메뉴 건너뛰기




Volumn 36, Issue 6, 2013, Pages 376-382

A phylogenetic analysis of the phylum Fibrobacteres

Author keywords

Fibrobacter; Fibrobacteres; Host range; Phylogeny; Rumen

Indexed keywords

RNA 16S;

EID: 84881666450     PISSN: 07232020     EISSN: 16180984     Source Type: Journal    
DOI: 10.1016/j.syapm.2013.04.002     Document Type: Article
Times cited : (28)

References (56)
  • 1
    • 0037069419 scopus 로고    scopus 로고
    • The evolution of fungus-growing termites and their mutualistic fungal symbionts
    • Aanen D.K., et al. The evolution of fungus-growing termites and their mutualistic fungal symbionts. PNAS 2002, 99:14887-14892.
    • (2002) PNAS , vol.99 , pp. 14887-14892
    • Aanen, D.K.1
  • 2
    • 0025099312 scopus 로고
    • Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology
    • Amann R., Krumholz L., Stahl D.A. Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology. J. Bacteriol. 1990, 172:762-770.
    • (1990) J. Bacteriol. , vol.172 , pp. 762-770
    • Amann, R.1    Krumholz, L.2    Stahl, D.A.3
  • 3
    • 0026555817 scopus 로고
    • Diversity among Fibrobacter isolates: towards a phylogenetic classification
    • Amann R., et al. Diversity among Fibrobacter isolates: towards a phylogenetic classification. Syst. Appl. Microbiol. 1992, 15:23-31.
    • (1992) Syst. Appl. Microbiol. , vol.15 , pp. 23-31
    • Amann, R.1
  • 4
    • 13844312429 scopus 로고    scopus 로고
    • Fiber-degrading systems of different strains of the genus Fibrobacter
    • Bera-Maillet C., Ribot Y., Forano E. Fiber-degrading systems of different strains of the genus Fibrobacter. Appl. Environ. Microbiol. 2004, 70:2172-2179.
    • (2004) Appl. Environ. Microbiol. , vol.70 , pp. 2172-2179
    • Bera-Maillet, C.1    Ribot, Y.2    Forano, E.3
  • 5
    • 33947602415 scopus 로고    scopus 로고
    • Archaeal and bacterial community composition of sediment and plankton from a suboxic freshwater pond
    • Briée C., Moreira D., López-García P. Archaeal and bacterial community composition of sediment and plankton from a suboxic freshwater pond. Res. Microbiol. 2007, 158:213-227.
    • (2007) Res. Microbiol. , vol.158 , pp. 213-227
    • Briée, C.1    Moreira, D.2    López-García, P.3
  • 6
    • 0034044522 scopus 로고    scopus 로고
    • Microecology of the termite gut: structure and function on a microscale
    • Brune A., Friedrich M. Microecology of the termite gut: structure and function on a microscale. Curr. Opin. Microbiol. 2000, 3:263-269.
    • (2000) Curr. Opin. Microbiol. , vol.3 , pp. 263-269
    • Brune, A.1    Friedrich, M.2
  • 7
    • 0001556080 scopus 로고
    • Observations on the nutrition of Bacteroides succinogenes - a ruminal cellulolytic bacterium
    • Bryant M., Robinson I., Chu H. Observations on the nutrition of Bacteroides succinogenes - a ruminal cellulolytic bacterium. J. Dairy Sci. 1959, 42:1831-1847.
    • (1959) J. Dairy Sci. , vol.42 , pp. 1831-1847
    • Bryant, M.1    Robinson, I.2    Chu, H.3
  • 8
    • 48349089265 scopus 로고    scopus 로고
    • Utility of enzymes from Fibrobacter succinogenes and Prevotella ruminicola as detergent additives
    • Chen B.-Y., Wang H.-T. Utility of enzymes from Fibrobacter succinogenes and Prevotella ruminicola as detergent additives. J. Ind. Microbiol. Biotechnol. 2008, 35:923-930.
