Piedra PA, Tierney CN, Espinola JA, Camargo CA. Serum LL-37 Levels Associated With Severity of Bronchiolitis and Viral Etiology. Clin Infect Dis. 2017 Sep 15; 65(6):967-975. PMID: 28541502; PMCID: PMC5850627.
      Citations: 13     Fields:    Translation:HumansCells
    121. Gummadidala PM, Holder ME, O'Brien JL, Ajami NJ, Petrosino JF, Mitra C, Chen YP, Decho AW, Chanda A. Complete Genome Sequence of Vibrio gazogenes ATCC 43942. Genome Announc. 2017 Jul 27; 5(30). PMID: 28751405; PMCID: PMC5532843.
      Citations: 2     
    122. Hasegawa K, Stewart CJ, Mansbach JM, Linnemann RW, Ajami NJ, Petrosino JF, Camargo CA. Sphingolipid metabolism potential in fecal microbiome and bronchiolitis in infants: a case-control study. BMC Res Notes. 2017 Jul 26; 10(1):325. PMID: 28747215; PMCID: PMC5530560.
      Citations: 7     Fields:    Translation:Humans
    123. Lai PS, Allen JG, Hutchinson DS, Ajami NJ, Petrosino JF, Winters T, Hug C, Wartenberg GR, Vallarino J, Christiani DC. Impact of environmental microbiota on human microbiota of workers in academic mouse research facilities: An observational study. PLoS One. 2017; 12(7):e0180969. PMID: 28704437; PMCID: PMC5509249.
      Citations: 16     Fields:    Translation:HumansAnimalsCellsPHPublic Health
    124. Stewart CJ, Embleton ND, Marrs ECL, Smith DP, Fofanova T, Nelson A, Skeath T, Perry JD, Petrosino JF, Berrington JE, Cummings SP. Longitudinal development of the gut microbiome and metabolome in preterm neonates with late onset sepsis and healthy controls. Microbiome. 2017 07 12; 5(1):75. PMID: 28701177; PMCID: PMC5508794.
      Citations: 86     Fields:    Translation:HumansCells
    125. Abrahamson M, Hooker E, Ajami NJ, Petrosino JF, Orwoll ES. Successful collection of stool samples for microbiome analyses from a large community-based population of elderly men. Contemp Clin Trials Commun. 2017 Sep; 7:158-162. PMID: 29250605; PMCID: PMC5726580.
      Citations: 15     
    126. Stewart CJ, Embleton ND, Clements E, Luna PN, Smith DP, Fofanova TY, Nelson A, Taylor G, Orr CH, Petrosino JF, Berrington JE, Cummings SP. Cesarean or Vaginal Birth Does Not Impact the Longitudinal Development of the Gut Microbiome in a Cohort of Exclusively Preterm Infants. Front Microbiol. 2017; 8:1008. PMID: 28634475; PMCID: PMC5459931.
      Citations: 25     
    127. Crawford C, Cohen-Mekelburg S, Viladomiu M, Putzel GG, Schneider Y, Chabouni F, O'Neil S, Bosworth B, Woo V, Ajami NJ, Petrosino JF, Gerardin Y, Kassam Z, Smith M, Iliev ID, Sonnenberg GF, Artis D, Scherl E, Longman RS, Jacob V. Single Delivery of High-Diversity Fecal Microbiota Preparation by Colonoscopy Is Safe and Effective in Increasing Microbial Diversity in Active Ulcerative Colitis. Inflamm Bowel Dis. 2017 06; 23(6):903-911. PMID: 28445246; PMCID: PMC6159890.
      Citations: 43     Fields:    Translation:HumansCellsCTClinical Trials
    128. Carlson JM, Leonard AB, Hyde ER, Petrosino JF, Primm TP. Microbiome disruption and recovery in the fish Gambusia affinis following exposure to broad-spectrum antibiotic. Infect Drug Resist. 2017; 10:143-154. PMID: 28533691; PMCID: PMC5431701.
      Citations: 21     
    129. Ye X, Wang R, Bhattacharya R, Boulbes DR, Fan F, Xia L, Adoni H, Ajami NJ, Wong MC, Smith DP, Petrosino JF, Venable S, Qiao W, Baladandayuthapani V, Maru D, Ellis LM. Fusobacterium Nucleatum Subspecies Animalis Influences Proinflammatory Cytokine Expression and Monocyte Activation in Human Colorectal Tumors. Cancer Prev Res (Phila). 2017 Jul; 10(7):398-409. PMID: 28483840.
      Citations: 45     Fields:    Translation:HumansCells
    130. Pammi M, O'Brien JL, Ajami NJ, Wong MC, Versalovic J, Petrosino JF. Development of the cutaneous microbiome in the preterm infant: A prospective longitudinal study. PLoS One. 2017; 12(4):e0176669. PMID: 28448623; PMCID: PMC5407830.
      Citations: 13     Fields:    Translation:Humans
    131. D'Amico L, Ajami NJ, Adachi JA, Gascoyne PR, Petrosino JF. Isolation and concentration of bacteria from blood using microfluidic membraneless dialysis and dielectrophoresis. Lab Chip. 2017 03 29; 17(7):1340-1348. PMID: 28276545; PMCID: PMC5894507.
      Citations: 12     Fields:    Translation:HumansCells
    132. Smith DP, Sahasrabhojane P, Wadsworth WD, Fellman BM, Ajami NJ, Shpall EJ, Daver N, Guindani M, Petrosino JF, Kontoyiannis DP, Shelburne SA, Galloway-Pe?a JR. Characterization of oral and gut microbiome temporal variability in hospitalized cancer patients. Genome Med. 2017 02 28; 9(1):21. PMID: 28245856; PMCID: PMC5331640.
      Citations: 38     Fields:    Translation:HumansCells
    133. Viladomiu M, Kivolowitz C, Abdulhamid A, Dogan B, Victorio D, Castellanos JG, Woo V, Teng F, Tran NL, Sczesnak A, Chai C, Kim M, Diehl GE, Ajami NJ, Petrosino JF, Zhou XK, Schwartzman S, Mandl LA, Abramowitz M, Jacob V, Bosworth B, Steinlauf A, Scherl EJ, Wu HJ, Simpson KW, Longman RS. IgA-coated E. coli enriched in Crohn's disease spondyloarthritis promote TH17-dependent inflammation. Sci Transl Med. 2017 02 08; 9(376). PMID: 28179509; PMCID: PMC6159892.
