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Volumn 9, Issue 1, 2018, Pages

Maternal gut and breast milk microbiota affect infant gut antibiotic resistome and mobile genetic elements

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; BACTERIAL RNA; CEFALOTIN; PENICILLIN G; PROBIOTIC AGENT; RNA 16S; ANTIINFECTIVE AGENT;

EID: 85053889361     PISSN: None     EISSN: 20411723     Source Type: Journal    
DOI: 10.1038/s41467-018-06393-w     Document Type: Article
Times cited : (379)

References (66)
  • 1
    • 85053872199 scopus 로고    scopus 로고
    • WHO World Health Organization,. Antimicrobial resistance: global report on surveillance.: http://www.who.int/drugresistance/documents/surveillancereport/en/. (,). Accessed 27 Sept 2017
    • WHO World Health Organization. Antimicrobial resistance: global report on surveillance. Available at: http://www.who.int/drugresistance/documents/surveillancereport/en/. (2014). Accessed 27 Sept 2017.
    • (2014)
  • 2
    • 33847151750 scopus 로고    scopus 로고
    • The antibiotic resistome: the nexus of chemical and genetic diversity
    • COI: 1:CAS:528:DC%2BD2sXhslOgur8%3D
    • Wright, G. D. The antibiotic resistome: the nexus of chemical and genetic diversity. Nat. Rev. Microbiol. 5, 175–186 (2007).
    • (2007) Nat. Rev. Microbiol. , vol.5 , pp. 175-186
    • Wright, G.D.1
  • 3
    • 10944272743 scopus 로고    scopus 로고
    • Antibacterial resistance worldwide: causes, challenges and responses
    • COI: 1:CAS:528:DC%2BD2cXhtVeht7fF
    • Levy, S. B. & Marshall, B. Antibacterial resistance worldwide: causes, challenges and responses. Nat. Med. 10, S122–S129 (2004).
    • (2004) Nat. Med. , vol.10 , pp. S122-S129
    • Levy, S.B.1    Marshall, B.2
  • 4
    • 84861992014 scopus 로고    scopus 로고
    • The application of ecological theory toward an understanding of the human microbiome
    • COI: 1:CAS:528:DC%2BC38XnvFekt7k%3D
    • Costello, E. K., Stagaman, K., Dethlefsen, L., Bohannan, B. J. M. & Relman, D. A. The application of ecological theory toward an understanding of the human microbiome. Science 336, 1255–1262 (2012).
    • (2012) Science , vol.336 , pp. 1255-1262
    • Costello, E.K.1    Stagaman, K.2    Dethlefsen, L.3    Bohannan, B.J.M.4    Relman, D.A.5
  • 5
    • 84954077248 scopus 로고    scopus 로고
    • Access to effective antimicrobials: a worldwide challenge
    • Laxminarayan, R. et al. Access to effective antimicrobials: a worldwide challenge. Lancet 387, 168–175 (2016).
    • (2016) Lancet , vol.387 , pp. 168-175
    • Laxminarayan, R.1
  • 6
    • 0038676373 scopus 로고    scopus 로고
    • Necrotizing enterocolitis in full-term infants
    • Ostlie, D. J. et al. Necrotizing enterocolitis in full-term infants. J. Pediatr. Surg. 38, 1039–1042 (2003).
    • (2003) J. Pediatr. Surg. , vol.38 , pp. 1039-1042
    • Ostlie, D.J.1
  • 7
    • 84929297936 scopus 로고    scopus 로고
    • Dynamics and stabilization of the human gut microbiome during the first year of life
    • Bäckhed, F. et al. Dynamics and stabilization of the human gut microbiome during the first year of life. Cell Host Microbe 17, 690–703 (2015).
    • (2015) Cell Host Microbe , vol.17 , pp. 690-703
    • Bäckhed, F.1
  • 8
    • 84966643593 scopus 로고    scopus 로고
    • Gut resistome development in healthy twin pairs in the first year of life
    • Moore, A. M. et al. Gut resistome development in healthy twin pairs in the first year of life. Microbiome 3, 27 (2015).