    • (2008) J. Ind. Microbiol. Biotechnol. , vol.35 , pp. 923-930
    • Chen, B.-Y.1    Wang, H.-T.2
  • 9
    • 58149200948 scopus 로고    scopus 로고
    • The Ribosomal Database Project: improved alignments and new tools for rRNA analysis
    • Cole J.R., et al. The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Nucleic Acids Res. 2009, 37:D141-D145.
    • (2009) Nucleic Acids Res. , vol.37
    • Cole, J.R.1
  • 10
    • 0039616805 scopus 로고
    • Isolations and characterization of several cellulolytic bacteria from in vitro rumen fermentations
    • Dehority B.A. Isolations and characterization of several cellulolytic bacteria from in vitro rumen fermentations. J. Dairy Sci. 1963, 46:217-222.
    • (1963) J. Dairy Sci. , vol.46 , pp. 217-222
    • Dehority, B.A.1
  • 11
    • 33746061683 scopus 로고    scopus 로고
    • Greengenes, a chimera-checked 16S rRNA gene database and workbench campatible with ARB
    • DeSantis T., et al. Greengenes, a chimera-checked 16S rRNA gene database and workbench campatible with ARB. Appl. Environ. Microbiol. 2006, 72.
    • (2006) Appl. Environ. Microbiol. , vol.72
    • DeSantis, T.1
  • 12
    • 77951498638 scopus 로고    scopus 로고
    • Experimental factors affecting PCR-based estimates of microbial species richness and evenness
    • Engelbrektson A., et al. Experimental factors affecting PCR-based estimates of microbial species richness and evenness. ISME J. 2010, 4:642-647.
    • (2010) ISME J. , vol.4 , pp. 642-647
    • Engelbrektson, A.1
  • 13
    • 38349049462 scopus 로고    scopus 로고
    • Polysaccharide utilization by gut bacteria: potential for new insights from genomic analysis
    • Flint H.J., et al. Polysaccharide utilization by gut bacteria: potential for new insights from genomic analysis. Nat. Rev. Microbiol. 2008, 6:121-131.
    • (2008) Nat. Rev. Microbiol. , vol.6 , pp. 121-131
    • Flint, H.J.1
  • 14
    • 0025068983 scopus 로고
    • Use of glucose and cellobiose by 3 strains of Fibrobacter succinogenes
    • Gaudet G., Cheng K.J. Use of glucose and cellobiose by 3 strains of Fibrobacter succinogenes. Repr. Nutr. Dev. 1990, 2:201s-202s.
    • (1990) Repr. Nutr. Dev. , vol.2
    • Gaudet, G.1    Cheng, K.J.2
  • 15
    • 33750050566 scopus 로고    scopus 로고
    • Phylogenetic diversity, localization, and cell morphologies of members of the candidate phylum TG3 and a subphylum in the phylum Fibrobacteres, recently discovered bacterial groups dominant in termite guts
    • Hongoh Y., et al. Phylogenetic diversity, localization, and cell morphologies of members of the candidate phylum TG3 and a subphylum in the phylum Fibrobacteres, recently discovered bacterial groups dominant in termite guts. Appl. Environ. Microbiol. 2006, 72:6780-6788.
    • (2006) Appl. Environ. Microbiol. , vol.72 , pp. 6780-6788
    • Hongoh, Y.1
  • 16
    • 0034849408 scopus 로고    scopus 로고
    • MRBAYES: Bayesian inference of phylogenetic trees
    • Huelsenbeck J., Ronquist F. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 2001, 17:754-755.
    • (2001) Bioinformatics , vol.17 , pp. 754-755
    • Huelsenbeck, J.1    Ronquist, F.2
  • 17
    • 70449462400 scopus 로고
    • The anaerobic mesophilic cellulolytic bacteria
    • Hungate R. The anaerobic mesophilic cellulolytic bacteria. Bacteriol. Rev. 1950, 14:1-49.
