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Lung tissue microbial profile in lung cancer is distinct from emphysema.

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.

Am J Cancer Res. 2018 Sep 1;8(9):1775-1787. eCollection 2018.


Circulating 25-hydroxyvitamin D, nasopharyngeal microbiota, and bronchiolitis severity.

Toivonen L, Hasegawa K, Ajami NJ, Celedón JC, Mansbach JM, Petrosino JF, Camargo CA Jr.

Pediatr Allergy Immunol. 2018 Aug 28. doi: 10.1111/pai.12977. [Epub ahead of print]


Correction: Effects of tobacco smoke and electronic cigarette vapor exposure on the oral and gut microbiota in humans: a pilot study.

Stewart CJ, Auchtung TA, Ajami NJ, Velasquez K, Smith DP, De La Garza R 2nd, Salas R, Petrosino JF.

PeerJ. 2018 Aug 23;6. pii: e4693/correction-1. doi: 10.7717/peerj.4693/correction-1. eCollection 2018.


Maximal viral information recovery from sequence data using VirMAP.

Ajami NJ, Wong MC, Ross MC, Lloyd RE, Petrosino JF.

Nat Commun. 2018 Aug 10;9(1):3205. doi: 10.1038/s41467-018-05658-8.


Effects of tobacco smoke and electronic cigarette vapor exposure on the oral and gut microbiota in humans: a pilot study.

Stewart CJ, Auchtung TA, Ajami NJ, Velasquez K, Smith DP, De La Garza R 2nd, Salas R, Petrosino JF.

PeerJ. 2018 Apr 30;6:e4693. doi: 10.7717/peerj.4693. eCollection 2018. Erratum in: PeerJ. 2018 Aug 23;6:.


Oral microbiota reveals signs of acculturation in Mexican American women.

Hoffman KL, Hutchinson DS, Fowler J, Smith DP, Ajami NJ, Zhao H, Scheet P, Chow WH, Petrosino JF, Daniel CR.

PLoS One. 2018 Apr 25;13(4):e0194100. doi: 10.1371/journal.pone.0194100. eCollection 2018.


Antibiotic-mediated bacteriome depletion in ApcMin/+ mice is associated with reduction in mucus-producing goblet cells and increased colorectal cancer progression.

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.

Cancer Med. 2018 May;7(5):2003-2012. doi: 10.1002/cam4.1460. Epub 2018 Apr 6.


Investigating Colonization of the Healthy Adult Gastrointestinal Tract by Fungi.

Auchtung TA, Fofanova TY, Stewart CJ, Nash AK, Wong MC, Gesell JR, Auchtung JM, Ajami NJ, Petrosino JF.

mSphere. 2018 Mar 28;3(2). pii: e00092-18. doi: 10.1128/mSphere.00092-18. eCollection 2018 Mar-Apr.


A Lachnospiraceae-dominated bacterial signature in the fecal microbiota of HIV-infected individuals from Colombia, South America.

San-Juan-Vergara H, Zurek E, Ajami NJ, Mogollon C, Peña M, Portnoy I, Vélez JI, Cadena-Cruz C, Diaz-Olmos Y, Hurtado-Gómez L, Sanchez-Sit S, Hernández D, Urruchurtu I, Di-Ruggiero P, Guardo-García E, Torres N, Vidal-Orjuela O, Viasus D, Petrosino JF, Cervantes-Acosta G.

Sci Rep. 2018 Mar 14;8(1):4479. doi: 10.1038/s41598-018-22629-7.


Influence of fecal collection conditions and 16S rRNA gene sequencing at two centers on human gut microbiota analysis.

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*.

Sci Rep. 2018 Mar 12;8(1):4386. doi: 10.1038/s41598-018-22491-7.


Arginine Metabolism Is Altered in Adults with A-β + Ketosis-Prone Diabetes.

Mulukutla SN, Hsu JW, Gaba R, Bohren KM, Guthikonda A, Iyer D, Ajami NJ, Petrosino JF, Hampe CS, Ram N, Jahoor F, Balasubramanyam A.