      Citations: 114     Fields:    Translation:HumansAnimalsCells
    134. Kelly PH, Bahr SM, Serafim TD, Ajami NJ, Petrosino JF, Meneses C, Kirby JR, Valenzuela JG, Kamhawi S, Wilson ME. The Gut Microbiome of the Vector Lutzomyia longipalpis Is Essential for Survival of Leishmania infantum. mBio. 2017 01 17; 8(1). PMID: 28096483; PMCID: PMC5241394.
      Citations: 53     Fields:    Translation:AnimalsCellsPHPublic Health
    135. Horai R, Mattapallil MJ, Ajami NJ, Wong M, Petrosino JF, Itoh K, Chan CC, Caspi RR, Z?rate-Blad?s CR. Gut microbiota as a source of a surrogate antigen that triggers autoimmunity in an immune privileged site. Gut Microbes. 2017 01 02; 8(1):59-66. PMID: 28045579; PMCID: PMC5361604.
      Citations: 18     Fields:    Translation:HumansAnimalsCells
    136. Zhang H, Zhao F, Hutchinson DS, Sun W, Ajami NJ, Lai S, Wong MC, Petrosino JF, Fang J, Jiang J, Chen W, Reinach PS, Qu J, Zeng C, Zhang D, Zhou X. Conjunctival Microbiome Changes Associated With Soft Contact Lens and Orthokeratology Lens Wearing. Invest Ophthalmol Vis Sci. 2017 01 01; 58(1):128-136. PMID: 28114568.
      Citations: 21     Fields:    Translation:HumansCells
    137. Stewart CJ, Embleton ND, Marrs EC, Smith DP, Nelson A, Abdulkadir B, Skeath T, Petrosino JF, Perry JD, Berrington JE, Cummings SP. Temporal bacterial and metabolic development of the preterm gut reveals specific signatures in health and disease. Microbiome. 2016 Dec 29; 4(1):67. PMID: 28034304; PMCID: PMC5200962.
      Citations: 60     Fields:    Translation:HumansCells
    138. Adnan S, Nelson JW, Ajami NJ, Venna VR, Petrosino JF, Bryan RM, Durgan DJ. Alterations in the gut microbiota can elicit hypertension in rats. Physiol Genomics. 2017 02 01; 49(2):96-104. PMID: 28011881; PMCID: PMC5336599.
      Citations: 121     Fields:    Translation:Animals
    139. Hasegawa K, Linnemann RW, Mansbach JM, Ajami NJ, Espinola JA, Fiechtner LG, Petrosino JF, Camargo CA. Household siblings and nasal and fecal microbiota in infants. Pediatr Int. 2017 Apr; 59(4):473-481. PMID: 27638139; PMCID: PMC5354996.
      Citations: 13     Fields:    Translation:Humans
    140. Hasegawa K, Mansbach JM, Ajami NJ, Petrosino JF, Freishtat RJ, Teach SJ, Piedra PA, Camargo CA. Serum cathelicidin, nasopharyngeal microbiota, and disease severity among infants hospitalized with bronchiolitis. J Allergy Clin Immunol. 2017 04; 139(4):1383-1386.e6. PMID: 27845236; PMCID: PMC5385272.
      Citations: 19     Fields:    Translation:Humans
    141. Santos-Cortez RL, Hutchinson DS, Ajami NJ, Reyes-Quintos MR, Tantoco ML, Labra PJ, Lagrana SM, Pedro M, Llanes EG, Gloria-Cruz TL, Chan AL, Cutiongco-de la Paz EM, Belmont JW, Chonmaitree T, Abes GT, Petrosino JF, Leal SM, Chiong CM. Middle ear microbiome differences in indigenous Filipinos with chronic otitis media due to a duplication in the A2ML1 gene. Infect Dis Poverty. 2016 Nov 01; 5(1):97. PMID: 27799062; PMCID: PMC5088646.
      Citations: 16     Fields:    Translation:Humans
    142. Hasegawa K, Mansbach JM, Ajami NJ, Espinola JA, Henke DM, Petrosino JF, Piedra PA, Shaw CA, Sullivan AF, Camargo CA, the MARC-35 Investigators. Association of nasopharyngeal microbiota profiles with bronchiolitis severity in infants hospitalised for bronchiolitis. Eur Respir J. 2016 11; 48(5):1329-1339. PMID: 27799386; PMCID: PMC5459592.
      Citations: 80     Fields:    Translation:HumansCells
    143. Aghazadeh A, Lin AY, Sheikh MA, Chen AL, Atkins LM, Johnson CL, Petrosino JF, Drezek RA, Baraniuk RG. Universal microbial diagnostics using random DNA probes. Sci Adv. 2016 09; 2(9):e1600025. PMID: 27704040; PMCID: PMC5040476.
      Citations: 2     Fields:    Translation:HumansCells
    144. Shakhsheer BA, Versten LA, Luo JN, Defazio JR, Klabbers R, Christley S, Zaborin A, Guyton KL, Krezalek M, Smith DP, Ajami NJ, Petrosino JF, Fleming ID, Belogortseva N, Zaborina O, Alverdy JC. Morphine Promotes Colonization of Anastomotic Tissues with Collagenase - Producing Enterococcus faecalis and Causes Leak. J Gastrointest Surg. 2016 10; 20(10):1744-51. PMID: 27530446; PMCID: PMC10314329.
      Citations: 22     Fields:    Translation:AnimalsCells
    145. Kelly TN, Bazzano LA, Ajami NJ, He H, Zhao J, Petrosino JF, Correa A, He J. Gut Microbiome Associates With Lifetime Cardiovascular Disease Risk Profile Among Bogalusa Heart Study Participants. Circ Res. 2016 Sep 30; 119(8):956-64. PMID: 27507222; PMCID: PMC5045790.
      Citations: 124     Fields:    Translation:Humans
    146. Santos-Cortez RL, Reyes-Quintos MR, Tantoco ML, Abbe I, Llanes EG, Ajami NJ, Hutchinson DS, Petrosino JF, Padilla CD, Villarta RL, Gloria-Cruz TL, Chan AL, Cutiongco-de la Paz EM, Chiong CM, Leal SM, Abes GT. Genetic and Environmental Determinants of Otitis Media in an Indigenous Filipino Population. Otolaryngol Head Neck Surg. 2016 11; 155(5):856-862. PMID: 27484237; PMCID: PMC5093071.