    • (2015) Microbiome , vol.3
    • Moore, A.M.1
  • 9
    • 84967255063 scopus 로고    scopus 로고
    • Developmental dynamics of the preterm infant gut microbiota and antibiotic resistome
    • COI: 1:CAS:528:DC%2BC2sXkvF2jsL4%3D
    • Gibson, M. K. et al. Developmental dynamics of the preterm infant gut microbiota and antibiotic resistome. Nat. Microbiol 1, 16024 (2016).
    • (2016) Nat. Microbiol , vol.1 , pp. 16024
    • Gibson, M.K.1
  • 10
    • 84880831180 scopus 로고    scopus 로고
    • Metagenome-wide analysis of antibiotic resistance genes in a large cohort of human gut microbiota
    • Hu, Y. et al. Metagenome-wide analysis of antibiotic resistance genes in a large cohort of human gut microbiota. Nat. Commun. 4, 2151 (2013).
    • (2013) Nat. Commun. , vol.4
    • Hu, Y.1
  • 11
    • 84891906623 scopus 로고    scopus 로고
    • Pediatric fecal microbiota harbor diverse and novel antibiotic resistance genes
    • Moore, A. M. et al. Pediatric fecal microbiota harbor diverse and novel antibiotic resistance genes. PLoS ONE 8, e78822 (2013).
    • (2013) PLoS ONE , vol.8
    • Moore, A.M.1
  • 12
    • 84941247882 scopus 로고    scopus 로고
    • High frequencies of antibiotic resistance genes in infants’ meconium and early fecal samples
    • COI: 1:CAS:528:DC%2BC2MXitVymtb%2FI
    • Gosalbes, M. J. et al. High frequencies of antibiotic resistance genes in infants’ meconium and early fecal samples. J. Dev. Orig. Health Dis. 7, 35–44 (2016).
    • (2016) J. Dev. Orig. Health Dis. , vol.7 , pp. 35-44
    • Gosalbes, M.J.1
  • 13
    • 82955169524 scopus 로고    scopus 로고
    • Acquired antibiotic resistance: are we born with it?
    • COI: 1:CAS:528:DC%2BC3MXhsVKnurfI
    • Zhang, L. et al. Acquired antibiotic resistance: are we born with it? Appl. Environ. Microbiol. 77, 7134–7141 (2011).
    • (2011) Appl. Environ. Microbiol. , vol.77 , pp. 7134-7141
    • Zhang, L.1
  • 14
    • 84864465909 scopus 로고    scopus 로고
    • Human milk oligosaccharides: every baby needs a sugar mama
    • COI: 1:CAS:528:DC%2BC38XhtFans73K
    • Bode, L. Human milk oligosaccharides: every baby needs a sugar mama. Glycobiology 22, 1147–1162 (2012).
    • (2012) Glycobiology , vol.22 , pp. 1147-1162
    • Bode, L.1
  • 15
    • 84906944200 scopus 로고    scopus 로고
    • Vertical mother-neonate transfer of maternal gut bacteria via breastfeeding
    • COI: 1:CAS:528:DC%2BC2cXhsVOitrbJ
    • Jost, T., Lacroix, C., Braegger, C. P., Rochat, F. & Chassard, C. Vertical mother-neonate transfer of maternal gut bacteria via breastfeeding. Environ. Microbiol. 16, 2891–2904 (2014).
    • (2014) Environ. Microbiol. , vol.16 , pp. 2891-2904
    • Jost, T.1    Lacroix, C.2    Braegger, C.P.3    Rochat, F.4    Chassard, C.5
  • 16
    • 85041537871 scopus 로고    scopus 로고
    • Machine learning leveraging genomes from metagenomes identifies influential antibiotic resistance genes in the infant gut microbiome
    • Rahman, S. F., Olm, M. R., Morowitz, M. J. & Banfield, J. F. Machine learning leveraging genomes from metagenomes identifies influential antibiotic resistance genes in the infant gut microbiome. mSystems 3, e00123–17 (2018).
