메뉴 건너뛰기




Volumn 95, Issue , 2016, Pages 212-222

Diversity and distribution patterns of acidobacterial communities in the black soil zone of northeast China

Author keywords

Acidobacteria specific primer; Acidobacterial subgroups; Illuminar MiSeq sequencing; Mollisols; Soil carbon content; Soil pH

Indexed keywords

POLYMERASE CHAIN REACTION; RNA; SOIL SURVEYS;

EID: 84955258337     PISSN: 00380717     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.soilbio.2015.12.021     Document Type: Article
Times cited : (121)

References (55)
  • 1
    • 34248225741 scopus 로고    scopus 로고
    • Acidobactetia phylum sequences in uranium-contaminated subsurface sediments greatly expand the known diversity within the phylum
    • Barns S.M., Cain E.C., Sommerville L., Kuske C.R. Acidobactetia phylum sequences in uranium-contaminated subsurface sediments greatly expand the known diversity within the phylum. Applied and Environmental Microbiology 2007, 73:3113-3116.
    • (2007) Applied and Environmental Microbiology , vol.73 , pp. 3113-3116
    • Barns, S.M.1    Cain, E.C.2    Sommerville, L.3    Kuske, C.R.4
  • 2
    • 0032963409 scopus 로고    scopus 로고
    • Wide distribution and diversity of members of the bacterial kingdom Acidobacterium in the environment
    • Barns S.M., Takala S.L., Kuske C.R. Wide distribution and diversity of members of the bacterial kingdom Acidobacterium in the environment. Applied and Environmental Microbiology 1999, 65:1731-1737.
    • (1999) Applied and Environmental Microbiology , vol.65 , pp. 1731-1737
    • Barns, S.M.1    Takala, S.L.2    Kuske, C.R.3
  • 3
    • 23744453920 scopus 로고    scopus 로고
    • Impact of chromium-contaminated wastewaters on the microbial community of a river
    • Branco R., Chung A.P., Verissimo A., Morais P.V. Impact of chromium-contaminated wastewaters on the microbial community of a river. FEMS Microbiology Ecology 2005, 54:35-46.
    • (2005) FEMS Microbiology Ecology , vol.54 , pp. 35-46
    • Branco, R.1    Chung, A.P.2    Verissimo, A.3    Morais, P.V.4
  • 6
    • 78349260124 scopus 로고    scopus 로고
    • Soil bacterial diversity in the Arctic is not fundamentally different from that found in other biomes
    • Chu H., Fierer N., Lauber C.L., Caporaso J.G., Knight R., Grogan P. Soil bacterial diversity in the Arctic is not fundamentally different from that found in other biomes. Environmental Microbiology 2010, 12:2998-3006.
    • (2010) Environmental Microbiology , vol.12 , pp. 2998-3006
    • Chu, H.1    Fierer, N.2    Lauber, C.L.3    Caporaso, J.G.4    Knight, R.5    Grogan, P.6
  • 9
    • 0032914126 scopus 로고    scopus 로고
    • Levels of bacterial community diversity in four arid soils compared by cultivation and 16S rRNA gene cloning
    • Dunbar J., Takala S., Barns S.M., Davis J.A., Kuske C.R. Levels of bacterial community diversity in four arid soils compared by cultivation and 16S rRNA gene cloning. Applied and Environmental Microbiology 1999, 65:1662-1669.
    • (1999) Applied and Environmental Microbiology , vol.65 , pp. 1662-1669
    • Dunbar, J.1    Takala, S.2    Barns, S.M.3    Davis, J.A.4    Kuske, C.R.5
  • 11
    • 34247606048 scopus 로고    scopus 로고
    • Isolation and characterization of soil bacteria that define Teniglobus gen. nov., in the phylum Acidobacteria
    • Eichorst S.A., Breznak J.A., Schmidt T.M. Isolation and characterization of soil bacteria that define Teniglobus gen. nov., in the phylum Acidobacteria. Applied and Environmental Microbiology 2007, 73:2708-2717.
    • (2007) Applied and Environmental Microbiology , vol.73 , pp. 2708-2717
    • Eichorst, S.A.1    Breznak, J.A.2    Schmidt, T.M.3
  • 12
    • 79551492681 scopus 로고    scopus 로고
    • Influence of plant polymers on the distribution and cultivation of bacteria in the phylum Acidobacteria
    • Eichorst S.A., Kuske C.R., Schmidt T.M. Influence of plant polymers on the distribution and cultivation of bacteria in the phylum Acidobacteria. Applied and Environmental Microbiology 2011, 77:586-596.
    • (2011) Applied and Environmental Microbiology , vol.77 , pp. 586-596
    • Eichorst, S.A.1    Kuske, C.R.2    Schmidt, T.M.3
  • 13
    • 0026499429 scopus 로고