      Citations: 10     Fields:    Translation:HumansPHPublic Health
    147. Rothenberg SE, Anders M, Ajami NJ, Petrosino JF, Balogh E. Water management impacts rice methylmercury and the soil microbiome. Sci Total Environ. 2016 Dec 01; 572:608-617. PMID: 27450246; PMCID: PMC5099098.
      Citations: 9     Fields:    Translation:AnimalsPHPublic Health
    148. Hasegawa K, Linnemann RW, Mansbach JM, Ajami NJ, Espinola JA, Petrosino JF, Piedra PA, Stevenson MD, Sullivan AF, Thompson AD, Camargo CA. The Fecal Microbiota Profile and Bronchiolitis in Infants. Pediatrics. 2016 07; 138(1). PMID: 27354456; PMCID: PMC4925084.
      Citations: 32     Fields:    Translation:Humans
    149. Buffington SA, Di Prisco GV, Auchtung TA, Ajami NJ, Petrosino JF, Costa-Mattioli M. Microbial Reconstitution Reverses Maternal Diet-Induced Social and Synaptic Deficits in Offspring. Cell. 2016 Jun 16; 165(7):1762-1775. PMID: 27315483; PMCID: PMC5102250.
      Citations: 321     Fields:    Translation:AnimalsCells
    150. Smith DP, Sahasrabhojane P, Ajami NJ, Wadsworth WD, Daver NG, Chemaly RF, Marsh L, Ghantoji SS, Pemmaraju N, Garcia-Manero G, Rezvani K, Alousi AM, Wargo JA, Shpall EJ, Futreal PA, Guindani M, Petrosino JF, Kontoyiannis DP, Shelburne SA, Galloway-Pe?a JR. The role of the gastrointestinal microbiome in infectious complications during induction chemotherapy for acute myeloid leukemia. Cancer. 2016 07 15; 122(14):2186-96. PMID: 27142181; PMCID: PMC5574182.
      Citations: 56     Fields:    Translation:Humans
    151. de Paiva CS, Jones DB, Stern ME, Bian F, Moore QL, Corbiere S, Streckfus CF, Hutchinson DS, Ajami NJ, Petrosino JF, Pflugfelder SC. Altered Mucosal Microbiome Diversity and Disease Severity in Sj?gren Syndrome. Sci Rep. 2016 Apr 18; 6:23561. PMID: 27087247; PMCID: PMC4834578.
      Citations: 119     Fields:    Translation:HumansAnimals
    152. Petrosyan V, Holder M, Ajami NJ, Petrosino JF, Sahasrabhojane P, Thompson EJ, Kalia A, Shelburne SA. Complete Genome Sequence of Streptococcus mitis Strain SVGS_061 Isolated from a Neutropenic Patient with Viridans Group Streptococcal Shock Syndrome. Genome Announc. 2016 Apr 07; 4(2). PMID: 27056234; PMCID: PMC4824267.
      Citations: 3     
    153. Mansbach JM, Hasegawa K, Henke DM, Ajami NJ, Petrosino JF, Shaw CA, Piedra PA, Sullivan AF, Espinola JA, Camargo CA. Respiratory syncytial virus and rhinovirus severe bronchiolitis are associated with distinct nasopharyngeal microbiota. J Allergy Clin Immunol. 2016 06; 137(6):1909-1913.e4. PMID: 27061249; PMCID: PMC4899255.
      Citations: 49     Fields:    Translation:HumansCellsCTClinical Trials
    154. Preidis GA, Ajami NJ, Wong MC, Bessard BC, Conner ME, Petrosino JF. Microbial-Derived Metabolites Reflect an Altered Intestinal Microbiota during Catch-Up Growth in Undernourished Neonatal Mice. J Nutr. 2016 05; 146(5):940-8. PMID: 27052538; PMCID: PMC4841929.
      Citations: 9     Fields:    Translation:AnimalsCells
    155. Kirpich IA, Petrosino J, Ajami N, Feng W, Wang Y, Liu Y, Beier JI, Barve SS, Yin X, Wei X, Zhang X, McClain CJ. Saturated and Unsaturated Dietary Fats Differentially Modulate Ethanol-Induced Changes in Gut Microbiome and Metabolome in a Mouse Model of Alcoholic Liver Disease. Am J Pathol. 2016 Apr; 186(4):765-76. PMID: 27012191; PMCID: PMC5808146.
      Citations: 35     Fields:    Translation:Animals
    156. Petrosino JF, Kellermayer R, Fofanova TY. Microbiome-Epigenome Interactions and the Environmental Origins of Inflammatory Bowel Diseases. J Pediatr Gastroenterol Nutr. 2016 Feb; 62(2):208-19. PMID: 26308318; PMCID: PMC4724338.
      Citations: 15     Fields:    Translation:HumansCells
    157. Durgan DJ, Ganesh BP, Cope JL, Ajami NJ, Phillips SC, Petrosino JF, Hollister EB, Bryan RM. Role of the Gut Microbiome in Obstructive Sleep Apnea-Induced Hypertension. Hypertension. 2016 Feb; 67(2):469-74. PMID: 26711739; PMCID: PMC4713369.
      Citations: 123     Fields:    Translation:Animals
    158. Metcalf JL, Xu ZZ, Weiss S, Lax S, Van Treuren W, Hyde ER, Song SJ, Amir A, Larsen P, Sangwan N, Haarmann D, Humphrey GC, Ackermann G, Thompson LR, Bibat A, Nicholas C, Gebert MJ, Petrosino JF, Reed SC, Gilbert JA, Lynne AM, Bucheli SR, Carter DO, Knight R, Lauber C. Microbial community assembly and metabolic function during mammalian corpse decomposition. Science. 2016 Jan 08; 351(6269):158-62. PMID: 26657285.
      Citations: 91     Fields:    Translation:AnimalsCellsPHPublic Health
    159. Rothenberg SE, Keiser S, Ajami NJ, Wong MC, Gesell J, Petrosino JF, Johs A. The role of gut microbiota in fetal methylmercury exposure: Insights from a pilot study. Toxicol Lett. 2016 Feb 03; 242:60-67. PMID: 26626101; PMCID: PMC4707065.