    • (2018) mSystems , vol.3 , pp. 117-123
    • Rahman, S.F.1    Olm, M.R.2    Morowitz, M.J.3    Banfield, J.F.4
  • 17
    • 23944506044 scopus 로고    scopus 로고
    • Mobile genetic elements: the agents of open source evolution
    • COI: 1:CAS:528:DC%2BD2MXps1KjtbY%3D
    • Frost, L. S., Leplae, R., Summers, A. O. & Toussaint, A. Mobile genetic elements: the agents of open source evolution. Nat. Rev. Microbiol. 3, 722–732 (2005).
    • (2005) Nat. Rev. Microbiol. , vol.3 , pp. 722-732
    • Frost, L.S.1    Leplae, R.2    Summers, A.O.3    Toussaint, A.4
  • 18
    • 84945955529 scopus 로고    scopus 로고
    • The commensal infant gut meta-mobilome as a potential reservoir for persistent multidrug resistance integrons
    • COI: 1:CAS:528:DC%2BC2MXhslCnt7%2FO
    • Ravi, A. et al. The commensal infant gut meta-mobilome as a potential reservoir for persistent multidrug resistance integrons. Sci. Rep. 5, 15317 (2015).
    • (2015) Sci. Rep. , vol.5
    • Ravi, A.1
  • 19
    • 85031712239 scopus 로고    scopus 로고
    • Association of the gut microbiota mobilome with hospital location and birth weight in preterm infants
    • Ravi, A. et al. Association of the gut microbiota mobilome with hospital location and birth weight in preterm infants. Pediatr. Res. 82, 829–838 (2017).
    • (2017) Pediatr. Res. , vol.82 , pp. 829-838
    • Ravi, A.1
  • 20
    • 84878007093 scopus 로고    scopus 로고
    • Human milk metagenome: a functional capacity analysis
    • Ward, T. L., Hosid, S., Ioshikhes, I. & Altosaar, I. Human milk metagenome: a functional capacity analysis. BMC Microbiol. 13, 116 (2013).
    • (2013) BMC Microbiol. , vol.13 , pp. 116
    • Ward, T.L.1    Hosid, S.2    Ioshikhes, I.3    Altosaar, I.4
  • 21
    • 84937539335 scopus 로고    scopus 로고
    • Metagenomic analysis of milk of healthy and mastitis-suffering women
    • Jimenez, E. et al. Metagenomic analysis of milk of healthy and mastitis-suffering women. J. Hum. Lact. 31, 406–415 (2015).
    • (2015) J. Hum. Lact. , vol.31 , pp. 406-415
    • Jimenez, E.1
  • 22
    • 85031324393 scopus 로고    scopus 로고
    • Studying vertical microbiome transmission from mothers to infants by strain-level metagenomic profiling
    • Asnicar, F. et al. Studying vertical microbiome transmission from mothers to infants by strain-level metagenomic profiling. mSystems 2, e00164–16 (2017).
    • (2017) mSystems , vol.2 , pp. 116-164
    • Asnicar, F.1
  • 23
    • 84880050412 scopus 로고    scopus 로고
    • Country-specific antibiotic use practices impact the human gut resistome
    • COI: 1:CAS:528:DC%2BC3sXhtFSnsb7I
    • Forslund, K. et al. Country-specific antibiotic use practices impact the human gut resistome. Genome Res. 23, 1163–1169 (2013).
