UniFrac: an effective distance metric for microbial community comparison

ISME Journal - Tập 5 Số 2 - Trang 169-172 - 2011
Catherine Lozupone1, Manuel E. Lladser2, Dan Knights1, Jesse Stombaugh1, Rob Knight1,3
1Department of Chemistry and Biochemistry, University of Colorado, Boulder, CO, USA
2Department of Applied Mathematics, University of Colorado, Boulder, CO, USA
3Howard Hughes Medical Institute, Boulder, CO, USA

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Tài liệu tham khảo

Caporaso, 2010, QIIME allows analysis of high-throughput community sequencing data, Nat Methods, 7, 335, 10.1038/nmeth.f.303

Castro, 2010, Soil microbial community responses to multiple experimental climate change drivers, Appl Environ Microbiol, 76, 999, 10.1128/AEM.02874-09

Chao, 2005, A new statistical approach for assessing similarity of species composition with incidence and abundance data, Ecol Lett, 8, 148, 10.1111/j.1461-0248.2004.00707.x

Hamady, 2010, Fast UniFrac: facilitating high-throughput phylogenetic analyses of microbial communities including analysis of pyrosequencing and PhyloChip data, ISME J, 4, 17, 10.1038/ismej.2009.97

Kuczynski, 2010, Direct sequencing of the human microbiome readily reveals community differences, Genome Biol, 11, 210, 10.1186/gb-2010-11-5-210

Ley, 2008, Evolution of mammals and their gut microbes, Science, 320, 1647, 10.1126/science.1155725

Lozupone, 2005, UniFrac: a new phylogenetic method for comparing microbial communities, Appl Environ Microbiol, 71, 8228, 10.1128/AEM.71.12.8228-8235.2005

Lozupone, 2007, Quantitative and qualitative β diversity measures lead to different insights into factors that structure microbial communities, Appl Environ Microbiol, 73, 1576, 10.1128/AEM.01996-06

Middelbos, 2010, Phylogenetic characterization of fecal microbial communities of dogs fed diets with or without supplemental dietary fiber using 454 pyrosequencing, PLoS One, 5, e9768, 10.1371/journal.pone.0009768

Rudin, 1987, Real and Complex Analysis, 3rd

Schloss, 2008, Evaluating different approaches that test whether microbial communities have the same structure, ISME J, 2, 265, 10.1038/ismej.2008.5

Schloss, 2009, Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities, Appl Environ Microbiol, 75, 7537, 10.1128/AEM.01541-09

Turnbaugh, 2009, A core gut microbiome in obese and lean twins, Nature, 457, 480, 10.1038/nature07540