      Citations: 21     Fields:    Translation:HumansCellsPHPublic Health
    160. Shelburne SA, Ajami NJ, Chibucos MC, Beird HC, Tarrand J, Albert N, Chemaly RF, Ghantoji SS, Marsh L, Pemmaraju N, Andreeff M, Shpall EJ, Wargo JA, Rezvani K, Alousi A, Bruno VM, Futreal PA, Petrosino JF, Kontoyiannis DP, Galloway-Pe?a J. Implementation of a Pan-Genomic Approach to Investigate Holobiont-Infecting Microbe Interaction: A Case Report of a Leukemic Patient with Invasive Mucormycosis. PLoS One. 2015; 10(11):e0139851. PMID: 26556047; PMCID: PMC4640583.
      Citations: 23     Fields:    Translation:HumansAnimals
    161. Kubinak JL, Stephens WZ, Soto R, Petersen C, Chiaro T, Gogokhia L, Bell R, Ajami NJ, Petrosino JF, Morrison L, Potts WK, Jensen PE, O'Connell RM, Round JL. MHC variation sculpts individualized microbial communities that control susceptibility to enteric infection. Nat Commun. 2015 Oct 23; 6:8642. PMID: 26494419; PMCID: PMC4621775.
      Citations: 70     Fields:    Translation:AnimalsCells
    162. Carlson JM, Hyde ER, Petrosino JF, Manage ABW, Primm TP. The host effects of Gambusia affinis with an antibiotic-disrupted microbiome. Comp Biochem Physiol C Toxicol Pharmacol. 2015 Dec; 178:163-168. PMID: 26475244.
      Citations: 10     Fields:    Translation:Animals
    163. Runtsch MC, Hu R, Alexander M, Wallace J, Kagele D, Petersen C, Valentine JF, Welker NC, Bronner MP, Chen X, Smith DP, Ajami NJ, Petrosino JF, Round JL, O'Connell RM. MicroRNA-146a constrains multiple parameters of intestinal immunity and increases susceptibility to DSS colitis. Oncotarget. 2015 Oct 06; 6(30):28556-72. PMID: 26456940; PMCID: PMC4745677.
      Citations: 22     Fields:    Translation:AnimalsCells
    164. Zanvit P, Konkel JE, Jiao X, Kasagi S, Zhang D, Wu R, Chia C, Ajami NJ, Smith DP, Petrosino JF, Abbatiello B, Nakatsukasa H, Chen Q, Belkaid Y, Chen ZJ, Chen W. Antibiotics in neonatal life increase murine susceptibility to experimental psoriasis. Nat Commun. 2015 Sep 29; 6:8424. PMID: 26416167; PMCID: PMC4598725.
      Citations: 51     Fields:    Translation:AnimalsCells
    165. Hollister EB, Riehle K, Luna RA, Weidler EM, Rubio-Gonzales M, Mistretta TA, Raza S, Doddapaneni HV, Metcalf GA, Muzny DM, Gibbs RA, Petrosino JF, Shulman RJ, Versalovic J. Structure and function of the healthy pre-adolescent pediatric gut microbiome. Microbiome. 2015 Aug 26; 3:36. PMID: 26306392; PMCID: PMC4550057.
      Citations: 124     Fields:    Translation:Humans
    166. He B, Nohara K, Ajami NJ, Michalek RD, Tian X, Wong M, Losee-Olson SH, Petrosino JF, Yoo SH, Shimomura K, Chen Z. Transmissible microbial and metabolomic remodeling by soluble dietary fiber improves metabolic homeostasis. Sci Rep. 2015 Jun 04; 5:10604. PMID: 26040234; PMCID: PMC4455235.
      Citations: 29     Fields:    Translation:Animals
    167. Horwitz D, McCue T, Mapes AC, Ajami NJ, Petrosino JF, Ramig RF, Trautner BW. Decreased microbiota diversity associated with urinary tract infection in a trial of bacterial interference. J Infect. 2015 Sep; 71(3):358-367. PMID: 26048203; PMCID: PMC4529357.
      Citations: 32     Fields:    Translation:HumansCellsCTClinical Trials
    168. Green SI, Ajami NJ, Ma L, Poole NM, Price RE, Petrosino JF, Maresso AW. Murine model of chemotherapy-induced extraintestinal pathogenic Escherichia coli translocation. Infect Immun. 2015 Aug; 83(8):3243-56. PMID: 26034214; PMCID: PMC4496622.
      Citations: 9     Fields:    Translation:HumansAnimalsCells
    169. Preidis GA, Ajami NJ, Wong MC, Bessard BC, Conner ME, Petrosino JF. Composition and function of the undernourished neonatal mouse intestinal microbiome. J Nutr Biochem. 2015 Oct; 26(10):1050-7. PMID: 26070414.
      Citations: 21     Fields:    Translation:AnimalsCells
    170. Flores AR, Sahasrabhojane P, Yao H, Su X, Ajami NJ, Holder ME, Petrosino JF, Thompson E, Margarit Y Ros I, Rosini R, Grandi G, Horstmann N, Teatero S, McGeer A, Fittipaldi N, Rappuoli R, Baker CJ, Shelburne SA, Galloway-Pe?a J, Salda?a M. Sequence type 1 group B Streptococcus, an emerging cause of invasive disease in adults, evolves by small genetic changes. Proc Natl Acad Sci U S A. 2015 May 19; 112(20):6431-6. PMID: 25941374; PMCID: PMC4443349.
      Citations: 47     Fields:    Translation:HumansCells
    171. Massey VL, Stocke KS, Schmidt RH, Tan M, Ajami N, Neal RE, Petrosino JF, Barve S, Arteel GE. Oligofructose protects against arsenic-induced liver injury in a model of environment/obesity interaction. Toxicol Appl Pharmacol. 2015 May 01; 284(3):304-14. PMID: 25759243; PMCID: PMC4515777.
      Citations: 10     Fields:    Translation:Animals
    172. Ross MC, Muzny DM, McCormick JB, Gibbs RA, Fisher-Hoch SP, Petrosino JF. 16S gut community of the Cameron County Hispanic Cohort. Microbiome. 2015; 3:7. PMID: 25763184; PMCID: PMC4355967.
      Citations: 26     Fields:    
    173. Youmans BP, Ajami NJ, Jiang ZD, Campbell F, Wadsworth WD, Petrosino JF, DuPont HL, Highlander SK. Characterization of the human gut microbiome during travelers' diarrhea. Gut Microbes. 2015; 6(2):110-9. PMID: 25695334; PMCID: PMC4615231.
