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Volumn 26, Issue 5, 2019, Pages 666-679.e7

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

(28)  Tett, Adrian a   Huang, Kun D a,b   Asnicar, Francesco a   Fehlner Peach, Hannah c   Pasolli, Edoardo a   Karcher, Nicolai a   Armanini, Federica a   Manghi, Paolo a   Bonham, Kevin d,f   Zolfo, Moreno a   De Filippis, Francesca f   Magnabosco, Cara g   Bonneau, Richard g,h   Lusingu, John i   Amuasi, John j   Reinhard, Karl k   Rattei, Thomas l   Boulund, Fredrik m   Engstrand, Lars n   Zink, Albert n   more..


Author keywords

ancient DNA; bacterial pangenome; bacterial phylogenetics; comparative microbial genomics; gut microbes; human microbiome; Iceman; metagenomic assembly; metagenomics; Prevotella copri; Westernization

Indexed keywords

ARTICLE; BACTERIAL GENOME; CARBOHYDRATE METABOLISM; CLADISTICS; INTESTINE FLORA; METAGENOME; NONHUMAN; POPULATION STRUCTURE; PREVOTELLA COPRI; PRIORITY JOURNAL; CLASSIFICATION; DIET; ETHIOPIA; FECES; FOSSIL; GENETIC VARIATION; GENETICS; GHANA; HUMAN; ISOLATION AND PURIFICATION; MICROBIOLOGY; PREVOTELLA; TANZANIA;

EID: 85074411938     PISSN: 19313128     EISSN: 19346069     Source Type: Journal    
DOI: 10.1016/j.chom.2019.08.018     Document Type: Article
Times cited : (279)

References (145)
  • 5
    • 84937442075 scopus 로고    scopus 로고
    • Compact graphical representation of phylogenetic data and metadata with GraPhlAn
    • Asnicar, F., Weingart, G., Tickle, T.L., Huttenhower, C., Segata, N., Compact graphical representation of phylogenetic data and metadata with GraPhlAn. PeerJ, 3, 2015, e1029.
    • (2015) PeerJ , vol.3 , pp. e1029
    • Asnicar, F.1    Weingart, G.2    Tickle, T.L.3    Huttenhower, C.4    Segata, N.5
  • 11
    • 84923988479 scopus 로고    scopus 로고
    • SciPy and NumPy: an Overview for Developers
    • O'Reilly Media, Inc.
    • Bressert, E., SciPy and NumPy: an Overview for Developers. 2012, O'Reilly Media, Inc.
    • (2012)
    • Bressert, E.1
  • 14
    • 85057770346 scopus 로고
    • Plant material from a cave on the Rio zape, Durango, Mexico
    • Brooks, R.H., Kaplan, L., Cutler, H.C., Whitaker, T.W., Plant material from a cave on the Rio zape, Durango, Mexico. Am. antiq. 27 (1962), 356–369.
    • (1962) Am. antiq. , vol.27 , pp. 356-369
    • Brooks, R.H.1    Kaplan, L.2    Cutler, H.C.3    Whitaker, T.W.4
  • 15
    • 84925021592 scopus 로고    scopus 로고
    • Fast and sensitive protein alignment using DIAMOND
    • Buchfink, B., Xie, C., Huson, D.H., Fast and sensitive protein alignment using DIAMOND. Nat. Methods 12 (2015), 59–60.
    • (2015) Nat. Methods , vol.12 , pp. 59-60
    • Buchfink, B.1    Xie, C.2    Huson, D.H.3
  • 16
    • 85045503896 scopus 로고    scopus 로고
    • Recovering parasites from mummies and coprolites: an epidemiological approach
    • Camacho, M., Araújo, A., Morrow, J., Buikstra, J., Reinhard, K., Recovering parasites from mummies and coprolites: an epidemiological approach. Parasit. Vectors, 11, 2018, 248.
