The Prevotella copri Complex Comprises Four Distinct Clades Underrepresented in Westernized Populations

作者: Adrian Tett , Kun D. Huang , Francesco Asnicar , Hannah Fehlner-Peach , Edoardo Pasolli

DOI: 10.1016/J.CHOM.2019.08.018

关键词:

摘要: Prevotella copri is a common human gut microbe that has been both positively and negatively associated with host health. In a cross-continent meta-analysis exploiting> 6,500 metagenomes, we obtained> 1,000 genomes and explored the genetic and population structure of P. copri. P. copri encompasses four distinct clades (> 10% inter-clade genetic divergence) that we propose constitute the P. copri complex, and all clades were confirmed by isolate sequencing. These clades are nearly ubiquitous and co-present in non …

参考文章(143)
Ari Löytynoja, Phylogeny-aware alignment with PRANK. Methods of Molecular Biology. ,vol. 1079, pp. 155- 170 ,(2014) , 10.1007/978-1-62703-646-7_10
Richard M. Andrews, Iwona Kubacka, Patrick F. Chinnery, Robert N. Lightowlers, Douglass M. Turnbull, Neil Howell, Reanalysis and revision of the Cambridge reference sequence for human mitochondrial DNA Nature Genetics. ,vol. 23, pp. 147- 147 ,(1999) , 10.1038/13779
Simone Rampelli, Stephanie L. Schnorr, Clarissa Consolandi, Silvia Turroni, Marco Severgnini, Clelia Peano, Patrizia Brigidi, Alyssa N. Crittenden, Amanda G. Henry, Marco Candela, Metagenome Sequencing of the Hadza Hunter-Gatherer Gut Microbiota Current Biology. ,vol. 25, pp. 1682- 1693 ,(2015) , 10.1016/J.CUB.2015.04.055
Duy Tin Truong, Eric A Franzosa, Timothy L Tickle, Matthias Scholz, George Weingart, Edoardo Pasolli, Adrian Tett, Curtis Huttenhower, Nicola Segata, MetaPhlAn2 for enhanced metagenomic taxonomic profiling Nature Methods. ,vol. 12, pp. 902- 903 ,(2015) , 10.1038/NMETH.3589
Justin C. Tackney, Ben A. Potter, Jennifer Raff, Michael Powers, W. Scott Watkins, Derek Warner, Joshua D. Reuther, Joel D. Irish, Dennis H. O’Rourke, Two contemporaneous mitogenomes from terminal Pleistocene burials in eastern Beringia. Proceedings of the National Academy of Sciences of the United States of America. ,vol. 112, pp. 13833- 13838 ,(2015) , 10.1073/PNAS.1511903112
Francesco Asnicar, George Weingart, Timothy L. Tickle, Curtis Huttenhower, Nicola Segata, Compact graphical representation of phylogenetic data and metadata with GraPhlAn PeerJ. ,vol. 3, ,(2015) , 10.7717/PEERJ.1029
Emily E. Hammerl, Melissa A. Baier, Karl J. Reinhard, Agave Chewing and Dental Wear: Evidence from Quids PLOS ONE. ,vol. 10, pp. e0133710- ,(2015) , 10.1371/JOURNAL.PONE.0133710
Lawrence A. David, Ana Weil, Edward T. Ryan, Stephen B. Calderwood, Jason B. Harris, Fahima Chowdhury, Yasmin Begum, Firdausi Qadri, Regina C. LaRocque, Peter J. Turnbaugh, Gut Microbial Succession Follows Acute Secretory Diarrhea in Humans Mbio. ,vol. 6, ,(2015) , 10.1128/MBIO.00381-15
A. Murat Eren, Özcan C. Esen, Christopher Quince, Joseph H. Vineis, Hilary G. Morrison, Mitchell L. Sogin, Tom O. Delmont, Anvi'o: an advanced analysis and visualization platform for 'omics data. PeerJ. ,vol. 3, ,(2015) , 10.7717/PEERJ.1319