      Citations: 50     Fields:    Translation:HumansCells
    174. Ajami NJ, Hutchinson DS, Petrosino JF. Promise and Pragmatism in Clinical Microbiome Research. Mini Rev Med Chem. 2015; 16(3):222-4. PMID: 26202196.
      Citations:    Fields:    Translation:Humans
    175. Hyde ER, Haarmann DP, Petrosino JF, Lynne AM, Bucheli SR. Initial insights into bacterial succession during human decomposition. Int J Legal Med. 2015 May; 129(3):661-71. PMID: 25431049.
      Citations: 29     Fields:    Translation:HumansAnimalsCellsPHPublic Health
    176. Hyde ER, Luk B, Cron S, Kusic L, McCue T, Bauch T, Kaplan H, Tribble G, Petrosino JF, Bryan NS. Characterization of the rat oral microbiome and the effects of dietary nitrate. Free Radic Biol Med. 2014 Dec; 77:249-57. PMID: 25305639.
      Citations: 33     Fields:    Translation:HumansAnimals
    177. Schloss PD, Iverson KD, Petrosino JF, Schloss SJ. The dynamics of a family's gut microbiota reveal variations on a theme. Microbiome. 2014; 2:25. PMID: 25061514; PMCID: PMC4109379.
      Citations: 52     Fields:    
    178. Aagaard K, Ma J, Antony KM, Ganu R, Petrosino J, Versalovic J. The placenta harbors a unique microbiome. Sci Transl Med. 2014 May 21; 6(237):237ra65. PMID: 24848255; PMCID: PMC4929217.
      Citations: 814     Fields:    Translation:HumansCells
    179. Hyde ER, Andrade F, Vaksman Z, Parthasarathy K, Jiang H, Parthasarathy DK, Torregrossa AC, Tribble G, Kaplan HB, Petrosino JF, Bryan NS. Metagenomic analysis of nitrate-reducing bacteria in the oral cavity: implications for nitric oxide homeostasis. PLoS One. 2014; 9(3):e88645. PMID: 24670812; PMCID: PMC3966736.
      Citations: 65     Fields:    Translation:HumansCells
    180. Petrosino JF, Ajami NJ, Mej?a-Le?n ME, Dom?nguez-Bello MG, de la Barca AM. Fecal microbiota imbalance in Mexican children with type 1 diabetes. Sci Rep. 2014 Jan 22; 4:3814. PMID: 24448554; PMCID: PMC3898044.
      Citations: 88     Fields:    Translation:HumansCells
    181. Marino S, Baxter NT, Huffnagle GB, Petrosino JF, Schloss PD. Mathematical modeling of primary succession of murine intestinal microbiota. Proc Natl Acad Sci U S A. 2014 Jan 07; 111(1):439-44. PMID: 24367073; PMCID: PMC3890833.
      Citations: 80     Fields:    Translation:AnimalsCells
    182. Hyde ER, Petrosino JF, Piedra PA, Camargo CA, Espinola JA, Mansbach JM. Nasopharyngeal Proteobacteria are associated with viral etiology and acute wheezing in children with severe bronchiolitis. J Allergy Clin Immunol. 2014 Apr; 133(4):1220-2. PMID: 24365140; PMCID: PMC3972371.
      Citations: 19     Fields:    Translation:HumansCells
    183. Hsiao EY, McBride SW, Hsien S, Sharon G, Hyde ER, McCue T, Codelli JA, Chow J, Reisman SE, Petrosino JF, Patterson PH, Mazmanian SK. Microbiota modulate behavioral and physiological abnormalities associated with neurodevelopmental disorders. Cell. 2013 Dec 19; 155(7):1451-63. PMID: 24315484; PMCID: PMC3897394.
      Citations: 1093     Fields:    Translation:HumansAnimalsCells
    184. Zackular JP, Baxter NT, Iverson KD, Sadler WD, Petrosino JF, Chen GY, Schloss PD. The gut microbiome modulates colon tumorigenesis. mBio. 2013 Nov 05; 4(6):e00692-13. PMID: 24194538; PMCID: PMC3892781.
      Citations: 263     Fields:    Translation:Animals
    185. Amirian ES, Petrosino JF, Ajami NJ, Liu Y, Mims MP, Scheurer ME. Potential role of gastrointestinal microbiota composition in prostate cancer risk. Infect Agent Cancer. 2013 Nov 04; 8(1):42. PMID: 24180596; PMCID: PMC3826836.
      Citations: 26     
    186. Youmans BP, Ajami NJ, Jiang ZD, Petrosino JF, DuPont HL, Highlander SK. Development and accuracy of quantitative real-time polymerase chain reaction assays for detection and quantification of enterotoxigenic Escherichia coli (ETEC) heat labile and heat stable toxin genes in travelers' diarrhea samples. Am J Trop Med Hyg. 2014 Jan; 90(1):124-32. PMID: 24189361; PMCID: PMC3886408.
      Citations: 9     Fields:    Translation:HumansCells
    187. Hyde ER, Haarmann DP, Lynne AM, Bucheli SR, Petrosino JF. The living dead: bacterial community structure of a cadaver at the onset and end of the bloat stage of decomposition. PLoS One. 2013; 8(10):e77733. PMID: 24204941; PMCID: PMC3813760.
      Citations: 49     Fields:    Translation:HumansCellsPHPublic Health
    188. Vehik K, Ajami NJ, Hadley D, Petrosino JF, Burkhardt BR. The changing landscape of type 1 diabetes: recent developments and future frontiers. Curr Diab Rep. 2013 Oct; 13(5):642-50. PMID: 23912764; PMCID: PMC3827778.
      Citations: 6     Fields:    Translation:HumansCells
    189. Carmody LA, Zhao J, Schloss PD, Petrosino JF, Murray S, Young VB, Li JZ, LiPuma JJ. Changes in cystic fibrosis airway microbiota at pulmonary exacerbation. Ann Am Thorac Soc. 2013 Jun; 10(3):179-87. PMID: 23802813; PMCID: PMC3960905.
      Citations: 105     Fields:    Translation:Humans
    190. Nagy-Szakal D, Mir SA, Ross MC, Tatevian N, Petrosino JF, Kellermayer R. Monotonous diets protect against acute colitis in mice: epidemiologic and therapeutic implications. J Pediatr Gastroenterol Nutr. 2013 May; 56(5):544-50. PMID: 23085891; PMCID: PMC4030530.