    • (2018) Parasit. Vectors , vol.11 , pp. 248
    • Camacho, M.1    Araújo, A.2    Morrow, J.3    Buikstra, J.4    Reinhard, K.5
  • 17
    • 85049137140 scopus 로고    scopus 로고
    • Human gut microbiome: hopes, threats and promises
    • Cani, P.D., Human gut microbiome: hopes, threats and promises. Gut 67 (2018), 1716–1725.
    • (2018) Gut , vol.67 , pp. 1716-1725
    • Cani, P.D.1
  • 18
    • 67650757433 scopus 로고    scopus 로고
    • trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses
    • Capella-Gutiérrez, S., Silla-Martínez, J.M., Gabaldón, T., trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses. Bioinformatics 25 (2009), 1972–1973.
    • (2009) Bioinformatics , vol.25 , pp. 1972-1973
    • Capella-Gutiérrez, S.1    Silla-Martínez, J.M.2    Gabaldón, T.3
  • 24
    • 80055082271 scopus 로고    scopus 로고
    • Accelerated profile HMM Searches
    • Eddy, S.R., Accelerated profile HMM Searches. PLoS Comput. Biol., 7, 2011, e1002195.
    • (2011) PLoS Comput. Biol. , vol.7 , pp. e1002195
    • Eddy, S.R.1
  • 27
    • 85074706249 scopus 로고    scopus 로고
    • Distinct polysaccharide growth profiles of human intestinal Prevotella copri isolates
    • Fehlner-Peach, H., Magnabosco, C., Raghavan, V., Scher, J.U., Tett, A., Coz, L.M., et al. Distinct polysaccharide growth profiles of human intestinal Prevotella copri isolates. bioRxiv, 2019, 10.1101/750802.
    • (2019) bioRxiv
    • Fehlner-Peach, H.1    Magnabosco, C.2    Raghavan, V.3    Scher, J.U.4    Tett, A.5    Coz, L.M.6
  • 37
    • 84942155621 scopus 로고    scopus 로고
    • Agave chewing and dental wear: evidence from quids
    • Hammerl, E.E., Baier, M.A., Reinhard, K.J., Agave chewing and dental wear: evidence from quids. PLoS One, 10, 2015, e0133710.
    • (2015) PLoS One , vol.10 , pp. e0133710
    • Hammerl, E.E.1    Baier, M.A.2    Reinhard, K.J.3
  • 38
    • 85056802026 scopus 로고    scopus 로고
    • Diagnostic Potential and Interactive Dynamics of the Colorectal Cancer Virome
    • e02248-18
    • Hannigan, G.D., Duhaime, M.B., Ruffin, M.T. 4th, Koumpouras, C.C., Schloss, P.D., Diagnostic Potential and Interactive Dynamics of the Colorectal Cancer Virome. MBio, 9, 2018 e02248-18.
    • (2018) MBio , vol.9
    • Hannigan, G.D.1    Duhaime, M.B.2    Ruffin, M.T.3    Koumpouras, C.C.4    Schloss, P.D.5
  • 40
    • 34249015507 scopus 로고    scopus 로고
    • Prevotella copri sp. nov. and Prevotella stercorea sp. nov., isolated from human faeces
    • Hayashi, H., Shibata, K., Sakamoto, M., Tomita, S., Benno, Y., Prevotella copri sp. nov. and Prevotella stercorea sp. nov., isolated from human faeces. Int. J. Syst. Evol. Microbiol. 57 (2007), 941–946.
    • (2007) Int. J. Syst. Evol. Microbiol. , vol.57 , pp. 941-946
    • Hayashi, H.1    Shibata, K.2    Sakamoto, M.3    Tomita, S.4    Benno, Y.5
  • 41
    • 85028373654 scopus 로고    scopus 로고
    • Two distinct metacommunities characterize the gut microbiota in Crohn's disease patients
    • He, Q., Gao, Y., Jie, Z., Yu, X., Laursen, J.M., Xiao, L., Li, Y., Li, L., Zhang, F., Feng, Q., et al. Two distinct metacommunities characterize the gut microbiota in Crohn's disease patients. GigaScience 6 (2017), 1–11.