    • (1950) Bacteriol. Rev. , vol.14 , pp. 1-49
    • Hungate, R.1
  • 18
    • 79952337786 scopus 로고    scopus 로고
    • Status of the phylogenetic diversity census of ruminal microbiomes
    • Kim M., Morrison M., Yu Z. Status of the phylogenetic diversity census of ruminal microbiomes. FEMS Microbiol. Ecol. 2011, 76:49-63.
    • (2011) FEMS Microbiol. Ecol. , vol.76 , pp. 49-63
    • Kim, M.1    Morrison, M.2    Yu, Z.3
  • 19
    • 48249114783 scopus 로고    scopus 로고
    • Ecological and physiological characterization shows that Fibrobacter succinogenes is important in rumen fiber digestion: review
    • Kobayashi Y., Shinkai T., Koike S. Ecological and physiological characterization shows that Fibrobacter succinogenes is important in rumen fiber digestion: review. Folia Microbiol. 2008, 53:195-2000.
    • (2008) Folia Microbiol. , vol.53 , pp. 195-2000
    • Kobayashi, Y.1    Shinkai, T.2    Koike, S.3
  • 20
    • 78149370598 scopus 로고    scopus 로고
    • Composition, spatial distribution, and diversity of the bacterial communities in the rumen of cows fed different forages
    • Kong Y., Teather R., Forster R. Composition, spatial distribution, and diversity of the bacterial communities in the rumen of cows fed different forages. FEMS Microbiol. Ecol. 2010, 74:612-622.
    • (2010) FEMS Microbiol. Ecol. , vol.74 , pp. 612-622
    • Kong, Y.1    Teather, R.2    Forster, R.3
  • 21
    • 73349110099 scopus 로고    scopus 로고
    • Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates
    • Kunin V., et al. Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates. Environ. Microbiol. 2010, 12:118-123.
    • (2010) Environ. Microbiol. , vol.12 , pp. 118-123
    • Kunin, V.1
  • 22
    • 33845873289 scopus 로고    scopus 로고
    • Interactive Tree of Life (iTOL): an online tool for phylogenetic tree display and annotation
    • Letunic I., Bork P. Interactive Tree of Life (iTOL): an online tool for phylogenetic tree display and annotation. Bioinformatics 2007, 23:127-128.
    • (2007) Bioinformatics , vol.23 , pp. 127-128
    • Letunic, I.1    Bork, P.2
  • 23
    • 46249085739 scopus 로고    scopus 로고
    • Evolution of mammals and their gut microbes
    • Ley R.E., et al. Evolution of mammals and their gut microbes. Science 2008, 320:1647-1651.
    • (2008) Science , vol.320 , pp. 1647-1651
    • Ley, R.E.1
  • 24
    • 0028924371 scopus 로고
    • Taxon-specific probes for the cellulolytic genus Fibrobacter reveal abundant and novel equine-associated populations
    • Lin C., Stahl D.A. Taxon-specific probes for the cellulolytic genus Fibrobacter reveal abundant and novel equine-associated populations. Appl. Environ. Microbiol. 1995, 61:1348-1351.
    • (1995) Appl. Environ. Microbiol. , vol.61 , pp. 1348-1351
    • Lin, C.1    Stahl, D.A.2
  • 25
    • 2542523843 scopus 로고    scopus 로고
    • ARB: a software environment for sequence data
    • Ludwig W., et al. ARB: a software environment for sequence data. Nucleic Acids Res. 2004, 32:1363-1371.
    • (2004) Nucleic Acids Res. , vol.32 , pp. 1363-1371
    • Ludwig, W.1
  • 26
    • 44849139426 scopus 로고    scopus 로고
    • Niche differentiation among sulfur-oxidizing bacterial populations in cave waters
    • Macalady J.L., et al. Niche differentiation among sulfur-oxidizing bacterial populations in cave waters. ISME J. 2008, 2:590-601.