    • Conservation evaluation and phylogenetic diversity
    • Faith D.P. Conservation evaluation and phylogenetic diversity. Biological Conservation 1992, 61:1-10.
    • (1992) Biological Conservation , vol.61 , pp. 1-10
    • Faith, D.P.1
  • 14
    • 33947236971 scopus 로고    scopus 로고
    • Toward an ecological classification of soil bacteria
    • Fierer N., Bradford M.A., Jackson R.B. Toward an ecological classification of soil bacteria. Ecology 2007, 88:1354-1364.
    • (2007) Ecology , vol.88 , pp. 1354-1364
    • Fierer, N.1    Bradford, M.A.2    Jackson, R.B.3
  • 16
    • 0037052531 scopus 로고    scopus 로고
    • Global dispersal of free-living microbial eukaryote species
    • Finlay B.J. Global dispersal of free-living microbial eukaryote species. Science 2002, 296:1061-1063.
    • (2002) Science , vol.296 , pp. 1061-1063
    • Finlay, B.J.1
  • 17
    • 33746662912 scopus 로고    scopus 로고
    • Bacterial diversity in a finished compost and vermicompost: differences revealed by cultivation-independent analyses of PCR-amplified 16S rRNA genes
    • Fracchia L., Dohrmann A.B., Martinotti M.G., Tebbe C.C. Bacterial diversity in a finished compost and vermicompost: differences revealed by cultivation-independent analyses of PCR-amplified 16S rRNA genes. Applied Microbiology and Biotechnology 2006, 71:942-952.
    • (2006) Applied Microbiology and Biotechnology , vol.71 , pp. 942-952
    • Fracchia, L.1    Dohrmann, A.B.2    Martinotti, M.G.3    Tebbe, C.C.4
  • 19
    • 40249113897 scopus 로고    scopus 로고
    • Differences in soil bacterial diversity: driven by contemporary disturbances or historical contingencies?
    • Ge Y., He J.Z., Zhu Y.G., Zhang J.B., Xu Z., Zhang L.M., Zheng Y.M. Differences in soil bacterial diversity: driven by contemporary disturbances or historical contingencies?. ISME Journal 2008, 2:254-264.
    • (2008) ISME Journal , vol.2 , pp. 254-264
    • Ge, Y.1    He, J.Z.2    Zhu, Y.G.3    Zhang, J.B.4    Xu, Z.5    Zhang, L.M.6    Zheng, Y.M.7
  • 22
    • 0031662188 scopus 로고    scopus 로고
    • Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity
    • Hugenholtz P., Goebel B.M., Pace N.R. Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. Journal of Bacteriology 1998, 180:6793.
    • (1998) Journal of Bacteriology , vol.180 , pp. 6793
    • Hugenholtz, P.1    Goebel, B.M.2    Pace, N.R.3
  • 23
    • 33644952722 scopus 로고    scopus 로고
    • Identifying the dominant soil bacterial taxa in libraries of 16S rRNA and 16S rRNA genes
    • Janssen P.H. Identifying the dominant soil bacterial taxa in libraries of 16S rRNA and 16S rRNA genes. Applied and Environmental Microbiology 2006, 72:1719-1728.
    • (2006) Applied and Environmental Microbiology , vol.72 , pp. 1719-1728
    • Janssen, P.H.1
  • 24
    • 63349105158 scopus 로고    scopus 로고
    • A comprehensive survey of soil acidobacterial diversity using pyrosequencing and clone library analyses
    • Jones R.T., Robeson M.S., Lauber C.L., Hamady M., Knight R., Fierer N. A comprehensive survey of soil acidobacterial diversity using pyrosequencing and clone library analyses. ISME Journal 2009, 3:442-453.
    • (2009) ISME Journal , vol.3 , pp. 442-453
    • Jones, R.T.1    Robeson, M.S.2    Lauber, C.L.3    Hamady, M.4    Knight, R.5    Fierer, N.6
  • 25
    • 60749121732 scopus 로고    scopus 로고
    • Phylogenetic diversity of Acidobacteria in a former agricultural soil
    • Kielak A., Pijl A.S., van Veen J.A., Kowalchuk G.A. Phylogenetic diversity of Acidobacteria in a former agricultural soil. ISME Journal 2009, 3:378-382.
    • (2009) ISME Journal , vol.3 , pp. 378-382
    • Kielak, A.1    Pijl, A.S.2    van Veen, J.A.3    Kowalchuk, G.A.4
  • 26
    • 67651247607 scopus 로고    scopus 로고
    • Pyrosequencing-based assessment of soil pH as a predictor of soil bacterial community structure at the continental scale
    • Lauber C.L., Hamady M., Knight R., Fierer N. Pyrosequencing-based assessment of soil pH as a predictor of soil bacterial community structure at the continental scale. Applied and Environmental Microbiology 2009, 75:5111-5120.
    • (2009) Applied and Environmental Microbiology , vol.75 , pp. 5111-5120
