A framework for human microbiome research

被引：1713

作者：

Methe, Barbara A. ^{[1
]}

Nelson, Karen E. ^{[1
]}

Pop, Mihai ^{[2
,3
]}

Creasy, Heather H. ^{[4
]}

Giglio, Michelle G. ^{[4
]}

Huttenhower, Curtis ^{[5
,6
]}

Gevers, Dirk ^{[6
]}

Petrosino, Joseph F. ^{[7
,78
]}

Abubucker, Sahar ^{[8
]}

Badger, Jonathan H. ^{[76
]}

Chinwalla, Asif T. ^{[8
]}

Earl, Ashlee M. ^{[6
]}

FitzGerald, Michael G. ^{[6
]}

Fulton, Robert S. ^{[8
]}

Hallsworth-Pepin, Kymberlie ^{[8
]}

Lobos, Elizabeth A. ^{[8
]}

Madupu, Ramana ^{[1
]}

Magrini, Vincent ^{[8
]}

Martin, John C. ^{[8
]}

Mitreva, Makedonka ^{[8
]}

Muzny, Donna M. ^{[7
]}

Sodergren, Erica J. ^{[8
]}

Versalovic, James ^{[9
,10
]}

Wollam, Aye M. ^{[8
]}

Worley, Kim C. ^{[7
]}

Wortman, Jennifer R. ^{[6
]}

Young, Sarah K. ^{[6
]}

Zeng, Qiandong ^{[6
]}

Aagaard, Kjersti M. ^{[11
]}

Abolude, Olukemi O. ^{[4
]}

Allen-Vercoe, Emma ^{[12
]}

Alm, Eric J. ^{[6
,13
]}

Alvarado, Lucia ^{[6
]}

Andersen, Gary L. ^{[14
]}

Anderson, Scott ^{[6
]}

Appelbaum, Elizabeth ^{[8
]}

Arachchi, Harindra M. ^{[6
]}

Armitage, Gary ^{[15
]}

Arze, Cesar A. ^{[4
]}

Ayvaz, Tulin

Baker, Carl C. ^{[16
]}

Begg, Lisa ^{[17
]}

Belachew, Tsegahiwot ^{[18
]}

Bhonagiri, Veena ^{[8
]}

Bihan, Monika ^{[1
]}

Blaser, Martin J. ^{[19
]}

Bloom, Toby ^{[6
]}

Bonazzi, Vivien R. ^{[20
]}

Brooks, Paul ^{[21
,22
]}

Buck, GregoryA. ^{[22
,23
]}

机构：

[1] J Craig Venter Inst, Rockville, MD 20850 USA

[2] Univ Maryland, Ctr Bioinformat & Computat Biol, College Pk, MD 20742 USA

[3] Univ Maryland, Dept Comp Sci, College Pk, MD 20742 USA

[4] Univ Maryland, Sch Med, Inst Genome Sci, Baltimore, MD 21201 USA

[5] Harvard Univ, Sch Publ Hlth, Dept Biostat, Boston, MA 02115 USA

[6] Broad Inst & Harvard, Cambridge, MA 02142 USA

[7] Baylor Coll Med, Human Genome Sequencing Ctr, Houston, TX 77030 USA

[8] Washington Univ, Sch Med, Genome Inst, St Louis, MO 63108 USA

[9] Baylor Coll Med, Dept Pathol & Immunol, Houston, TX 77030 USA

[10] Texas Childrens Hosp, Dept Pathol, Houston, TX 77030 USA

[11] Baylor Coll Med, Dept Obstet & Gynecol, Div Maternal Fetal Med, Houston, TX 77030 USA

[12] Univ Guelph, Dept Mol & Cellular Biol, Guelph, ON N1G 2W1, Canada

[13] MIT, Dept Civil & Environm Engn, Parsons Lab, Cambridge, MA 02139 USA

[14] Univ Calif Berkeley, Lawrence Berkeley Natl Lab, Ctr Environm Biotechnol, Berkeley, CA 94720 USA

[15] Univ Calif San Francisco, Sch Dent, San Francisco, CA 94143 USA

[16] Natl Inst Arthrit & Musculoskeletal & Skin Dis NI, NIH, Bethesda, MD 20892 USA