    • (2008) ISME J. , vol.2 , pp. 590-601
    • Macalady, J.L.1
  • 27
    • 0030894619 scopus 로고    scopus 로고
    • Kinetics of cellulose digestion by Fibrobacter succinogenes S85
    • Maglione G., Russell J.B., Wilson D. Kinetics of cellulose digestion by Fibrobacter succinogenes S85. Appl. Environ. Microbiol. 1997, 63:665-669.
    • (1997) Appl. Environ. Microbiol. , vol.63 , pp. 665-669
    • Maglione, G.1    Russell, J.B.2    Wilson, D.3
  • 28
    • 76949105792 scopus 로고    scopus 로고
    • Detection of fiber-digesting bacteria in the ceca of ostrich using specific primer sets
    • Matsui H., Ban-Tokuda T., Wakita M. Detection of fiber-digesting bacteria in the ceca of ostrich using specific primer sets. Curr. Microbiol. 2010, 60:112-116.
    • (2010) Curr. Microbiol. , vol.60 , pp. 112-116
    • Matsui, H.1    Ban-Tokuda, T.2    Wakita, M.3
  • 29
    • 67651244498 scopus 로고    scopus 로고
    • Molecular biological detection and quantification of novel Fibrobacter populations in freshwater lakes
    • McDonald J.E., et al. Molecular biological detection and quantification of novel Fibrobacter populations in freshwater lakes. Appl. Environ. Microbiol. 2009, 75:5148-5152.
    • (2009) Appl. Environ. Microbiol. , vol.75 , pp. 5148-5152
    • McDonald, J.E.1
  • 30
    • 41849146389 scopus 로고    scopus 로고
    • Detection of novel Fibrobacter populations in landfill sites and determination of their relative abundance via quantitative PCR
    • McDonald J.E., et al. Detection of novel Fibrobacter populations in landfill sites and determination of their relative abundance via quantitative PCR. Environ. Microbiol. 2008, 10:1310-1319.
    • (2008) Environ. Microbiol. , vol.10 , pp. 1310-1319
    • McDonald, J.E.1
  • 31
    • 55949137170 scopus 로고    scopus 로고
    • Potential core species and satellite species in the bacterial community within the rabbit caecum
    • Monteils V., et al. Potential core species and satellite species in the bacterial community within the rabbit caecum. FEMS Microbiol. Ecol. 2008, 66:620-629.
    • (2008) FEMS Microbiol. Ecol. , vol.66 , pp. 620-629
    • Monteils, V.1
  • 32
    • 0023749467 scopus 로고
    • Transfer of Bacteroides succinogenes (Hungate) to Fibrobacter gen. nov. as Fibrobacter succinogenes comb. nov. and description of Fibrobacter intestinalis sp. nov
    • Montgomery L., Flesher B., Stahl D. Transfer of Bacteroides succinogenes (Hungate) to Fibrobacter gen. nov. as Fibrobacter succinogenes comb. nov. and description of Fibrobacter intestinalis sp. nov. Int. J. Syst. Bacteriol. 1988, 38:430-435.
    • (1988) Int. J. Syst. Bacteriol. , vol.38 , pp. 430-435
    • Montgomery, L.1    Flesher, B.2    Stahl, D.3
  • 33
    • 0020368464 scopus 로고
    • Characterization of rat cecum cellulolytic bacteria
    • Montgomery L., Macy J. Characterization of rat cecum cellulolytic bacteria. Appl. Environ. Microbiol. 1982, 44:1435-1443.
    • (1982) Appl. Environ. Microbiol. , vol.44 , pp. 1435-1443
    • Montgomery, L.1    Macy, J.2
  • 34
    • 17644436677 scopus 로고    scopus 로고
    • Soil bacterial community shift correlated with change from forest to pasture vegetation in a tropical soil
    • Nüsslein K., Tiedje J. Soil bacterial community shift correlated with change from forest to pasture vegetation in a tropical soil. Appl. Environ. Microbiol. 1999, 65:3622-3626.
