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Select item 101510671.

Staphylococcal diversity in atopic dermatitis from an individual to a global scale

Sara Saheb Kashaf, Catriona P. Harkins, Clay Deming, Payal Joglekar, Sean Conlan, Cassandra J. Holmes, NISC Comparative Sequencing Program, Alexandre Almeida, Robert D. Finn, Julia A. Segre, Heidi H. Kong

Cell Host Microbe. Author manuscript; available in PMC 2024 Apr 12.

Published in final edited form as: Cell Host Microbe. 2023 Apr 12; 31(4): 578–592.e6. doi: 10.1016/j.chom.2023.03.010

PMCID:: PMC10151067

Article PDF–2.2M

Select item 82018032.

A catalog of tens of thousands of viruses from human metagenomes reveals hidden associations with chronic diseases

Michael J. Tisza, Christopher B. Buck

Proc Natl Acad Sci U S A. 2021 Jun 8; 118(23): e2023202118. Published online 2021 Jun 3. doi: 10.1073/pnas.2023202118

PMCID:: PMC8201803

Article PDF–3.1M

Select item 58310823.

Strains, functions and dynamics in the expanded Human Microbiome Project

Jason Lloyd-Price, Anup Mahurkar, Gholamali Rahnavard, Jonathan Crabtree, Joshua Orvis, A. Brantley Hall, Arthur Brady, Heather H. Creasy, Carrie McCracken, Michelle G. Giglio, Daniel McDonald, Eric A. Franzosa, Rob Knight, Owen White, Curtis Huttenhower

Nature. 2017; 550(7674): 61–66. Published online 2017 Sep 20. doi: 10.1038/nature23889

Correction in:: Nature. 2017; 551(7679): 256.

PMCID:: PMC5831082

Article PDF–17M

Select item 57065454.

Staphylococcus aureus and S. epidermidis strain diversity underlying human atopic dermatitis

Allyson L. Byrd, Clay Deming, Sara K.B. Cassidy, Oliver J. Harrison, Weng-Ian Ng, Sean Conlan, NISC Comparative Sequencing Program, Yasmine Belkaid, Julia A. Segre, Heidi H. Kong

Sci Transl Med. Author manuscript; available in PMC 2018 Jul 5.

Published in final edited form as: Sci Transl Med. 2017 Jul 5; 9(397): eaal4651. doi: 10.1126/scitranslmed.aal4651

PMCID:: PMC5706545

Article PDF–1.1M

Select item 53589315.

Exploring the genomic diversity of black yeasts and relatives (Chaetothyriales, Ascomycota)

M.M. Teixeira, L.F. Moreno, B.J. Stielow, A. Muszewska, M. Hainaut, L. Gonzaga, A. Abouelleil, J.S.L. Patané, M. Priest, R. Souza, S. Young, K.S. Ferreira, Q. Zeng, M.M.L. da Cunha, A. Gladki, B. Barker, V.A. Vicente, E.M. de Souza, S. Almeida, B. Henrissat, A.T.R. Vasconcelos, S. Deng, H. Voglmayr, T.A.A. Moussa, A. Gorbushina, M.S.S. Felipe, C.A. Cuomo, G. Sybren de Hoog

Stud Mycol. 2017 Mar; 86: 1–28. Published online 2017 Jan 27. doi: 10.1016/j.simyco.2017.01.001

PMCID:: PMC5358931

Article PDF–7.8M

Select item 42064746.

An Emerging Mycoplasma Associated with Trichomoniasis, Vaginal Infection and Disease

Jennifer M. Fettweis, Myrna G. Serrano, Bernice Huang, J. Paul Brooks, Abigail L. Glascock, Nihar U. Sheth, Vaginal Microbiome Consortium, Jerome F. Strauss, III, Kimberly K. Jefferson, Gregory A. Buck

PLoS One. 2014; 9(10): e110943. Published online 2014 Oct 22. doi: 10.1371/journal.pone.0110943

PMCID:: PMC4206474

Article PDF–2.0M

Select item 41854047.

Biogeography and individuality shape function in the human skin metagenome

Julia Oh, Allyson L. Byrd, Clay Deming, Sean Conlan, NISC Comparative Sequencing Program, Heidi H. Kong, Julia A. Segre

Nature. Author manuscript; available in PMC 2015 Apr 1.