    • (2013) Genome Res. , vol.23 , pp. 1163-1169
    • Forslund, K.1
  • 24
    • 33748613276 scopus 로고    scopus 로고
    • Presence of specific antibiotic (tet) resistance genes in infant faecal microbiota
    • COI: 1:CAS:528:DC%2BD28XhtVymtLfO
    • Gueimonde, M., Salminen, S. & Isolauri, E. Presence of specific antibiotic (tet) resistance genes in infant faecal microbiota. FEMS Immunol. Med. Microbiol. 48, 21–25 (2006).
    • (2006) FEMS Immunol. Med. Microbiol. , vol.48 , pp. 21-25
    • Gueimonde, M.1    Salminen, S.2    Isolauri, E.3
  • 25
    • 84924629414 scopus 로고    scopus 로고
    • Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
    • Love, M. I., Huber, W. & Anders, S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 15, 550 (2014).
    • (2014) Genome Biol. , vol.15
    • Love, M.I.1    Huber, W.2    Anders, S.3
  • 26
    • 84901652050 scopus 로고    scopus 로고
    • Bacterial phylogeny structures soil resistomes across habitats
    • COI: 1:CAS:528:DC%2BC2cXoslCqtbw%3D
    • Forsberg, K. J. et al. Bacterial phylogeny structures soil resistomes across habitats. Nature 509, 612–616 (2014).
    • (2014) Nature , vol.509 , pp. 612-616
    • Forsberg, K.J.1
  • 27
    • 84876408419 scopus 로고    scopus 로고
    • ‘Blooming’ in the gut: how dysbiosis might contribute to pathogen evolution
    • COI: 1:CAS:528:DC%2BC3sXjslKrt7w%3D
    • Stecher, B., Maier, L. & Hardt, W.-D. ‘Blooming’ in the gut: how dysbiosis might contribute to pathogen evolution. Nat. Rev. Microbiol. 11, 277–284 (2013).
    • (2013) Nat. Rev. Microbiol. , vol.11 , pp. 277-284
    • Stecher, B.1    Maier, L.2    Hardt, W.D.3
  • 28
    • 0025669875 scopus 로고
    • Breast-milk and neonatal necrotizing enterocolitis
    • COI: 1:STN:280:DyaK3M%2Fntl2hsA%3D%3D
    • Lucas, A. & Cole, T. Breast-milk and neonatal necrotizing enterocolitis. Lancet 336, 1519–1523 (1990).
    • (1990) Lancet , vol.336 , pp. 1519-1523
    • Lucas, A.1    Cole, T.2
  • 29
    • 85016214230 scopus 로고    scopus 로고
    • Influence of feeding type on gut microbiome development in hospitalized preterm infants
    • Cong, X. et al. Influence of feeding type on gut microbiome development in hospitalized preterm infants. Nurs. Res. 66, 123–133 (2017).
    • (2017) Nurs. Res. , vol.66 , pp. 123-133
    • Cong, X.1
  • 30
    • 79959247053 scopus 로고    scopus 로고
    • Characterization of the diversity and temporal stability of bacterial communities in human milk
    • COI: 1:CAS:528:DC%2BC3MXotVWgur0%3D
    • Hunt, K. M. et al. Characterization of the diversity and temporal stability of bacterial communities in human milk. PLoS ONE 6, e21313 (2011).
    • (2011) PLoS ONE , vol.6
    • Hunt, K.M.1
  • 31
    • 84996489228 scopus 로고    scopus 로고
    • Human milk microbiota profiles in relation to birthing method, gestation and infant gender
    • Urbaniak, C., Angelini, M., Gloor, G. B. & Reid, G. Human milk microbiota profiles in relation to birthing method, gestation and infant gender. Microbiome 4, 1 (2016).
    • (2016) Microbiome , vol.4
    • Urbaniak, C.1    Angelini, M.2    Gloor, G.B.3    Reid, G.4
  • 32
    • 85053879755 scopus 로고    scopus 로고
    • WHO World Health Organization,. Global strategy for infant and young child feeding.: http://www.who.int/nutrition/publications/infantfeeding/9241562218/en/. (,). Accessed 27 Sept 2017
    • WHO World Health Organization. Global strategy for infant and young child feeding. Available at: http://www.who.int/nutrition/publications/infantfeeding/9241562218/en/. (2003). Accessed 27 Sept 2017.