      Citations: 10     Fields:    Translation:Animals
    191. Ling PD, Reid JG, Qin X, Muzny DM, Gibbs R, Petrosino J, Peng R, Zong JC, Heaggans SY, Hayward GS. Complete Genome Sequence of Elephant Endotheliotropic Herpesvirus 1A. Genome Announc. 2013 Apr 11; 1(2):e0010613. PMID: 23580705; PMCID: PMC3624679.
      Citations: 21     
    192. Nelson AM, Elftman MD, Pinto AK, Baldridge M, Hooper P, Kuczynski J, Petrosino JF, Young VB, Wobus CE. Murine norovirus infection does not cause major disruptions in the murine intestinal microbiota. Microbiome. 2013 Feb 18; 1(1):7. PMID: 24451302; PMCID: PMC4177540.
      Citations: 21     Fields:    
    193. Bull-Otterson L, Feng W, Kirpich I, Wang Y, Qin X, Liu Y, Gobejishvili L, Joshi-Barve S, Ayvaz T, Petrosino J, Kong M, Barker D, McClain C, Barve S. Metagenomic analyses of alcohol induced pathogenic alterations in the intestinal microbiome and the effect of Lactobacillus rhamnosus GG treatment. PLoS One. 2013; 8(1):e53028. PMID: 23326376; PMCID: PMC3541399.
      Citations: 221     Fields:    Translation:AnimalsCells
    194. Niu T, Smith DL, Yang Z, Gao S, Yin T, Jiang ZH, You M, Gibbs RA, Petrosino JF, Hu M. Bioactivity and bioavailability of ginsenosides are dependent on the glycosidase activities of the A/J mouse intestinal microbiome defined by pyrosequencing. Pharm Res. 2013 Mar; 30(3):836-46. PMID: 23254888; PMCID: PMC4372807.
      Citations: 19     Fields:    Translation:HumansAnimalsCells
    195. Noval Rivas M, Burton OT, Wise P, Zhang YQ, Hobson SA, Garcia Lloret M, Chehoud C, Kuczynski J, DeSantis T, Warrington J, Hyde ER, Petrosino JF, Gerber GK, Bry L, Oettgen HC, Mazmanian SK, Chatila TA. A microbiota signature associated with experimental food allergy promotes allergic sensitization and anaphylaxis. J Allergy Clin Immunol. 2013 Jan; 131(1):201-12. PMID: 23201093; PMCID: PMC3860814.
      Citations: 153     Fields:    Translation:AnimalsCellsPHPublic Health
    196. Aagaard K, Petrosino J, Keitel W, Watson M, Katancik J, Garcia N, Patel S, Cutting M, Madden T, Hamilton H, Harris E, Gevers D, Simone G, McInnes P, Versalovic J. The Human Microbiome Project strategy for comprehensive sampling of the human microbiome and why it matters. FASEB J. 2013 Mar; 27(3):1012-22. PMID: 23165986; PMCID: PMC3574278.
      Citations: 145     Fields:    Translation:HumansCTClinical Trials
    197. McWilliams BD, Palzkill T, Weinstock GM, Petrosino JF. Identification of novel and cross-species seroreactive proteins from Bacillus anthracis using a ligation-independent cloning-based, SOS-inducible expression system. Microb Pathog. 2012 Nov-Dec; 53(5-6):250-8. PMID: 22975444; PMCID: PMC3779308.
      Citations: 1     Fields:    Translation:HumansAnimalsCells
    198. Preidis GA, Saulnier DM, Blutt SE, Mistretta TA, Riehle KP, Major AM, Venable SF, Barrish JP, Finegold MJ, Petrosino JF, Guerrant RL, Conner ME, Versalovic J. Host response to probiotics determined by nutritional status of rotavirus-infected neonatal mice. J Pediatr Gastroenterol Nutr. 2012 Sep; 55(3):299-307. PMID: 22343914; PMCID: PMC4010314.
      Citations: 34     Fields:    Translation:HumansAnimalsCells
    199. Gevers D, Knight R, Petrosino JF, Huang K, McGuire AL, Birren BW, Nelson KE, White O, Huttenhower C, Meth? BA. The Human Microbiome Project: a community resource for the healthy human microbiome. PLoS Biol. 2012; 10(8):e1001377. PMID: 22904687; PMCID: PMC3419203.
      Citations: 154     Fields:    Translation:Humans
    200. Qin X, Sillanpaa J, Roh JH, Nallapareddy SR, Chowdhury S, Bourgogne A, Choudhury T, Muzny DM, Buhay CJ, Ding Y, Dugan-Rocha S, Liu W, Kovar C, Sodergren E, Highlander S, Petrosino JF, Worley KC, Gibbs RA, Weinstock GM, Murray BE, Galloway-Pe?a JR. Complete genome sequence of Enterococcus faecium strain TX16 and comparative genomic analysis of Enterococcus faecium genomes. BMC Microbiol. 2012 Jul 07; 12:135. PMID: 22769602; PMCID: PMC3433357.
      Citations: 66     Fields:    Translation:HumansCells
    201. Nagy-Szakal D, Ross MC, Dowd SE, Mir SA, Schaible TD, Petrosino JF, Kellermayer R. Maternal micronutrients can modify colonic mucosal microbiota maturation in murine offspring. Gut Microbes. 2012 Sep-Oct; 3(5):426-33. PMID: 22713270; PMCID: PMC3679229.
      Citations: 14     Fields:    Translation:AnimalsCells
    202. Aagaard K, Riehle K, Ma J, Segata N, Mistretta TA, Coarfa C, Raza S, Rosenbaum S, Van den Veyver I, Milosavljevic A, Gevers D, Huttenhower C, Petrosino J, Versalovic J. A metagenomic approach to characterization of the vaginal microbiome signature in pregnancy. PLoS One. 2012; 7(6):e36466. PMID: 22719832; PMCID: PMC3374618.
      Citations: 238     Fields:    Translation:HumansCells
    203. Schloss PD, Schubert AM, Zackular JP, Iverson KD, Young VB, Petrosino JF. Stabilization of the murine gut microbiome following weaning. Gut Microbes. 2012 Jul-Aug; 3(4):383-93. PMID: 22688727; PMCID: PMC3463496.
