The influence of age and gender on skin-associated microbial communities in urban and rural human populations

PLoS ONE

Volumn 10, Issue 10, 2015, Pages

  Ying, Shi ^a   Zeng, Dan Ning ^a   Chi, Liang ^a   Tan, Yuan ^b   Galzote, Carlos ^b   Cardona, Cesar ^c   Lax, Simon ^c   Gilbert, Jack ^c,d,e,f   Quan, Zhe Xue ^a  

^a FUDAN UNIVERSITY   (China)

^b JOHNSON AND JOHNSON   (United States)

^c UNIVERSITY OF CHICAGO   (United States)

^d ARGONNE NATIONAL LABORATORY   (United States)

^e MARINE BIOLOGICAL LABORATORY   (United States)

^f ZHEJIANG UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

ADOLESCENT; ADULT; AGED; FEMALE; GENDER; HUMAN; MAJOR CLINICAL STUDY; MALE; MICROBIAL COMMUNITY; MICROBIAL DIVERSITY; RURAL AREA; RURAL POPULATION; SKIN; URBAN POPULATION; AGE; BACTERIUM; BIODIVERSITY; BIOLOGY; CHILD; CLASSIFICATION; CLUSTER ANALYSIS; GENETICS; HEALTH SURVEY; METAGENOME; MICROBIOLOGY; MICROFLORA; MIDDLE AGED; SEX DIFFERENCE; YOUNG ADULT;

ADOLESCENT; ADULT; AGE FACTORS; BACTERIA; BIODIVERSITY; CHILD; CLUSTER ANALYSIS; COMPUTATIONAL BIOLOGY; FEMALE; HUMANS; MALE; METAGENOME; MICROBIOTA; MIDDLE AGED; PUBLIC HEALTH SURVEILLANCE; RURAL POPULATION; SEX FACTORS; SKIN; URBAN POPULATION; YOUNG ADULT;

EID: 84949645072     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0141842     Document Type: Article

References (37)