    • (2017) GigaScience , vol.6 , pp. 1-11
    • He, Q.1    Gao, Y.2    Jie, Z.3    Yu, X.4    Laursen, J.M.5    Xiao, L.6    Li, Y.7    Li, L.8    Zhang, F.9    Feng, Q.10
  • 46
    • 84862276328 scopus 로고    scopus 로고
    • Structure, function and diversity of the healthy human microbiome
    • Human Microbiome Project Consortium. Structure, function and diversity of the healthy human microbiome. Nature 486 (2012), 207–214.
    • (2012) Nature , vol.486 , pp. 207-214
  • 48
    • 85057599070 scopus 로고    scopus 로고
    • High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries
    • Jain, C., Rodriguez-R, L.M., Phillippy, A.M., Konstantinidis, K.T., Aluru, S., High throughput ANI analysis of 90K prokaryotic genomes reveals clear species boundaries. Nat. Commun., 9, 2018, 5114.
    • (2018) Nat. Commun. , vol.9 , pp. 5114
    • Jain, C.1    Rodriguez-R, L.M.2    Phillippy, A.M.3    Konstantinidis, K.T.4    Aluru, S.5
  • 49
    • 34548696115 scopus 로고    scopus 로고
    • 16S rRNA gene sequencing for bacterial identification in the diagnostic laboratory: pluses, perils, and pitfalls
    • Janda, J.M., Abbott, S.L., 16S rRNA gene sequencing for bacterial identification in the diagnostic laboratory: pluses, perils, and pitfalls. J. Clin. Microbiol. 45 (2007), 2761–2764.
    • (2007) J. Clin. Microbiol. , vol.45 , pp. 2761-2764
    • Janda, J.M.1    Abbott, S.L.2
  • 50
    • 84860296025 scopus 로고    scopus 로고
    • Zoonotic and human parasites of inhabitants of Cueva de los Muertos Chiquitos, Rio Zape Valley, Durango, Mexico
    • Jiménez, F.A., Gardner, S.L., Araújo, A., Fugassa, M., Brooks, R.H., Racz, E., Reinhard, K.J., Zoonotic and human parasites of inhabitants of Cueva de los Muertos Chiquitos, Rio Zape Valley, Durango, Mexico. J. Parasitol. 98 (2012), 304–309.
    • (2012) J. Parasitol. , vol.98 , pp. 304-309
    • Jiménez, F.A.1    Gardner, S.L.2    Araújo, A.3    Fugassa, M.4    Brooks, R.H.5    Racz, E.6    Reinhard, K.J.7
  • 51
    • 84879910635 scopus 로고    scopus 로고
    • mapDamage2.0: fast approximate Bayesian estimates of ancient DNA damage parameters
    • Jónsson, H., Ginolhac, A., Schubert, M., Johnson, P.L.F., Orlando, L., mapDamage2.0: fast approximate Bayesian estimates of ancient DNA damage parameters. Bioinformatics 29 (2013), 1682–1684.
    • (2013) Bioinformatics , vol.29 , pp. 1682-1684
    • Jónsson, H.1    Ginolhac, A.2    Schubert, M.3    Johnson, P.L.F.4    Orlando, L.5
  • 53
    • 84875619226 scopus 로고    scopus 로고
    • MAFFT multiple sequence alignment software version 7: improvements in performance and usability
    • Katoh, K., Standley, D.M., MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol. Biol. Evol. 30 (2013), 772–780.
    • (2013) Mol. Biol. Evol. , vol.30 , pp. 772-780
    • Katoh, K.1    Standley, D.M.2
  • 54
    • 85074687756 scopus 로고
    • Finding groups in data. An introduction to cluster analysis.
    • Kaufman, L., and Rousseeuw, P.J. (1990). Finding groups in data. An introduction to cluster analysis.