    • (1999) Appl. Environ. Microbiol. , vol.65 , pp. 3622-3626
    • Nüsslein, K.1    Tiedje, J.2
  • 35
    • 0242453138 scopus 로고    scopus 로고
    • Coevolution of symbiotic systems of termites and their gut microorganisms
    • Ohkuma M., et al. Coevolution of symbiotic systems of termites and their gut microorganisms. RIKEN Rev. 2001, 41:73-74.
    • (2001) RIKEN Rev. , vol.41 , pp. 73-74
    • Ohkuma, M.1
  • 36
    • 40849095991 scopus 로고    scopus 로고
    • Bacterial community structure of acid-impacted lakes: what controls diversity?
    • Percent S.F., et al. Bacterial community structure of acid-impacted lakes: what controls diversity?. Appl. Environ. Microbiol. 2008, 74:1856-1868.
    • (2008) Appl. Environ. Microbiol. , vol.74 , pp. 1856-1868
    • Percent, S.F.1
  • 39
    • 0041386108 scopus 로고    scopus 로고
    • MrBayes 3: Bayesian phylogenetic inference under mixed models
    • Ronquist F., Huelsenbeck J.P. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 2003, 19:1572-1574.
    • (2003) Bioinformatics , vol.19 , pp. 1572-1574
    • Ronquist, F.1    Huelsenbeck, J.P.2
  • 40
    • 0023375195 scopus 로고
    • The neighbor-joining method: a new method for reconstructing phylogenetic trees
    • Saitou N., Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 1987, 4:406-425.
    • (1987) Mol. Biol. Evol. , vol.4 , pp. 406-425
    • Saitou, N.1    Nei, M.2
  • 41
    • 15444362001 scopus 로고    scopus 로고
    • Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness
    • Schloss P.D., Handelsman J. Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness. Appl. Environ. Microbiol. 2005, 71:1501-1506.
    • (2005) Appl. Environ. Microbiol. , vol.71 , pp. 1501-1506
    • Schloss, P.D.1    Handelsman, J.2
  • 42
    • 72949107142 scopus 로고    scopus 로고
    • Introducing MOTHUR: open-source, platform-independent, community-supported software for describing and comparing microbial communities
    • Schloss P.D., et al. Introducing MOTHUR: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl. Environ. Microbiol. 2009, 75:7537-7541.
    • (2009) Appl. Environ. Microbiol. , vol.75 , pp. 7537-7541
    • Schloss, P.D.1
  • 43
    • 64549089255 scopus 로고    scopus 로고
    • Fibrolytic capabilities of ruminal bacterium Fibrobacter succinogenes in relation to its phylogenetic grouping
    • Shinkai T., et al. Fibrolytic capabilities of ruminal bacterium Fibrobacter succinogenes in relation to its phylogenetic grouping. FEMS Microbiol. Lett. 2009, 294:183-190.
    • (2009) FEMS Microbiol. Lett. , vol.294 , pp. 183-190
    • Shinkai, T.1
  • 44
    • 0019516674 scopus 로고
    • Selective isolation and characteristics of Bacteroides succinogenes from the rumen of a cow
    • Stewart C., et al. Selective isolation and characteristics of Bacteroides succinogenes from the rumen of a cow. Appl. Environ. Microbiol. 1981, 41:504-510.
    • (1981) Appl. Environ. Microbiol. , vol.41 , pp. 504-510
    • Stewart, C.1
  • 45
    • 79955446915 scopus 로고    scopus 로고
    • The complete genome sequence of Fibrobacter succinogenes S85 reveals a cellulolytic and metabolic specialist
    • Suen G., et al. The complete genome sequence of Fibrobacter succinogenes S85 reveals a cellulolytic and metabolic specialist. PLoS ONE 2011, 6:e18814.