1. Grice EA, Segre JA. The skin microbiome. Nat Rev Microbiol. 2011;9(4):244-53. doi: 10.1038/nrmicro2537 PMID: 21407241
2. Gao Z, Tseng CH, Pei Z, Blaser MJ. Molecular analysis of human forearm superficial skin bacterial biota. Proc Natl Acad Sci USA. 2007;104(8):2927-32. PMID: 17293459
3. Grice EA, Kong HH, Renaud G, Young AC, Program NCS, Bouffard GG, et al. A diversity profile of the human skin microbiota. Genome Res. 2008;18(7):1043-50. doi: 10.1101/gr.075549.107 PMID: 18502944
4. Costello EK, Lauber CL, Hamady M, Fierer N, Gordon JI, Knight R. Bacterial community variation in human body habitats across space and time. Science. 2009;326(5960):1694-7. doi: 10.1126/science. 1177486 PMID: 19892944
5. Grice EA, Kong HH, Conlan S, Deming CB, Davis J, Young AC, et al. Topographical and temporal diversity of the human skin microbiome. Science. 2009;324(5931):1190-2. doi: 10.1126/science. 1171700 PMID: 19478181
6. Fierer N, Hamady M, Lauber CL, Knight R. The influence of sex, handedness, and washing on the diversity of hand surface bacteria. Proc Natl Acad Sci USA. 2008;105(46):17994-9. doi: 10.1073/pnas.0807920105 PMID: 19004758
7. Song SJ, Lauber C, Costello EK, Lozupone CA, Humphrey G, Berg-Lyons D, et al. Cohabiting family members share microbiota with one another and with their dogs. Elife. 2013;2:e00458. doi: 10.7554/eLife.00458 PMID: 23599893
8. Blaser MJ, Dominguez-Bello MG, Contreras M, Magris M, Hidalgo G, Estrada I, et al. Distinct cutaneous bacterial assemblages in a sampling of South American Amerindians and US residents. ISME J. 2013;7(1):85-95. doi: 10.1038/ismej.2012.81 PMID: 22895161
9. Tyakht AV, Kostryukova ES, Popenko AS, Belenikin MS, Pavlenko AV, Larin AK, et al. Human gut microbiota community structures in urban and rural populations in Russia. Nat Commun. 2013;4:2469. doi: 10.1038/ncomms3469 PMID: 24036685
10. David LA, Materna AC, Friedman J, Campos-Baptista MI, Blackburn MC, Perrotta A, et al. Host lifestyle affects human microbiota on daily timescales. Genome Biol. 2014;15(7):R89. PMID: 25146375
11. Lax S, Smith DP, Hampton-Marcell J, Owens SM, Handley KM, Scott NM, et al. Longitudinal analysis of microbial interaction between humans and the indoor environment. Science. 2014;345(6200):1048-52. doi: 10.1126/science.1254529 PMID: 25170151
12. Paulino LC, Tseng CH, Strober BE, Blaser MJ. Molecular analysis of fungal microbiota in samples from healthy human skin and psoriatic lesions. J Clin Microbiol. 2006;44(8):2933-41. PMID: 16891514
13. Hamady M, Walker JJ, Harris JK, Gold NJ, Knight R. Error-correcting barcoded primers for pyrosequencing hundreds of samples in multiplex. Nat Methods. 2008;5(3):235-7. doi: 10.1038/nmeth.1184 PMID: 18264105
14. Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, et al. QIIMEallows analysis of high-throughput community sequencing data. Nat Methods. 2010;7(5):335-6. doi: 10.1038/nmeth.f.303 PMID: 20383131
15. McDonald D, Price MN, Goodrich J, Nawrocki EP, De Santis TZ, Probst A, et al. An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea. ISME J. 2012;6(3):610-8. doi: 10.1038/ismej.2011.139 PMID: 22134646
16. Edgar RC. Search and clustering orders of magnitude faster than BLAST. Bioinformatics. 2010;26(19):2460-1. doi: 10.1093/bioinformatics/btq461 PMID: 20709691
17. Wang Q, Garrity GM, Tiedje JM, Cole JR. Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl Environ Microbiol. 2007;73(16):5261-7. PMID: 17586664
18. Caporaso JG, Bittinger K, Bushman FD, De Santis TZ, Andersen GL, Knight R. PyNAST: a flexible tool for aligning sequences to a template alignment. Bioinformatics. 2010;26(2):266-7. doi: 10.1093/bioinformatics/btp636 PMID: 19914921
19. Price MN, Dehal PS, Arkin AP. FastTree: computing large minimum evolution trees with profiles instead of a distance matrix. Mol Biol Evol. 2009;26(7):1641-50. doi: 10.1093/molbev/msp077 PMID: 19377059
20. Faith DP. Conservation evaluation and phylogenetic diversity. BiolConserv. 1992;61(1):1-10.
21. Lozupone C, Knight R. UniFrac: a new phylogenetic method for comparing microbial communities. Appl Environ Microbiol. 2005;71(12):8228-35. PMID: 16332807
22. Caporaso JG, Lauber CL, Costello EK, Berg-Lyons D, Gonzalez A, Stombaugh J, et al. Moving pictures of the human microbiome. Genome Biol. 2011;12(5):R50. doi: 10.1186/gb-2011-12-5-r50 PMID: 21624126
23. Huttenhower C, Gevers D, Knight R, Abubucker S, Badger JH, Chinwalla AT, et al. Structure, function and diversity of the healthy human microbiome. Nature. 2012;486(7402):207-14. doi: 10.1038/nature11234 PMID: 22699609
24. Leeming JP, Holland KT, Cunliffe WJ. The microbial ecology of pilosebaceous units isolated from human skin. J Gen Microbiol. 1984;130(4):803-7. PMID: 6234376
25. Leyden JJ, McGinley KJ, Mills OH, Kligman AM. Age-related changes in the resident bacterial flora of the human face. J Invest Dermatol. 1975;65(4):379-81. PMID: 1176788
26. Somerville DA. The normal flora of the skin in different age groups. Br J Dermatol. 1969;81(4):248-58. PMID: 5778713
27. Capone KA, Dowd SE, Stamatas GN, Nikolovski J. Diversity of the human skin microbiome early in life. J Invest Dermatol. 2011;131(10):2026-32. doi: 10.1038/jid.2011.168 PMID: 21697884
28. Dominguez-Bello MG, Costello EK, Contreras M, Magris M, Hidalgo G, Fierer N, et al. Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns. Proc Natl Acad Sci USA. 2010;107(26):11971-5. doi: 10.1073/pnas.1002601107 PMID: 20566857
29. Mathieu A, Delmont TO, Vogel TM, Robe P, Nalin R, Simonet P. Life on human surfaces: skin metagenomics. PLoSOne. 2013;8(6):e65288. doi: 10.1371/journal.pone.0065288 PMID: 23776466
30. Luebberding S, Krueger N, Kerscher M. Skin physiology in men and women: in vivo evaluation of 300 people including TEWL, SC hydration, sebum content and skin surface pH. Int J Cosmet Sci. 2013;35(5):477-83. doi: 10.1111/ics.12068 PMID: 23713991
31. Giacomoni PU, Mammone T, Teri M. Gender-linked differences in human skin. J Dermatol Sci. 2009;55(3):144-9. doi: 10.1016/j.jdermsci.2009.06.001 PMID: 19574028
32. Marples RR. Sex, constancy, and skin bacteria. Arch Dermatol Res. 1982;272(3-4):317-20. PMID: 7165340
33. Rosenthal M, Goldberg D, Aiello A, Larson E, Foxman B. Skin microbiota: microbial community structure and its potential association with health and disease. Infect Genet Evol. 2011;11(5):839-48. doi: 10.1016/j.meegid.2011.03.022 PMID: 21463709
34. Kuczynski J, Liu ZZ, Lozupone C, McDonald D, Fierer N, Knight R. Microbial community resemblance methods differ in their ability to detect biologically relevant patterns. Nat Methods. 2010;7(10):813-19. doi: 10.1038/nmeth.1499 PMID: 20818378
35. Shade A, Caporaso JG, Handelsman J, Knight R, Fierer N. A meta-analysis of changes in bacterial and archaeal communities with time. ISME J. 2013;7(8):1493-506. doi: 10.1038/ismej.2013.54 PMID: 23575374
36. Group NHW, Peterson J, Garges S, Giovanni M, McInnes P, Wang L, et al. The NIH Human Microbiome Project. Genome Res. 2009;19(12):2317-23. doi: 10.1101/gr.096651.109 PMID: 19819907
37. Oh J, Freeman AF, Program NCS, Park M, Sokolic R, Candotti F, et al. The altered landscape of the human skin microbiomein patients with primary immunodeficiencies. Genome Res. 2013;23(12):2103-14. doi: 10.1101/gr.159467.113 PMID: 24170601