    • (1990)
    • Kaufman, L.1    Rousseeuw, P.J.2
  • 56
    • 84855295457 scopus 로고    scopus 로고
    • Double indexing overcomes inaccuracies in multiplex sequencing on the Illumina platform
    • Kircher, M., Sawyer, S., Meyer, M., Double indexing overcomes inaccuracies in multiplex sequencing on the Illumina platform. Nucleic Acids Res., 40, 2012, e3.
    • (2012) Nucleic Acids Res. , vol.40 , pp. e3
    • Kircher, M.1    Sawyer, S.2    Meyer, M.3
  • 57
    • 14044262978 scopus 로고    scopus 로고
    • Genomic insights that advance the species definition for prokaryotes
    • Konstantinidis, K.T., Tiedje, J.M., Genomic insights that advance the species definition for prokaryotes. Proc. Natl. Acad. Sci. USA 102 (2005), 2567–2572.
    • (2005) Proc. Natl. Acad. Sci. USA , vol.102 , pp. 2567-2572
    • Konstantinidis, K.T.1    Tiedje, J.M.2
  • 61
    • 84859210032 scopus 로고    scopus 로고
    • Fast gapped-read alignment with Bowtie 2
    • Langmead, B., Salzberg, S.L., Fast gapped-read alignment with Bowtie 2. Nat. Methods 9 (2012), 357–359.
    • (2012) Nat. Methods , vol.9 , pp. 357-359
    • Langmead, B.1    Salzberg, S.L.2
  • 65
    • 84956660868 scopus 로고    scopus 로고
    • Gut microbiota in 2015: Prevotella in the gut: choose carefully
    • Ley, R.E., Gut microbiota in 2015: Prevotella in the gut: choose carefully. Nat. Rev. Gastroenterol. Hepatol. 13 (2016), 69–70.
    • (2016) Nat. Rev. Gastroenterol. Hepatol. , vol.13 , pp. 69-70
    • Ley, R.E.1
  • 67
    • 84929626808 scopus 로고    scopus 로고
    • MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph
    • Li, D., Liu, C.M., Luo, R., Sadakane, K., Lam, T.W., MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph. Bioinformatics 31 (2015), 1674–1676.
    • (2015) Bioinformatics , vol.31 , pp. 1674-1676
    • Li, D.1    Liu, C.M.2    Luo, R.3    Sadakane, K.4    Lam, T.W.5
  • 71
    • 84990857056 scopus 로고    scopus 로고
    • Unique features of Ethnic Mongolian Gut microbiome revealed by metagenomic analysis
    • Liu, W., Zhang, J., Wu, C., Cai, S., Huang, W., Chen, J., Xi, X., Liang, Z., Hou, Q., Zhou, B., et al. Unique features of Ethnic Mongolian Gut microbiome revealed by metagenomic analysis. Sci. Rep., 6, 2016, 34826.
    • (2016) Sci. Rep. , vol.6 , pp. 34826
    • Liu, W.1    Zhang, J.2    Wu, C.3    Cai, S.4    Huang, W.5    Chen, J.6    Xi, X.7    Liang, Z.8    Hou, Q.9    Zhou, B.10
  • 73
    • 84875921666 scopus 로고    scopus 로고
    • A culture-independent sequence-based metagenomics approach to the investigation of an outbreak of Shiga-toxigenic Escherichia coli O104:H4
    • Loman, N.J., Constantinidou, C., Christner, M., Rohde, H., Chan, J.Z.-M., Quick, J., Weir, J.C., Quince, C., Smith, G.P., Betley, J.R., et al. A culture-independent sequence-based metagenomics approach to the investigation of an outbreak of Shiga-toxigenic Escherichia coli O104:H4. JAMA 309 (2013), 1502–1510.
    • (2013) JAMA , vol.309 , pp. 1502-1510
    • Loman, N.J.1    Constantinidou, C.2    Christner, M.3    Rohde, H.4    Chan, J.Z.-M.5    Quick, J.6    Weir, J.C.7    Quince, C.8    Smith, G.P.9    Betley, J.R.10
  • 75
    • 84960324193 scopus 로고    scopus 로고
    • Characterization of the Gut Microbial Community of Obese Patients Following a Weight-Loss Intervention Using Whole Metagenome Shotgun Sequencing
    • Louis, S., Tappu, R.-M., Damms-Machado, A., Huson, D.H., Bischoff, S.C., Characterization of the Gut Microbial Community of Obese Patients Following a Weight-Loss Intervention Using Whole Metagenome Shotgun Sequencing. PLoS One, 11, 2016, e0149564.