J Nutr. 2018 Feb 1;148(2):185-193. doi: 10.1093/jn/nxx032.


The microbiome in precision medicine: the way forward.

Petrosino JF.

Genome Med. 2018 Feb 22;10(1):12. doi: 10.1186/s13073-018-0525-6.


Impact of Oral Fidaxomicin Administration on the Intestinal Microbiota and Susceptibility to Clostridium difficile Colonization in Mice.

Ajami NJ, Cope JL, Wong MC, Petrosino JF, Chesnel L.

Antimicrob Agents Chemother. 2018 Apr 26;62(5). pii: e02112-17. doi: 10.1128/AAC.02112-17. Print 2018 May.


Challenges of Francisella classification exemplified by an atypical clinical isolate.

Matz LM, Kamdar KY, Holder ME, Metcalf GA, Weissenberger GM, Meng Q, Vee V, Han Y, Muzny DM, Gibbs RA, Johnson CL, Revell PA, Petrosino JF.

Diagn Microbiol Infect Dis. 2018 Apr;90(4):241-247. doi: 10.1016/j.diagmicrobio.2017.11.023. Epub 2017 Dec 6.


The association between anterior nares and nasopharyngeal microbiota in infants hospitalized for bronchiolitis.

Luna PN, Hasegawa K, Ajami NJ, Espinola JA, Henke DM, Petrosino JF, Piedra PA, Sullivan AF, Camargo CA Jr, Shaw CA, Mansbach JM.

Microbiome. 2018 Jan 3;6(1):2. doi: 10.1186/s40168-017-0385-0.


Respiratory Syncytial Virus and Rhinovirus Bronchiolitis Are Associated With Distinct Metabolic Pathways.

Stewart CJ, Hasegawa K, Wong MC, Ajami NJ, Petrosino JF, Piedra PA, Espinola JA, Tierney CN, Camargo CA Jr, Mansbach JM.

J Infect Dis. 2018 Mar 13;217(7):1160-1169. doi: 10.1093/infdis/jix680.


Successful collection of stool samples for microbiome analyses from a large community-based population of elderly men.

Abrahamson M, Hooker E, Ajami NJ, Petrosino JF, Orwoll ES.

Contemp Clin Trials Commun. 2017 Sep;7:158-162. doi: 10.1016/j.conctc.2017.07.002. Epub 2017 Jul 6.


The gut mycobiome of the Human Microbiome Project healthy cohort.

Nash AK, Auchtung TA, Wong MC, Smith DP, Gesell JR, Ross MC, Stewart CJ, Metcalf GA, Muzny DM, Gibbs RA, Ajami NJ, Petrosino JF.

Microbiome. 2017 Nov 25;5(1):153. doi: 10.1186/s40168-017-0373-4.


Gut microbiome modulates response to anti-PD-1 immunotherapy in melanoma patients.

Gopalakrishnan V, Spencer CN, Nezi L, Reuben A, Andrews MC, Karpinets TV, Prieto PA, Vicente D, Hoffman K, Wei SC, Cogdill AP, Zhao L, Hudgens CW, Hutchinson DS, Manzo T, Petaccia de Macedo M, Cotechini T, Kumar T, Chen WS, Reddy SM, Szczepaniak Sloane R, Galloway-Pena J, Jiang H, Chen PL, Shpall EJ, Rezvani K, Alousi AM, Chemaly RF, Shelburne S, Vence LM, Okhuysen PC, Jensen VB, Swennes AG, McAllister F, Marcelo Riquelme Sanchez E, Zhang Y, Le Chatelier E, Zitvogel L, Pons N, Austin-Breneman JL, Haydu LE, Burton EM, Gardner JM, Sirmans E, Hu J, Lazar AJ, Tsujikawa T, Diab A, Tawbi H, Glitza IC, Hwu WJ, Patel SP, Woodman SE, Amaria RN, Davies MA, Gershenwald JE, Hwu P, Lee JE, Zhang J, Coussens LM, Cooper ZA, Futreal PA, Daniel CR, Ajami NJ, Petrosino JF, Tetzlaff MT, Sharma P, Allison JP, Jenq RR, Wargo JA.