    • (2003)
  • 33
    • 84891719992 scopus 로고    scopus 로고
    • How much metagenomic sequencing is enough to achieve a given goal?
    • Ni, J.,. & Yan, Q. & Yu, Y. How much metagenomic sequencing is enough to achieve a given goal?. Sci. Rep. 3, 1968 (2013).
    • (2013) Sci. Rep. , vol.3 , pp. 1968
    • Ni, J.1    Yan, Q.2    Yu, Y.3
  • 34
    • 84913554630 scopus 로고    scopus 로고
    • One chromosome, one contig: complete microbial genomes from long-read sequencing and assembly
    • COI: 1:CAS:528:DC%2BC2cXhvF2hu7jF
    • Koren, S. & Phillippy, A. M. One chromosome, one contig: complete microbial genomes from long-read sequencing and assembly. Curr. Opin. Microbiol. 23, 110–120 (2015).
    • (2015) Curr. Opin. Microbiol. , vol.23 , pp. 110-120
    • Koren, S.1    Phillippy, A.M.2
  • 36
    • 0027396868 scopus 로고
    • Acquisition of nonmaternal Enterobacteriaceae by infants delivered in hospitals
    • COI: 1:STN:280:DyaK3s7isValtA%3D%3D
    • Murono, K. et al. Acquisition of nonmaternal Enterobacteriaceae by infants delivered in hospitals. J. Pediatr. 122, 120–125 (1993).
    • (1993) J. Pediatr. , vol.122 , pp. 120-125
    • Murono, K.1
  • 37
    • 84923081620 scopus 로고    scopus 로고
    • What is a resistance gene? Ranking risk in resistomes
    • COI: 1:CAS:528:DC%2BC2cXitFKlu7rM
    • Martinez, J. L., Coque, T. M. & Baquero, F. What is a resistance gene? Ranking risk in resistomes. Nat. Rev. Microbiol. 13, 116–123 (2015).
    • (2015) Nat. Rev. Microbiol. , vol.13 , pp. 116-123
    • Martinez, J.L.1    Coque, T.M.2    Baquero, F.3
  • 38
    • 84995739993 scopus 로고    scopus 로고
    • The structure and diversity of human, animal and environmental resistomes
    • Pal, C., Bengtsson-Palme, J., Kristiansson, E. & Larsson, D. G. J. The structure and diversity of human, animal and environmental resistomes. Microbiome 4, 54 (2016).
    • (2016) Microbiome , vol.4
    • Pal, C.1    Bengtsson-Palme, J.2    Kristiansson, E.3    Larsson, D.G.J.4
  • 39
    • 84870294418 scopus 로고    scopus 로고
    • Maternal probiotic supplementation during pregnancy and breast-feeding reduces the risk of eczema in the infant
    • COI: 1:CAS:528:DC%2BC38XhsFGjt7nL
    • Rautava, S., Kainonen, E., Salminen, S. & Isolauri, E. Maternal probiotic supplementation during pregnancy and breast-feeding reduces the risk of eczema in the infant. J. Allergy Clin. Immunol. 130, 1355–1360 (2012).
    • (2012) J. Allergy Clin. Immunol. , vol.130 , pp. 1355-1360
    • Rautava, S.1    Kainonen, E.2    Salminen, S.3    Isolauri, E.4
  • 41
    • 84859210032 scopus 로고    scopus 로고
    • Fast gapped-read alignment with Bowtie 2
    • COI: 1:CAS:528:DC%2BC38Xjt1Oqt7c%3D
    • Langmead, B. & Salzberg, S. L. Fast gapped-read alignment with Bowtie 2. Nat. Methods 9, 357–359 (2012).