[17] NIH, Off Res Womens Hlth, Bethesda, MD 20892 USA

[18] NIAID, NIH, Bethesda, MD 20892 USA

[19] NYU, Langone Med Ctr, Dept Med, New York, NY 10016 USA

[20] NHGRI, NIH, Bethesda, MD 20892 USA

[21] Virginia Commonwealth Univ, Dept Stat Sci & Operat Res, Richmond, VA 23284 USA

[22] Virginia Commonwealth Univ, Ctr Study Biol Complex, Richmond, VA 23284 USA

[23] Virginia Commonwealth Univ, Dept Biol, Richmond, VA 23284 USA

[24] Univ Calif Berkeley, Lawrence Berkeley Natl Lab, Technol Integrat Grp, Natl Energy Res Sci Comp, Berkeley, CA 94720 USA

[25] Los Alamos Natl Lab, Genome Sci Grp, Biosci Div, HRL, Los Alamos, NM 87545 USA

[26] Joint Genome Inst, Walnut Creek, CA 94598 USA

[27] Univ Calif Berkeley, Lawrence Berkeley Natl Lab, Biol Data Management & Technol Ctr, Computat Res Div, Berkeley, CA 94720 USA

[28] Univ Colorado, Dept Chem & Biochem, Boulder, CO 80309 USA

[29] NIDCR, NIH, Bethesda, MD 20892 USA

[30] Procter & Gamble Co, FemCare Prod Safety & Regulatory Affairs, Cincinnati, OH 45224 USA

[31] Second Genome Inc, San Bruno, CA 94066 USA

[32] Forsyth Inst, Dept Mol Genet, Cambridge, MA 02142 USA

[33] Harvard Univ, Sch Dent Med, Dept Oral Med Infect & Immun, Boston, MA 02115 USA

[34] Washington Univ, Sch Med, Dept Pathol & Immunol, St Louis, MO 63110 USA

[35] bioMerieux Inc, Durham, NC 27712 USA

[36] Drive5 Com, Tiburon, CA 94920 USA

[37] Cleveland Clin, Ctr Bioeth Human & Spiritual Care, Cleveland, OH 44195 USA

[38] VIB, Dept Biol Struct, B-1050 Brussels, Belgium

[39] Vrije Univ Brussel, Dept Appl Biol Sci DBIT, B-1050 Brussels, Belgium

[40] Univ N Carolina, Dept Bioinformat & Genom, Charlotte, NC 28223 USA

[41] Univ Idaho, Dept Biol Sci, Moscow, ID 83844 USA

[42] MIT, Parsons Lab, Cambridge, MA 02139 USA

[43] St Louis Univ, Ctr Adv Dent Educ, St Louis, MO 63104 USA

[44] Univ Colorado, Dept Comp Sci, Boulder, CO 80309 USA

[45] Univ Maryland, Francis King Carey Sch Law, Baltimore, MD 21201 USA

[46] Josephine Bay Paul Ctr, Marine Biol Lab, Woods Hole, MA 02543 USA

[47] Univ Calif Berkeley, Lawrence Berkeley Natl Lab, Dept Ecol, Div Earth Sci, Berkeley, CA 94720 USA

[48] Univ Texas Hlth Sci Ctr Houston, Sch Dent, Dept Periodont, Houston, TX 77030 USA

[49] San Diego State Univ, Dept Biol, San Diego, CA 92182 USA

[50] Univ Calif Los Angeles, Sch Dent, Div Associated Clin Specialties, Los Angeles, CA 90095 USA

来源：

NATURE | 2012年 / 486卷 / 7402期

基金：

美国国家科学基金会; 比利时弗兰德研究基金会;

关键词：

CATALOG;

D O I：

10.1038/nature11209

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

A variety of microbial communities and their genes (the microbiome) exist throughout the human body, with fundamental roles in human health and disease. The National Institutes of Health (NIH)-funded Human Microbiome Project Consortium has established a population-scale framework to develop metagenomic protocols, resulting in a broad range of quality-controlled resources and data including standardized methods for creating, processing and interpreting distinct types of high-throughput metagenomic data available to the scientific community. Here we present resources from a population of 242 healthy adults sampled at 15 or 18 body sites up to three times, which have generated 5,177 microbial taxonomic profiles from 16S ribosomal RNA genes and over 3.5 terabases of metagenomic sequence so far. In parallel, approximately 800 reference strains isolated from the human body have been sequenced. Collectively, these data represent the largest resource describing the abundance and variety of the human microbiome, while providing a framework for current and future studies.

引用

页码：215 / 221

页数：7

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