Science. 2018 Jan 5;359(6371):97-103. doi: 10.1126/science.aan4236. Epub 2017 Nov 2.


Impact of Age-Related Mitochondrial Dysfunction and Exercise on Intestinal Microbiota Composition.

Houghton D, Stewart CJ, Stamp C, Nelson A, Aj Ami NJ, Petrosino JF, Wipat A, Trenell MI, Turnbull DM, Greaves LC.

J Gerontol A Biol Sci Med Sci. 2018 Apr 17;73(5):571-578. doi: 10.1093/gerona/glx197.


Complete Genome Sequence of Vibrio gazogenes ATCC 43942.

Gummadidala PM, Holder ME, O'Brien JL, Ajami NJ, Petrosino JF, Mitra C, Chen YP, Decho AW, Chanda A.

Genome Announc. 2017 Jul 27;5(30). pii: e00733-17. doi: 10.1128/genomeA.00733-17.


Sphingolipid metabolism potential in fecal microbiome and bronchiolitis in infants: a case-control study.

Hasegawa K, Stewart CJ, Mansbach JM, Linnemann RW, Ajami NJ, Petrosino JF, Camargo CA.

BMC Res Notes. 2017 Jul 26;10(1):325. doi: 10.1186/s13104-017-2659-9.


Impact of environmental microbiota on human microbiota of workers in academic mouse research facilities: An observational study.

Lai PS, Allen JG, Hutchinson DS, Ajami NJ, Petrosino JF, Winters T, Hug C, Wartenberg GR, Vallarino J, Christiani DC.

PLoS One. 2017 Jul 13;12(7):e0180969. doi: 10.1371/journal.pone.0180969. eCollection 2017.


Longitudinal development of the gut microbiome and metabolome in preterm neonates with late onset sepsis and healthy controls.

Stewart CJ, Embleton ND, Marrs ECL, Smith DP, Fofanova T, Nelson A, Skeath T, Perry JD, Petrosino JF, Berrington JE, Cummings SP.

Microbiome. 2017 Jul 12;5(1):75. doi: 10.1186/s40168-017-0295-1.


Cesarean or Vaginal Birth Does Not Impact the Longitudinal Development of the Gut Microbiome in a Cohort of Exclusively Preterm Infants.

Stewart CJ, Embleton ND, Clements E, Luna PN, Smith DP, Fofanova TY, Nelson A, Taylor G, Orr CH, Petrosino JF, Berrington JE, Cummings SP.

Front Microbiol. 2017 Jun 6;8:1008. doi: 10.3389/fmicb.2017.01008. eCollection 2017.


Serum LL-37 Levels Associated With Severity of Bronchiolitis and Viral Etiology.

Mansbach JM, Hasegawa K, Ajami NJ, Petrosino JF, Piedra PA, Tierney CN, Espinola JA, Camargo CA.

Clin Infect Dis. 2017 Sep 15;65(6):967-975. doi: 10.1093/cid/cix483.


Microbiome disruption and recovery in the fish Gambusia affinis following exposure to broad-spectrum antibiotic.

Carlson JM, Leonard AB, Hyde ER, Petrosino JF, Primm TP.

Infect Drug Resist. 2017 May 9;10:143-154. doi: 10.2147/IDR.S129055. eCollection 2017.


Associations of Nasopharyngeal Metabolome and Microbiome with Severity among Infants with Bronchiolitis. A Multiomic Analysis.

Stewart CJ, Mansbach JM, Wong MC, Ajami NJ, Petrosino JF, Camargo CA Jr, Hasegawa K.

Am J Respir Crit Care Med. 2017 Oct 1;196(7):882-891. doi: 10.1164/rccm.201701-0071OC.


Fusobacterium Nucleatum Subspecies Animalis Influences Proinflammatory Cytokine Expression and Monocyte Activation in Human Colorectal Tumors.

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.

Cancer Prev Res (Phila). 2017 Jul;10(7):398-409. doi: 10.1158/1940-6207.CAPR-16-0178. Epub 2017 May 8.