    • (2016) PLoS One , vol.11 , pp. e0149564
    • Louis, S.1    Tappu, R.-M.2    Damms-Machado, A.3    Huson, D.H.4    Bischoff, S.C.5
  • 76
    • 84934435372 scopus 로고    scopus 로고
    • Phylogeny-aware alignment with PRANK
    • Löytynoja, A., Phylogeny-aware alignment with PRANK. Methods Mol. Biol. 1079 (2014), 155–170.
    • (2014) Methods Mol. Biol. , vol.1079 , pp. 155-170
    • Löytynoja, A.1
  • 80
    • 84901541524 scopus 로고
    • A dietary analysis of coprolites from a prehistoric Mexican cave site
    • University of Nebraska-Lincoln Master's Thesis
    • Meade, T., A dietary analysis of coprolites from a prehistoric Mexican cave site. 1994, University of Nebraska-Lincoln Master's Thesis.
    • (1994)
    • Meade, T.1
  • 81
    • 77956285690 scopus 로고    scopus 로고
    • Illumina sequencing library preparation for highly multiplexed target capture and sequencing
    • pdb.prot5448
    • Meyer, M., Kircher, M., Illumina sequencing library preparation for highly multiplexed target capture and sequencing. Cold Spring Harb. Protoc., 2010, 2010 pdb.prot5448.
    • (2010) Cold Spring Harb. Protoc. , vol.2010
    • Meyer, M.1    Kircher, M.2
  • 82
    • 84983806517 scopus 로고    scopus 로고
    • Cryptosporidium parvum among coprolites from la Cueva de los muertos Chiquitos (600–800 CE), Rio zape Valley, Durango, Mexico
    • Morrow, J.J., Reinhard, K.J., Cryptosporidium parvum among coprolites from la Cueva de los muertos Chiquitos (600–800 CE), Rio zape Valley, Durango, Mexico. J. Parasitol. 102 (2016), 429–435.
    • (2016) J. Parasitol. , vol.102 , pp. 429-435
    • Morrow, J.J.1    Reinhard, K.J.2
  • 89
    • 84937040910 scopus 로고    scopus 로고
    • CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes
    • Parks, D.H., Imelfort, M., Skennerton, C.T., Hugenholtz, P., Tyson, G.W., CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. Genome Res. 25 (2015), 1043–1055.
    • (2015) Genome Res. , vol.25 , pp. 1043-1055
    • Parks, D.H.1    Imelfort, M.2    Skennerton, C.T.3    Hugenholtz, P.4    Tyson, G.W.5
  • 90
    • 85060181041 scopus 로고    scopus 로고
    • Extensive unexplored human microbiome diversity revealed by over 150,000 genomes from metagenomes spanning age, geography, and lifestyle
    • Pasolli, E., Asnicar, F., Manara, S., Zolfo, M., Karcher, N., Armanini, F., Beghini, F., Manghi, P., Tett, A., Ghensi, P., et al. Extensive unexplored human microbiome diversity revealed by over 150,000 genomes from metagenomes spanning age, geography, and lifestyle. Cell 176 (2019), 649–662.e20.
    • (2019) Cell , vol.176 , pp. 649-662.e20
    • Pasolli, E.1    Asnicar, F.2    Manara, S.3    Zolfo, M.4    Karcher, N.5    Armanini, F.6    Beghini, F.7    Manghi, P.8    Tett, A.9    Ghensi, P.10
  • 93
    • 33846006923 scopus 로고    scopus 로고
    • Population structure and eigenanalysis
    • Patterson, N., Price, A.L., Reich, D., Population structure and eigenanalysis. PLoS Genet., 2, 2006, e190.