    • (2012) Nat. Methods , vol.9 , pp. 357-359
    • Langmead, B.1    Salzberg, S.L.2
  • 42
    • 77951770756 scopus 로고    scopus 로고
    • BEDTools: a flexible suite of utilities for comparing genomic features
    • COI: 1:CAS:528:DC%2BC3cXivFGkurc%3D
    • Li, H. et al. The Sequence Alignment/Map format and SAMtools. Bioinforma. Oxf. Engl. 25, 2078–2079 (2009).
    • (2010) Bioinformatics , vol.26 , pp. 841-842
    • Quinlan, A.R.1    Hall, I.M.2
  • 43
    • 80054915847 scopus 로고    scopus 로고
    • Cutadapt removes adapter sequences from high-throughput sequencing reads
    • Li, H. A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data. Bioinforma. Oxf. Engl. 27, 2987–2993 (2011).
    • (2011) EMBnet. J. , vol.17 , pp. 10-12
    • Martin, M.1
  • 44
    • 84864440400 scopus 로고    scopus 로고
    • Metagenomic microbial community profiling using unique clade-specific marker genes
    • COI: 1:CAS:528:DC%2BC38XotlCksL0%3D
    • Quinlan, A. R. & Hall, I. M. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26, 841–842 (2010).
    • (2012) Nat. Methods , vol.9 , pp. 811-814
    • Segata, N.1
  • 45
    • 84943580979 scopus 로고    scopus 로고
    • METAXA2: improved identification and taxonomic classification of small and large subunit rRNA in metagenomic data
    • COI: 1:CAS:528:DC%2BC2MXhs12lsrvI
    • Martin, M. Cutadapt removes adapter sequences from high-throughput sequencing reads. Embnet.journal 17, 10–12 (2011).
    • (2015) Mol. Ecol. Resour. , vol.15 , pp. 1403-1414
    • Bengtsson-Palme, J.1
  • 46
    • 72949107142 scopus 로고    scopus 로고
    • Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities
    • COI: 1:CAS:528:DC%2BC3cXis1yltw%3D%3D
    • Segata, N. et al. Metagenomic microbial community profiling using unique clade-specific marker genes. Nat. Methods 9, 811–814 (2012).
    • (2009) Appl. Environ. Microbiol. , vol.75 , pp. 7537-7541
    • Schloss, P.D.1
  • 47
    • 37549027613 scopus 로고    scopus 로고
    • SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
    • Bengtsson-Palme, J. et al. METAXA2: Improved identification and taxonomic classification of small and large subunit rRNA in metagenomic data. Mol. Ecol. Resour. 15, 1403–1414 (2015).
    • (2007) Nucleic Acids Res. , vol.35 , pp. 7188-7196
    • Pruesse, E.1
  • 48
    • 85017527948 scopus 로고    scopus 로고
    • Microbial strain-level population structure and genetic diversity from metagenomes
    • COI: 1:CAS:528:DC%2BC2sXmtlSqsbs%3D
    • Schloss, P. D. et al. Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl. Environ. Microbiol. 75, 7537–7541 (2009).
    • (2017) Genome Res. , vol.27 , pp. 626-638
    • Truong, D.T.1    Tett, A.2    Pasolli, E.3    Huttenhower, C.4    Segata, N.5
  • 49
    • 84879017399 scopus 로고    scopus 로고
    • The comprehensive antibiotic resistance database
    • COI: 1:CAS:528:DC%2BC3sXhtVart7%2FM
    • Pruesse, E. et al. SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res. 35, 7188–7196 (2007).
    • (2013) Antimicrob. Agents Chemother. , vol.57 , pp. 3348-3357
    • McArthur, A.G.1
  • 50
    • 84867587461 scopus 로고    scopus 로고
    • Identification of acquired antimicrobial resistance genes
    • COI: 1:CAS:528:DC%2BC38XhsFWksb3M
    • Truong, D. T., Tett, A., Pasolli, E., Huttenhower, C. & Segata, N. Microbial strain-level population structure and genetic diversity from metagenomes. Genome Res. 27, 626–638 (2017).