Published in final edited form as: Nature. 2014 Oct 2; 514(7520): 59–64. doi: 10.1038/nature13786

PMCID:: PMC4185404

Article PDF–8.6M

Select item 41617428.

Draft Genome Sequences of Six Enterohepatic Helicobacter Species Isolated from Humans and One from Rhesus Macaques

Zeli Shen, Alexander Sheh, Sarah K. Young, Amr Abouelliel, Doyle V. Ward, Ashlee M. Earl, James G. Fox

Genome Announc. 2014 Sep-Oct; 2(5): e00857-14. Published online 2014 Sep 11. doi: 10.1128/genomeA.00857-14

PMCID:: PMC4161742

Article PDF–191K

Select item 41612539.

Analysis of a Food-Borne Fungal Pathogen Outbreak: Virulence and Genome of a Mucor circinelloides Isolate from Yogurt

Soo Chan Lee, R. Blake Billmyre, Alicia Li, Sandra Carson, Sean M. Sykes, Eun Young Huh, Piotr Mieczkowski, Dennis C. Ko, Christina A. Cuomo, Joseph Heitman

mBio. 2014 Jul-Aug; 5(4): e01390-14. Published online 2014 Jul 8. doi: 10.1128/mBio.01390-14

PMCID:: PMC4161253

Article PDF–1.9M

Select item 403133810.

Genome Sequence of the Pathogenic Fungus Sporothrix schenckii (ATCC 58251)

Christina A. Cuomo, Nuri Rodriguez-Del Valle, Lizaida Perez-Sanchez, Amr Abouelleil, Jonathan Goldberg, Sarah Young, Qiandong Zeng, Bruce W. Birren

Genome Announc. 2014 May-Jun; 2(3): e00446-14. Published online 2014 May 22. doi: 10.1128/genomeA.00446-14

PMCID:: PMC4031338

Article PDF–129K

Select item 385494811.

Genome Project Standards in a New Era of Sequencing

P. S. G. Chain, D. V. Grafham, R. S. Fulton, M. G. FitzGerald, J. Hostetler, D. Muzny, J. Ali, B. Birren, D. C. Bruce, C. Buhay, J. R. Cole, Y. Ding, S. Dugan, D. Field, G. M. Garrity, R. Gibbs, T. Graves, C. S. Han, S. H. Harrison, S. Highlander, P. Hugenholtz, H. M. Khouri, C. D. Kodira, E. Kolker, N. C. Kyrpides, D. Lang, A. Lapidus, S. A. Malfatti, V. Markowitz, T. Metha, K. E. Nelson, J. Parkhill, S. Pitluck, X. Qin, T. D. Read, J. Schmutz, S. Sozhamannan, P. Sterk, R. L. Strausberg, G. Sutton, N. R. Thomson, J. M. Tiedje, G. Weinstock, A. Wollam, Consortium Genomic Standards Consortium Human Microbiome Project Jumpstart, J. C. Detter

Science. Author manuscript; available in PMC 2013 Dec 6.

Published in final edited form as: Science. 2009 Oct 9; 326(5950): 10.1126/science.1180614. doi: 10.1126/science.1180614

PMCID:: PMC3854948

Article PDF–273K

Select item 384777912.

The altered landscape of the human skin microbiome in patients with primary immunodeficiencies

Julia Oh, Alexandra F. Freeman, NISC Comparative Sequencing Program, Morgan Park, Robert Sokolic, Fabio Candotti, Steven M. Holland, Julia A. Segre, Heidi H. Kong

Genome Res. 2013 Dec; 23(12): 2103–2114. doi: 10.1101/gr.159467.113

PMCID:: PMC3847779

Article PDF–969K

Select item 374579913.

Propionibacterium acnes strain populations in the human skin microbiome associated with acne

Sorel Fitz-Gibbon, Shuta Tomida, Bor-Han Chiu, Lin Nguyen, Christine Du, Minghsun Liu, David Elashoff, Marie C. Erfe, Anya Loncaric, Jenny Kim, Robert L. Modlin, Jeff F. Miller, Erica Sodergren, Noah Craft, George M. Weinstock, Huiying Li

J Invest Dermatol. Author manuscript; available in PMC 2014 Mar 1.

Published in final edited form as: J Invest Dermatol. 2013 Sep; 133(9): 2152–2160. Published online 2013 Jan 21. doi: 10.1038/jid.2013.21

PMCID:: PMC3745799

Article PDF–1.3M

Select item 371118514.