    • (2006) PLoS Genet. , vol.2 , pp. e190
    • Patterson, N.1    Price, A.L.2    Reich, D.3
  • 97
    • 33746512512 scopus 로고    scopus 로고
    • Principal components analysis corrects for stratification in genome-wide association studies
    • Price, A.L., Patterson, N.J., Plenge, R.M., Weinblatt, M.E., Shadick, N.A., Reich, D., Principal components analysis corrects for stratification in genome-wide association studies. Nat. Genet. 38 (2006), 904–909.
    • (2006) Nat. Genet. , vol.38 , pp. 904-909
    • Price, A.L.1    Patterson, N.J.2    Plenge, R.M.3    Weinblatt, M.E.4    Shadick, N.A.5    Reich, D.6
  • 98
    • 77949718257 scopus 로고    scopus 로고
    • FastTree 2–approximately maximum-likelihood trees for large alignments
    • Price, M.N., Dehal, P.S., Arkin, A.P., FastTree 2–approximately maximum-likelihood trees for large alignments. PLoS One, 5, 2010, e9490.
    • (2010) PLoS One , vol.5 , pp. e9490
    • Price, M.N.1    Dehal, P.S.2    Arkin, A.P.3
  • 99
    • 84952836694 scopus 로고    scopus 로고
    • Genomics and taxonomy in diagnostics for food security: soft-rotting enterobacterial plant pathogens
    • Pritchard, L., Glover, R.H., Humphris, S., Elphinstone, J.G., Toth, I.K., Genomics and taxonomy in diagnostics for food security: soft-rotting enterobacterial plant pathogens. Anal. Methods 8 (2015), 12–24.
    • (2015) Anal. Methods , vol.8 , pp. 12-24
    • Pritchard, L.1    Glover, R.H.2    Humphris, S.3    Elphinstone, J.G.4    Toth, I.K.5
  • 101
    • 84867074831 scopus 로고    scopus 로고
    • A metagenome-wide association study of gut microbiota in type 2 diabetes
    • Qin, J., Li, Y., Cai, Z., Li, S., Zhu, J., Zhang, F., Liang, S., Zhang, W., Guan, Y., Shen, D., et al. A metagenome-wide association study of gut microbiota in type 2 diabetes. Nature 490 (2012), 55–60.
    • (2012) Nature , vol.490 , pp. 55-60
    • Qin, J.1    Li, Y.2    Cai, Z.3    Li, S.4    Zhu, J.5    Zhang, F.6    Liang, S.7    Zhang, W.8    Guan, Y.9    Shen, D.10
  • 103
    • 85052728709 scopus 로고    scopus 로고
    • Posterior summarization in bayesian phylogenetics using Tracer 1.7
    • Rambaut, A., Drummond, A.J., Xie, D., Baele, G., Suchard, M.A., Posterior summarization in bayesian phylogenetics using Tracer 1.7. Syst. Biol. 67 (2018), 901–904.
    • (2018) Syst. Biol. , vol.67 , pp. 901-904
    • Rambaut, A.1    Drummond, A.J.2    Xie, D.3    Baele, G.4    Suchard, M.A.5
  • 106
    • 84943738237 scopus 로고    scopus 로고
    • Schmutzi: estimation of contamination and endogenous mitochondrial consensus calling for ancient DNA
    • Renaud, G., Slon, V., Duggan, A.T., Kelso, J., Schmutzi: estimation of contamination and endogenous mitochondrial consensus calling for ancient DNA. Genome Biol., 16, 2015, 224.
    • (2015) Genome Biol. , vol.16 , pp. 224
    • Renaud, G.1    Slon, V.2    Duggan, A.T.3    Kelso, J.4
  • 112
    • 84901417347 scopus 로고    scopus 로고
    • Prokka: rapid prokaryotic genome annotation
    • Seemann, T., Prokka: rapid prokaryotic genome annotation. Bioinformatics 30 (2014), 2068–2069.