    • (2012) J. Antimicrob. Chemother. , vol.67 , pp. 2640-2644
    • Zankari, E.1
  • 51
    • 85016103144 scopus 로고    scopus 로고
    • Database resources of the national center for biotechnology information
    • McArthur, A. G. et al. The comprehensive antibiotic resistance database. Antimicrob. Agents Chemother. 57, 3348–3357 (2013).
    • (2017) Nucleic Acids Res. , vol.45 , pp. D12-D17
  • 52
    • 84903160552 scopus 로고    scopus 로고
    • In silico detection and typing of plasmids using PlasmidFinder and plasmid multilocus sequence typing
    • Zankari, E. et al. Identification of acquired antimicrobial resistance genes. J. Antimicrob. Chemother. 67, 2640–2644 (2012).
    • (2014) Antimicrob. Agents Chemother. , vol.58 , pp. 3895-3903
    • Carattoli, A.1
  • 53
    • 84994444665 scopus 로고    scopus 로고
    • VSEARCH: a versatile open source tool for metagenomics
    • NCBI Resource Coordinators. Database Resources of the National Center for Biotechnology Information. Nucleic Acids Res. 45, D12–D17 (2017).
    • (2016) PeerJ , vol.4
    • Rognes, T.1    Flouri, T.2    Nichols, B.3    Quince, C.4    Mahé, F.5
  • 54
    • 68549104404 scopus 로고    scopus 로고
    • The sequence alignment/map format and SAMtools
    • Carattoli, A. et al. In silico detection and typing of plasmids using PlasmidFinder and plasmid multilocus sequence typing. Antimicrob. Agents Chemother. 58, 3895–3903 (2014).
    • (2009) Bioinformatics , vol.25 , pp. 2078-2079
    • Li, H.1
  • 55
    • 80054915847 scopus 로고    scopus 로고
    • A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data
    • COI: 1:CAS:528:DC%2BC3MXhtlGkur7L
    • Rognes, T., Flouri, T., Nichols, B., Quince, C. & Mahé, F. VSEARCH: a versatile open source tool for metagenomics. PeerJ 4, (2016).
    • (2011) Bioinformatics , vol.27 , pp. 2987-2993
    • Li, H.1
  • 56
    • 85051024165 scopus 로고    scopus 로고
    • sourmash: a library for MinHash sketching of DNA
    • Titus Brown, C. & Irber, L. sourmash: a library for MinHash sketching of DNA. J. Open Source Softw. 1, 27 (2016).
    • (2016) J. Open Source Softw. , vol.1 , pp. 27
    • Titus Brown, C.1    Irber, L.2
  • 57
    • 85053925382 scopus 로고    scopus 로고
    • R,:, and Environment for Statistical Computing. (R Foundation for Statistical Computing). https://www.r-project.org/. (2018
    • R Core Team. R: A Language and Environment for Statistical Computing. (R Foundation for Statistical Computing). https://www.r-project.org/. (2018).
    • Core Team, R.1    Language, A.2
  • 58
    • 84876427223 scopus 로고    scopus 로고
    • phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data
    • COI: 1:CAS:528:DC%2BC3sXntVWht7w%3D
    • McMurdie, P. J. & Holmes, S. phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data. PLoS ONE 8, e61217 (2013).
    • (2013) PLoS ONE , vol.8
    • McMurdie, P.J.1    Holmes, S.2
  • 60
    • 0001427876 scopus 로고
    • Measurement of ‘overlap’ in comparative ecological studies
    • Horn, H. S. Measurement of ‘overlap’ in comparative ecological studies. Am. Nat. 100, 419–424 (1966).
    • (1966) Am. Nat. , vol.100 , pp. 419-424
    • Horn, H.S.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.