      Citations: 65     Fields:    Translation:Animals
    204. Zhao J, Schloss PD, Kalikin LM, Carmody LA, Foster BK, Petrosino JF, Cavalcoli JD, VanDevanter DR, Murray S, Li JZ, Young VB, LiPuma JJ. Decade-long bacterial community dynamics in cystic fibrosis airways. Proc Natl Acad Sci U S A. 2012 Apr 10; 109(15):5809-14. PMID: 22451929; PMCID: PMC3326496.
      Citations: 277     Fields:    Translation:HumansCells
    205. Zhao J, Carmody LA, Kalikin LM, Li J, Petrosino JF, Schloss PD, Young VB, LiPuma JJ. Impact of enhanced Staphylococcus DNA extraction on microbial community measures in cystic fibrosis sputum. PLoS One. 2012; 7(3):e33127. PMID: 22412992; PMCID: PMC3297625.
      Citations: 34     Fields:    Translation:HumansCells
    206. Preidis GA, Saulnier DM, Blutt SE, Mistretta TA, Riehle KP, Major AM, Venable SF, Finegold MJ, Petrosino JF, Conner ME, Versalovic J. Probiotics stimulate enterocyte migration and microbial diversity in the neonatal mouse intestine. FASEB J. 2012 May; 26(5):1960-9. PMID: 22267340; PMCID: PMC3336785.
      Citations: 48     Fields:    Translation:AnimalsCells
    207. Sczesnak A, Segata N, Qin X, Gevers D, Petrosino JF, Huttenhower C, Littman DR, Ivanov II. The genome of th17 cell-inducing segmented filamentous bacteria reveals extensive auxotrophy and adaptations to the intestinal environment. Cell Host Microbe. 2011 Sep 15; 10(3):260-72. PMID: 21925113; PMCID: PMC3209701.
      Citations: 90     Fields:    Translation:HumansAnimalsCells
    208. Zhao J, Li J, Schloss PD, Kalikin LM, Raymond TA, Petrosino JF, Young VB, LiPuma JJ. Effect of sample storage conditions on culture-independent bacterial community measures in cystic fibrosis sputum specimens. J Clin Microbiol. 2011 Oct; 49(10):3717-8. PMID: 21865433; PMCID: PMC3187318.
      Citations: 17     Fields:    Translation:HumansCells
    209. Saulnier DM, Riehle K, Mistretta TA, Diaz MA, Mandal D, Raza S, Weidler EM, Qin X, Coarfa C, Milosavljevic A, Petrosino JF, Highlander S, Gibbs R, Lynch SV, Shulman RJ, Versalovic J. Gastrointestinal microbiome signatures of pediatric patients with irritable bowel syndrome. Gastroenterology. 2011 Nov; 141(5):1782-91. PMID: 21741921; PMCID: PMC3417828.
      Citations: 248     Fields:    Translation:HumansCells
    210. Yilmaz P, Kottmann R, Field D, Knight R, Cole JR, Amaral-Zettler L, Gilbert JA, Karsch-Mizrachi I, Johnston A, Cochrane G, Vaughan R, Hunter C, Park J, Morrison N, Rocca-Serra P, Sterk P, Arumugam M, Bailey M, Baumgartner L, Birren BW, Blaser MJ, Bonazzi V, Booth T, Bork P, Bushman FD, Buttigieg PL, Chain PS, Charlson E, Costello EK, Huot-Creasy H, Dawyndt P, DeSantis T, Fierer N, Fuhrman JA, Gallery RE, Gevers D, Gibbs RA, San Gil I, Gonzalez A, Gordon JI, Guralnick R, Hankeln W, Highlander S, Hugenholtz P, Jansson J, Kau AL, Kelley ST, Kennedy J, Knights D, Koren O, Kuczynski J, Kyrpides N, Larsen R, Lauber CL, Legg T, Ley RE, Lozupone CA, Ludwig W, Lyons D, Maguire E, Meyer F, Muegge B, Nakielny S, Nelson KE, Nemergut D, Neufeld JD, Newbold LK, Oliver AE, Pace NR, Palanisamy G, Petrosino J, Proctor L, Pruesse E, Quast C, Raes J, Ratnasingham S, Ravel J, Relman DA, Assunta-Sansone S, Schloss PD, Schriml L, Sinha R, Smith MI, Sodergren E, Stombaugh J, Tiedje JM, Ward DV, Weinstock GM, Wendel D, White O, Whiteley A, Wilke A, Wortman JR, Yatsunenko T, Meth? BA, Peplies J, Spo A, Gl?ckner FO. Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications. Nat Biotechnol. 2011 May; 29(5):415-20. PMID: 21552244; PMCID: PMC3367316.
      Citations: 256     Fields:    Translation:Humans
    211. Haas BJ, Gevers D, Earl AM, Feldgarden M, Ward DV, Giannoukos G, Ciulla D, Tabbaa D, Highlander SK, Sodergren E, DeSantis TZ, Human Microbiome Consortium, Petrosino JF, Knight R, Birren BW, Meth? B. Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons. Genome Res. 2011 Mar; 21(3):494-504. PMID: 21212162; PMCID: PMC3044863.
      Citations: 1247     Fields:    Translation:Cells
    212. Human Microbiome Jumpstart Reference Strains Consortium, Nelson KE, Weinstock GM, Highlander SK, Worley KC, Creasy HH, Wortman JR, Rusch DB, Mitreva M, Sodergren E, Chinwalla AT, Feldgarden M, Gevers D, Haas BJ, Madupu R, Ward DV, Birren BW, Gibbs RA, Methe B, Petrosino JF, Strausberg RL, Sutton GG, White OR, Wilson RK, Durkin S, Giglio MG, Gujja S, Howarth C, Kodira CD, Kyrpides N, Mehta T, Muzny DM, Pearson M, Pepin K, Pati A, Qin X, Yandava C, Zeng Q, Zhang L, Berlin AM, Chen L, Hepburn TA, Johnson J, McCorrison J, Miller J, Minx P, Nusbaum C, Russ C, Sykes SM, Tomlinson CM, Young S, Warren WC, Badger J, Crabtree J, Markowitz VM, Orvis J, Cree A, Ferriera S, Fulton LL, Fulton RS, Gillis M, Hemphill LD, Joshi V, Kovar C, Torralba M, Wetterstrand KA, Abouellleil A, Wollam AM, Buhay CJ, Ding Y, Dugan S, FitzGerald MG, Holder M, Hostetler J, Clifton SW, Allen-Vercoe E, Earl AM, Farmer CN, Liolios K, Surette MG, Xu Q, Pohl C, Wilczek-Boney K, Zhu D. A catalog of reference genomes from the human microbiome. Science. 2010 May 21; 328(5981):994-9. PMID: 20489017; PMCID: PMC2940224.