    • (2014) Bioinformatics , vol.30 , pp. 2068-2069
    • Seemann, T.1
  • 113
    • 84937424152 scopus 로고    scopus 로고
    • Gut microbiome: westernization and the disappearance of intestinal diversity
    • Segata, N., Gut microbiome: westernization and the disappearance of intestinal diversity. Curr. Biol. 25 (2015), R611–R613.
    • (2015) Curr. Biol. , vol.25 , pp. R611-R613
    • Segata, N.1
  • 114
    • 84883116930 scopus 로고    scopus 로고
    • PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes
    • Segata, N., Börnigen, D., Morgan, X.C., Huttenhower, C., PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes. Nat. Commun., 4, 2013, 2304.
    • (2013) Nat. Commun. , vol.4 , pp. 2304
    • Segata, N.1    Börnigen, D.2    Morgan, X.C.3    Huttenhower, C.4
  • 115
    • 84881242231 scopus 로고    scopus 로고
    • Accurate sex identification of ancient human remains using DNA shotgun sequencing
    • Skoglund, P., Storå, J., Götherström, A., Jakobsson, M., Accurate sex identification of ancient human remains using DNA shotgun sequencing. J. Archaeol. Sci. 40 (2013), 4477–4482.
    • (2013) J. Archaeol. Sci. , vol.40 , pp. 4477-4482
    • Skoglund, P.1    Storå, J.2    Götherström, A.3    Jakobsson, M.4
  • 118
    • 84977622019 scopus 로고    scopus 로고
    • Diet-microbiota interactions as moderators of human metabolism
    • Sonnenburg, J.L., Bäckhed, F., Diet-microbiota interactions as moderators of human metabolism. Nature 535 (2016), 56–64.
    • (2016) Nature , vol.535 , pp. 56-64
    • Sonnenburg, J.L.1    Bäckhed, F.2
  • 119
    • 0003463031 scopus 로고
    • The man in the ice
    • Weidenfeld & Nicolson
    • Spindler, K., The man in the ice. 1994, Weidenfeld & Nicolson.
    • (1994)
    • Spindler, K.1
  • 120
    • 84899553363 scopus 로고    scopus 로고
    • RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies
    • Stamatakis, A., RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 30 (2014), 1312–1313.
    • (2014) Bioinformatics , vol.30 , pp. 1312-1313
    • Stamatakis, A.1
  • 121
    • 85026518404 scopus 로고    scopus 로고
    • The impact of Western diet and nutrients on the microbiota and immune response at mucosal interfaces
    • Statovci, D., Aguilera, M., MacSharry, J., Melgar, S., The impact of Western diet and nutrients on the microbiota and immune response at mucosal interfaces. Front. Immunol., 8, 2017, 838.
    • (2017) Front. Immunol. , vol.8 , pp. 838
    • Statovci, D.1    Aguilera, M.2    MacSharry, J.3    Melgar, S.4
  • 125
    • 85063766431 scopus 로고    scopus 로고
    • Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation
    • Thomas, A.M., Manghi, P., Asnicar, F., Pasolli, E., Armanini, F., Zolfo, M., Beghini, F., Manara, S., Karcher, N., Pozzi, C., et al. Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation. Nat. Med. 25 (2019), 667–678.
    • (2019) Nat. Med. , vol.25 , pp. 667-678
    • Thomas, A.M.1    Manghi, P.2    Asnicar, F.3    Pasolli, E.4    Armanini, F.5    Zolfo, M.6    Beghini, F.7    Manara, S.8    Karcher, N.9    Pozzi, C.10
  • 126
    • 26644472430 scopus 로고    scopus 로고
    • Cluster validation by prediction strength
    • Tibshirani, R., Walther, G., Cluster validation by prediction strength. J. Comput. Graph. Stat. 14 (2005), 511–528.
    • (2005) J. Comput. Graph. Stat. , vol.14 , pp. 511-528
    • Tibshirani, R.1    Walther, G.2
  • 130
    • 85017527948 scopus 로고    scopus 로고
    • Microbial strain-level population structure and genetic diversity from metagenomes
    • Truong, D.T., Tett, A., Pasolli, E., Huttenhower, C., Segata, N., Microbial strain-level population structure and genetic diversity from metagenomes. Genome Res. 27 (2017), 626–638.