    • (2011) PLoS ONE , vol.6
    • Suen, G.1
  • 46
    • 0032776213 scopus 로고    scopus 로고
    • Rumen bacterial diversity as determined by sequence analysis of 16S rDNA libraries
    • Tajima K., et al. Rumen bacterial diversity as determined by sequence analysis of 16S rDNA libraries. FEMS Microbiol. Lett. 1999, 29:159-169.
    • (1999) FEMS Microbiol. Lett. , vol.29 , pp. 159-169
    • Tajima, K.1
  • 47
    • 3342920601 scopus 로고    scopus 로고
    • Prospects for inferring very large phylogenies by using the neighbor-joining method
    • Tamura K., Nei M., Kumar S. Prospects for inferring very large phylogenies by using the neighbor-joining method. PNAS. 2004, 101:11030-11035.
    • (2004) PNAS. , vol.101 , pp. 11030-11035
    • Tamura, K.1    Nei, M.2    Kumar, S.3
  • 48
    • 79957613599 scopus 로고    scopus 로고
    • MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods
    • Tamura K., et al. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol. 2011, 28:2731-2739.
    • (2011) Mol. Biol. Evol. , vol.28 , pp. 2731-2739
    • Tamura, K.1
  • 49
    • 38248999758 scopus 로고
    • The production and metabolism of volatile fatty acids by ruminants fed roughages: a review
    • van Houtert M.F.J. The production and metabolism of volatile fatty acids by ruminants fed roughages: a review. Anim. Feed Sci. Technol. 1993, 43:189-225.
    • (1993) Anim. Feed Sci. Technol. , vol.43 , pp. 189-225
    • van Houtert, M.F.J.1
  • 51
    • 70350502063 scopus 로고    scopus 로고
    • Metagenome of a versatile chemolithoautotroph from expanding oceanic dead zones
    • Walsh D.A., et al. Metagenome of a versatile chemolithoautotroph from expanding oceanic dead zones. Science 2009, 326:578-582.
    • (2009) Science , vol.326 , pp. 578-582
    • Walsh, D.A.1
  • 52
    • 36549000721 scopus 로고    scopus 로고
    • Metagenomic and functional analysis of hindgut microbiota of a wood-feeding higher termite
    • Warnecke F., et al. Metagenomic and functional analysis of hindgut microbiota of a wood-feeding higher termite. Nature 2007, 450:560-565.
    • (2007) Nature , vol.450 , pp. 560-565
    • Warnecke, F.1
  • 53
    • 0025944027 scopus 로고
    • Differential fermentation of cellulose allomorphs by ruminal cellulolytic bacteria
    • Weimer P.J., French A., Calamari T. Differential fermentation of cellulose allomorphs by ruminal cellulolytic bacteria. Appl. Environ. Microbiol. 1991, 57:3101-3106.
    • (1991) Appl. Environ. Microbiol. , vol.57 , pp. 3101-3106
    • Weimer, P.J.1    French, A.2    Calamari, T.3
  • 54
    • 21744452510 scopus 로고    scopus 로고
    • A truncated Fibrobacter succinogenes 1,3-1,4-β-d-glucanase with improved enzymatic activity and thermotolerance
    • Wen T.-N., et al. A truncated Fibrobacter succinogenes 1,3-1,4-β-d-glucanase with improved enzymatic activity and thermotolerance. Biochemistry 2005, 44:9197-9205.
    • (2005) Biochemistry , vol.44 , pp. 9197-9205
    • Wen, T.-N.1
  • 56
    • 0032997255 scopus 로고    scopus 로고
    • Biotechnology of succinic acid production and markets for derived industrial products
    • Zeikus J.G., Jain M.K., Elankovan P. Biotechnology of succinic acid production and markets for derived industrial products. Appl. Microbiol. Biotechnol. 1999, 51:545-552.
    • (1999) Appl. Microbiol. Biotechnol. , vol.51 , pp. 545-552
    • Zeikus, J.G.1    Jain, M.K.2    Elankovan, P.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.