Development of the cutaneous microbiome in the preterm infant: A prospective longitudinal study.

Pammi M, O'Brien JL, Ajami NJ, Wong MC, Versalovic J, Petrosino JF.

PLoS One. 2017 Apr 27;12(4):e0176669. doi: 10.1371/journal.pone.0176669. eCollection 2017.


Single Delivery of High-Diversity Fecal Microbiota Preparation by Colonoscopy Is Safe and Effective in Increasing Microbial Diversity in Active Ulcerative Colitis.

Jacob V, Crawford C, Cohen-Mekelburg S, Viladomiu M, Putzel GG, Schneider Y, Chabouni F, OʼNeil 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.

Inflamm Bowel Dis. 2017 Jun;23(6):903-911. doi: 10.1097/MIB.0000000000001132.


The relationship between nasopharyngeal CCL5 and microbiota on disease severity among infants with bronchiolitis.

Hasegawa K, Mansbach JM, Ajami NJ, Petrosino JF, Freishtat RJ, Teach SJ, Piedra PA, Camargo CA Jr.

Allergy. 2017 Nov;72(11):1796-1800. doi: 10.1111/all.13160. Epub 2017 Apr 12.


Isolation and concentration of bacteria from blood using microfluidic membraneless dialysis and dielectrophoresis.

D'Amico L, Ajami NJ, Adachi JA, Gascoyne PR, Petrosino JF.

Lab Chip. 2017 Mar 29;17(7):1340-1348. doi: 10.1039/c6lc01277a.


Association of Maternal Gestational Weight Gain With the Infant Fecal Microbiota.

Robinson A, Fiechtner L, Roche B, Ajami NJ, Petrosino JF, Camargo CA Jr, Taveras EM, Hasegawa K.

J Pediatr Gastroenterol Nutr. 2017 Nov;65(5):509-515. doi: 10.1097/MPG.0000000000001566.


Characterization of oral and gut microbiome temporal variability in hospitalized cancer patients.

Galloway-Peña JR, Smith DP, Sahasrabhojane P, Wadsworth WD, Fellman BM, Ajami NJ, Shpall EJ, Daver N, Guindani M, Petrosino JF, Kontoyiannis DP, Shelburne SA.

Genome Med. 2017 Feb 28;9(1):21. doi: 10.1186/s13073-017-0409-1.


Randomised clinical trial: faecal microbiota transplantation for recurrent Clostridum difficile infection - fresh, or frozen, or lyophilised microbiota from a small pool of healthy donors delivered by colonoscopy.

Jiang ZD, Ajami NJ, Petrosino JF, Jun G, Hanis CL, Shah M, Hochman L, Ankoma-Sey V, DuPont AW, Wong MC, Alexander A, Ke S, DuPont HL.

Aliment Pharmacol Ther. 2017 Apr;45(7):899-908. doi: 10.1111/apt.13969. Epub 2017 Feb 21.


IgA-coated E. coli enriched in Crohn's disease spondyloarthritis promote TH17-dependent inflammation.

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.

Sci Transl Med. 2017 Feb 8;9(376). pii: eaaf9655. doi: 10.1126/scitranslmed.aaf9655.


Conjunctival Microbiome Changes Associated With Soft Contact Lens and Orthokeratology Lens Wearing.

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.

Invest Ophthalmol Vis Sci. 2017 Jan 1;58(1):128-136. doi: 10.1167/iovs.16-20231.


The Gut Microbiome of the Vector Lutzomyia longipalpis Is Essential for Survival of Leishmania infantum.

Kelly PH, Bahr SM, Serafim TD, Ajami NJ, Petrosino JF, Meneses C, Kirby JR, Valenzuela JG, Kamhawi S, Wilson ME.

MBio. 2017 Jan 17;8(1). pii: e01121-16. doi: 10.1128/mBio.01121-16.


Gut microbiota as a source of a surrogate antigen that triggers autoimmunity in an immune privileged site.

Zárate-Bladés CR, Horai R, Mattapallil MJ, Ajami NJ, Wong M, Petrosino JF, Itoh K, Chan CC, Caspi RR.