    • (2017) Genome Res. , vol.27 , pp. 626-638
    • Truong, D.T.1    Tett, A.2    Pasolli, E.3    Huttenhower, C.4    Segata, N.5
  • 131
    • 80054096785 scopus 로고    scopus 로고
    • The diets of early hominins
    • Ungar, P.S., Sponheimer, M., The diets of early hominins. Science 334 (2011), 190–193.
    • (2011) Science , vol.334 , pp. 190-193
    • Ungar, P.S.1    Sponheimer, M.2
  • 135
    • 84996557552 scopus 로고    scopus 로고
    • Bloom and bust: intestinal microbiota dynamics in response to hospital exposures and Clostridium difficile colonization or infection
    • Vincent, C., Miller, M.A., Edens, T.J., Mehrotra, S., Dewar, K., Manges, A.R., Bloom and bust: intestinal microbiota dynamics in response to hospital exposures and Clostridium difficile colonization or infection. Microbiome, 4, 2016, 10.1186/s40168-016-0156-3.
    • (2016) Microbiome , vol.4
    • Vincent, C.1    Miller, M.A.2    Edens, T.J.3    Mehrotra, S.4    Dewar, K.5    Manges, A.R.6
  • 139
    • 0033515755 scopus 로고    scopus 로고
    • The human genus
    • Wood, B., Collard, M., The human genus. Science 284 (1999), 65–71.
    • (1999) Science , vol.284 , pp. 65-71
    • Wood, B.1    Collard, M.2
  • 140
    • 85006105634 scopus 로고    scopus 로고
    • Shotgun Metagenomics of 250 Adult Twins Reveals Genetic and Environmental Impacts on the Gut Microbiome
    • 572–584.e3
    • Xie, H., Guo, R., Zhong, H., Feng, Q., Lan, Z., Qin, B., Ward, K.J., Jackson, M.A., Xia, Y., Chen, X., et al. Shotgun Metagenomics of 250 Adult Twins Reveals Genetic and Environmental Impacts on the Gut Microbiome. Cell Syst., 3, 2016 572–584.e3.
    • (2016) Cell Syst. , vol.3
    • Xie, H.1    Guo, R.2    Zhong, H.3    Feng, Q.4    Lan, Z.5    Qin, B.6    Ward, K.J.7    Jackson, M.A.8    Xia, Y.9    Chen, X.10
  • 142
    • 84864442502 scopus 로고    scopus 로고
    • dbCAN: a web resource for automated carbohydrate-active enzyme annotation
    • Yin, Y., Mao, X., Yang, J., Chen, X., Mao, F., Xu, Y., dbCAN: a web resource for automated carbohydrate-active enzyme annotation. Nucleic Acids Res. 40 (2012), W445–W451.
    • (2012) Nucleic Acids Res. , vol.40 , pp. W445-W451
    • Yin, Y.1    Mao, X.2    Yang, J.3    Chen, X.4    Mao, F.5    Xu, Y.6
  • 143
    • 84942693814 scopus 로고    scopus 로고
    • Metagenomic analysis of faecal microbiome as a tool towards targeted non-invasive biomarkers for colorectal cancer
    • Yu, J., Feng, Q., Wong, S.H., Zhang, D., Liang, Q.Y., Qin, Y., Tang, L., Zhao, H., Stenvang, J., Li, Y., et al. Metagenomic analysis of faecal microbiome as a tool towards targeted non-invasive biomarkers for colorectal cancer. Gut 66 (2017), 70–78.
    • (2017) Gut , vol.66 , pp. 70-78
    • Yu, J.1    Feng, Q.2    Wong, S.H.3    Zhang, D.4    Liang, Q.Y.5    Qin, Y.6    Tang, L.7    Zhao, H.8    Stenvang, J.9    Li, Y.10


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