Human Skin Fungal Diversity

Keisha Findley, Julia Oh, Joy Yang, Sean Conlan, Clayton Deming, Jennifer A. Meyer, Deborah Schoenfeld, Effie Nomicos, Morgan Park, NISC Comparative Sequencing Program, Heidi H. Kong, Julia A. Segre

Nature. Author manuscript; available in PMC 2013 Dec 20.

Published in final edited form as: Nature. 2013 Jun 20; 498(7454): 367–370. Published online 2013 May 22. doi: 10.1038/nature12171

PMCID:: PMC3711185

Article PDF–720K

Select item 365620415.

Draft Genome Sequences of Two Pairs of Human Intestinal Bifidobacterium longum subsp. longum Strains, 44B and 1-6B and 35B and 2-2B, Consecutively Isolated from Two Children after a 5-Year Time Period

A. N. Shkoporov, B. A. Efimov, E. V. Khokhlova, A. V. Chaplin, L. I. Kafarskaya, A. S. Durkin, J. McCorrison, M. Torralba, M. Gillis, G. Sutton, D. B. Weibel, K. E. Nelson, V. V. Smeianov

Genome Announc. 2013 May-Jun; 1(3): e00234-13. Published online 2013 May 16. doi: 10.1128/genomeA.00234-13

PMCID:: PMC3656204

Article PDF–137K

Select item 358044616.

Shifts in human skin and nares microbiota of healthy children and adults

Julia Oh, Sean Conlan, Eric C Polley, Julia A Segre, Heidi H Kong

Genome Med. 2012; 4(10): 77. Published online 2012 Oct 10. doi: 10.1186/gm378

PMCID:: PMC3580446

Article PDF–487K

Select item 348608517.

The CRISPR/Cas Adaptive Immune System of Pseudomonas aeruginosa Mediates Resistance to Naturally Occurring and Engineered Phages

Kyle C. Cady, Joe Bondy-Denomy, Gary E. Heussler, Alan R. Davidson, George A. O'Toole

J Bacteriol. 2012 Nov; 194(21): 5728–5738. doi: 10.1128/JB.01184-12

PMCID:: PMC3486085

Article PDF–1.2M

Select item 348355618.

Finished bacterial genomes from shotgun sequence data

Filipe J. Ribeiro, Dariusz Przybylski, Shuangye Yin, Ted Sharpe, Sante Gnerre, Amr Abouelleil, Aaron M. Berlin, Anna Montmayeur, Terrance P. Shea, Bruce J. Walker, Sarah K. Young, Carsten Russ, Chad Nusbaum, Iain MacCallum, David B. Jaffe

Genome Res. 2012 Nov; 22(11): 2270–2277. doi: 10.1101/gr.141515.112

PMCID:: PMC3483556

Article PDF–263K

Select item 348329119.

The Success of Acinetobacter Species; Genetic, Metabolic and Virulence Attributes

Anton Y. Peleg, Anna de Breij, Mark D. Adams, Gustavo M. Cerqueira, Stefano Mocali, Marco Galardini, Peter H. Nibbering, Ashlee M. Earl, Doyle V. Ward, David L. Paterson, Harald Seifert, Lenie Dijkshoorn

PLoS One. 2012; 7(10): e46984. Published online 2012 Oct 29. doi: 10.1371/journal.pone.0046984

PMCID:: PMC3483291

Article PDF–1.4M

Select item 343335720.

Complete genome sequence of Enterococcus faecium strain TX16 and comparative genomic analysis of Enterococcus faecium genomes

Xiang Qin, Jessica R Galloway-Peña, Jouko Sillanpaa, Jung Hyeob Roh, Sreedhar R Nallapareddy, Shahreen Chowdhury, Agathe Bourgogne, Tina Choudhury, Donna M Muzny, Christian J Buhay, Yan Ding, Shannon Dugan-Rocha, Wen Liu, Christie Kovar, Erica Sodergren, Sarah Highlander, Joseph F Petrosino, Kim C Worley, Richard A Gibbs, George M Weinstock, Barbara E Murray

BMC Microbiol. 2012; 12: 135. Published online 2012 Jul 7. doi: 10.1186/1471-2180-12-135

PMCID:: PMC3433357

Article PDF–1.6M

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