Gut Microbes. 2017 Jan 2;8(1):59-66. doi: 10.1080/19490976.2016.1273996. Epub 2017 Jan 3. Review.


Temporal bacterial and metabolic development of the preterm gut reveals specific signatures in health and disease.

Stewart CJ, Embleton ND, Marrs EC, Smith DP, Nelson A, Abdulkadir B, Skeath T, Petrosino JF, Perry JD, Berrington JE, Cummings SP.

Microbiome. 2016 Dec 29;4(1):67. doi: 10.1186/s40168-016-0216-8.


Alterations in the gut microbiota can elicit hypertension in rats.

Adnan S, Nelson JW, Ajami NJ, Venna VR, Petrosino JF, Bryan RM Jr, Durgan DJ.

Physiol Genomics. 2017 Feb 1;49(2):96-104. doi: 10.1152/physiolgenomics.00081.2016. Epub 2016 Dec 23.


Nasal Airway Microbiota Profile and Severe Bronchiolitis in Infants: A Case-control Study.

Hasegawa K, Linnemann RW, Mansbach JM, Ajami NJ, Espinola JA, Petrosino JF, Piedra PA, Stevenson MD, Sullivan AF, Thompson AD, Camargo CA Jr.

Pediatr Infect Dis J. 2017 Nov;36(11):1044-1051. doi: 10.1097/INF.0000000000001500.


Serum cathelicidin, nasopharyngeal microbiota, and disease severity among infants hospitalized with bronchiolitis.

Hasegawa K, Mansbach JM, Ajami NJ, Petrosino JF, Freishtat RJ, Teach SJ, Piedra PA, Camargo CA Jr.

J Allergy Clin Immunol. 2017 Apr;139(4):1383-1386.e6. doi: 10.1016/j.jaci.2016.09.037. Epub 2016 Nov 12. No abstract available.


Genetic and Environmental Determinants of Otitis Media in an Indigenous Filipino Population.

Santos-Cortez RL, Reyes-Quintos MR, Tantoco ML, Abbe I, Llanes EG, Ajami NJ, Hutchinson DS, Petrosino JF, Padilla CD, Villarta RL Jr, Gloria-Cruz TL, Chan AL, Cutiongco-de la Paz EM, Chiong CM, Leal SM, Abes GT.

Otolaryngol Head Neck Surg. 2016 Nov;155(5):856-862. Epub 2016 Aug 2.


Association of nasopharyngeal microbiota profiles with bronchiolitis severity in infants hospitalised for bronchiolitis.

Hasegawa K, Mansbach JM, Ajami NJ, Espinola JA, Henke DM, Petrosino JF, Piedra PA, Shaw CA, Sullivan AF, Camargo CA Jr; the MARC-35 Investigators.

Eur Respir J. 2016 Nov;48(5):1329-1339. doi: 10.1183/13993003.00152-2016. Epub 2016 Oct 6.


Middle ear microbiome differences in indigenous Filipinos with chronic otitis media due to a duplication in the A2ML1 gene.

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.

Infect Dis Poverty. 2016 Nov 1;5(1):97.


Universal microbial diagnostics using random DNA probes.

Aghazadeh A, Lin AY, Sheikh MA, Chen AL, Atkins LM, Johnson CL, Petrosino JF, Drezek RA, Baraniuk RG.

Sci Adv. 2016 Sep 28;2(9):e1600025. eCollection 2016 Sep.


Household siblings and nasal and fecal microbiota in infants.

Hasegawa K, Linnemann RW, Mansbach JM, Ajami NJ, Espinola JA, Fiechtner LG, Petrosino JF, Camargo CA Jr.

Pediatr Int. 2017 Apr;59(4):473-481. doi: 10.1111/ped.13168. Epub 2016 Dec 22.


Morphine Promotes Colonization of Anastomotic Tissues with Collagenase - Producing Enterococcus faecalis and Causes Leak.

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.

J Gastrointest Surg. 2016 Oct;20(10):1744-51. doi: 10.1007/s11605-016-3237-5. Epub 2016 Aug 16.


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