      Citations: 303     Fields:    Translation:HumansCells
    213. Petrosino JF, Galhardo RS, Morales LD, Rosenberg SM. Stress-induced beta-lactam antibiotic resistance mutation and sequences of stationary-phase mutations in the Escherichia coli chromosome. J Bacteriol. 2009 Oct; 191(19):5881-9. PMID: 19648247; PMCID: PMC2747895.
      Citations: 43     Fields:    Translation:Cells
    214. Petrosino JF, Highlander S, Luna RA, Gibbs RA, Versalovic J. Metagenomic pyrosequencing and microbial identification. Clin Chem. 2009 May; 55(5):856-66. PMID: 19264858; PMCID: PMC2892905.
      Citations: 153     Fields:    Translation:Humans
    215. Gao H, Pattison D, Yan T, Klingeman DM, Wang X, Petrosino J, Hemphill L, Wan X, Leaphart AB, Weinstock GM, Palzkill T, Zhou J. Generation and validation of a Shewanella oneidensis MR-1 clone set for protein expression and phage display. PLoS One. 2008 Aug 20; 3(8):e2983. PMID: 18714347; PMCID: PMC2500165.
      Citations: 8     Fields:    Translation:Cells
    216. Strouhal M, Smajs D, Norris SJ, Palzkill T, Petrosino JF, Sodergren E, Norton JE, Singh J, Richmond TA, Molla MN, Albert TJ, Weinstock GM, Matejkov? P. Complete genome sequence of Treponema pallidum ssp. pallidum strain SS14 determined with oligonucleotide arrays. BMC Microbiol. 2008 May 15; 8:76. PMID: 18482458; PMCID: PMC2408589.
      Citations: 38     Fields:    Translation:HumansAnimalsCells
    217. Durfee T, Nelson R, Baldwin S, Plunkett G, Burland V, Mau B, Petrosino JF, Qin X, Muzny DM, Ayele M, Gibbs RA, Weinstock GM, Blattner FR, Cs?rgo B, P?sfai G. The complete genome sequence of Escherichia coli DH10B: insights into the biology of a laboratory workhorse. J Bacteriol. 2008 Apr; 190(7):2597-606. PMID: 18245285; PMCID: PMC2293198.
      Citations: 151     Fields:    Translation:Cells
    218. Highlander SK, Qin X, Jiang H, Yerrapragada S, Mason EO, Shang Y, Williams TM, Liu Y, Igboeli O, Petrosino J, Tirumalai M, Uzman A, Fox GE, Cardenas AM, Muzny DM, Hemphill L, Ding Y, Dugan S, Blyth PR, Buhay CJ, Dinh HH, Hawes AC, Holder M, Kovar CL, Lee SL, Liu W, Nazareth LV, Wang Q, Zhou J, Kaplan SL, Weinstock GM, Hult?n KG, Fortunov RM. Subtle genetic changes enhance virulence of methicillin resistant and sensitive Staphylococcus aureus. BMC Microbiol. 2007 Nov 06; 7:99. PMID: 17986343; PMCID: PMC2222628.
      Citations: 140     Fields:    Translation:HumansCells
    219. Gioia J, Yerrapragada S, Qin X, Jiang H, Igboeli OC, Muzny D, Dugan-Rocha S, Ding Y, Hawes A, Liu W, Perez L, Kovar C, Dinh H, Lee S, Nazareth L, Blyth P, Holder M, Buhay C, Tirumalai MR, Liu Y, Dasgupta I, Bokhetache L, Fujita M, Karouia F, Eswara Moorthy P, Siefert J, Uzman A, Buzumbo P, Verma A, Zwiya H, McWilliams BD, Olowu A, Clinkenbeard KD, Newcombe D, Golebiewski L, Petrosino JF, Nicholson WL, Fox GE, Venkateswaran K, Highlander SK, Weinstock GM. Paradoxical DNA repair and peroxide resistance gene conservation in Bacillus pumilus SAFR-032. PLoS One. 2007 Sep 26; 2(9):e928. PMID: 17895969; PMCID: PMC1976550.
      Citations: 52     Fields:    Translation:Cells
    220. Karpathy SE, Qin X, Gioia J, Jiang H, Liu Y, Petrosino JF, Yerrapragada S, Fox GE, Haake SK, Weinstock GM, Highlander SK. Genome sequence of Fusobacterium nucleatum subspecies polymorphum - a genetically tractable fusobacterium. PLoS One. 2007 Aug 01; 2(7):e659. PMID: 17668047; PMCID: PMC1924603.
      Citations: 28     Fields:    Translation:HumansCells
    221. Titball RW, Petrosino JF. Francisella tularensis genomics and proteomics. Ann N Y Acad Sci. 2007 Jun; 1105:98-121. PMID: 17435122.
      Citations: 33     Fields:    Translation:HumansAnimalsCells
    222. Petrosino JF, Xiang Q, Karpathy SE, Jiang H, Yerrapragada S, Liu Y, Gioia J, Hemphill L, Gonzalez A, Raghavan TM, Uzman A, Fox GE, Highlander S, Reichard M, Morton RJ, Clinkenbeard KD, Weinstock GM. Chromosome rearrangement and diversification of Francisella tularensis revealed by the type B (OSU18) genome sequence. J Bacteriol. 2006 Oct; 188(19):6977-85. PMID: 16980500; PMCID: PMC1595524.
      Citations: 51     Fields:    Translation:Cells
    223. Hastings PJ, Slack A, Petrosino JF, Rosenberg SM. Adaptive amplification and point mutation are independent mechanisms: evidence for various stress-inducible mutation mechanisms. PLoS Biol. 2004 Dec; 2(12):e399. PMID: 15550983; PMCID: PMC529313.
      Citations: 45     Fields:    Translation:Cells
    224. McCool JD, Long E, Petrosino JF, Sandler HA, Rosenberg SM, Sandler SJ. Measurement of SOS expression in individual Escherichia coli K-12 cells using fluorescence microscopy. Mol Microbiol. 2004 Sep; 53(5):1343-57. PMID: 15387814.
      Citations: 98     Fields:    Translation:Cells
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