    • Lauber, C.L.1    Hamady, M.2    Knight, R.3    Fierer, N.4
  • 27
    • 79959771080 scopus 로고    scopus 로고
    • Group-specific PCR primers for the phylum Acidobacteria designed based on the comparative analysis of 16S rRNA gene sequences
    • Lee S.H., Cho J.C. Group-specific PCR primers for the phylum Acidobacteria designed based on the comparative analysis of 16S rRNA gene sequences. Journal of Microbiological Methods 2011, 86:195-203.
    • (2011) Journal of Microbiological Methods , vol.86 , pp. 195-203
    • Lee, S.H.1    Cho, J.C.2
  • 28
    • 47349088053 scopus 로고    scopus 로고
    • Members of the phylum Acidobacteria are dominant and metabolically active in rhizosphere soil
    • Lee S.H., Ka J.O., Cho J.C. Members of the phylum Acidobacteria are dominant and metabolically active in rhizosphere soil. FEMS Microbiology Letters 2008, 285:263-269.
    • (2008) FEMS Microbiology Letters , vol.285 , pp. 263-269
    • Lee, S.H.1    Ka, J.O.2    Cho, J.C.3
  • 29
    • 33745634395 scopus 로고    scopus 로고
    • Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences
    • Li W., Godzik A. Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics 2006, 22:1658-1659.
    • (2006) Bioinformatics , vol.22 , pp. 1658-1659
    • Li, W.1    Godzik, A.2
  • 30
    • 84891895219 scopus 로고    scopus 로고
    • High throughput sequencing analysis of biogeographical distribution of bacterial communities in the black soils of northeast China
    • Liu J., Sui Y., Yu Z., Shi Y., Chu H., Jin J., Liu X., Wang G. High throughput sequencing analysis of biogeographical distribution of bacterial communities in the black soils of northeast China. Soil Biology & Biochemistry 2014, 70:113-122.
    • (2014) Soil Biology & Biochemistry , vol.70 , pp. 113-122
    • Liu, J.1    Sui, Y.2    Yu, Z.3    Shi, Y.4    Chu, H.5    Jin, J.6    Liu, X.7    Wang, G.8
  • 31
    • 84921868827 scopus 로고    scopus 로고
    • Soil carbon content drives the biogeographical distribution of fungal communities in the black soil zone of northeast China
    • Liu J., Sui Y., Yu Z., Shi Y., Chu H., Jin J., Liu X., Wang G. Soil carbon content drives the biogeographical distribution of fungal communities in the black soil zone of northeast China. Soil Biology & Biochemistry 2015, 83:29-39.
    • (2015) Soil Biology & Biochemistry , vol.83 , pp. 29-39
    • Liu, J.1    Sui, Y.2    Yu, Z.3    Shi, Y.4    Chu, H.5    Jin, J.6    Liu, X.7    Wang, G.8
  • 35
    • 80054913451 scopus 로고    scopus 로고
    • FLASH: fast length adjustment of short reads to improve genome assemblies
    • Magoč T., Salzberg S.L. FLASH: fast length adjustment of short reads to improve genome assemblies. Bioinformatics 2011, 27:2957-2963.
    • (2011) Bioinformatics , vol.27 , pp. 2957-2963
    • Magoč, T.1    Salzberg, S.L.2
  • 36
    • 79951926011 scopus 로고    scopus 로고
    • Pyrosequencing-based assessment of bacterial community structure along different management types in German Forest and grassland soils
    • Nacke H., Thurmer A., Wollherr A., Will C., Hodac L., Herold N., Schoning I., Schrumpf M., Daniel R. Pyrosequencing-based assessment of bacterial community structure along different management types in German Forest and grassland soils. PLoS One 2011, 6:e17000.
    • (2011) PLoS One , vol.6 , pp. e17000
    • Nacke, H.1    Thurmer, A.2    Wollherr, A.3    Will, C.4    Hodac, L.5    Herold, N.6    Schoning, I.7    Schrumpf, M.8    Daniel, R.9
  • 39
    • 33144484401 scopus 로고    scopus 로고
    • Characterization of bacterial communities associated with deep-sea corals on Gulf of Alaska seamounts
    • Penn K., Wu D.Y., Eisen J.A., Ward N. Characterization of bacterial communities associated with deep-sea corals on Gulf of Alaska seamounts. Applied and Environmental Microbiology 2006, 72:1680-1683.
    • (2006) Applied and Environmental Microbiology , vol.72 , pp. 1680-1683
    • Penn, K.1    Wu, D.Y.2    Eisen, J.A.3    Ward, N.4
  • 41
    • 67649327176 scopus 로고    scopus 로고
    • FastTree: computing large minimum evolution trees with profiles instead of a distance matrix
    • Price M.N., Dehal P.S., Arkin A.P. FastTree: computing large minimum evolution trees with profiles instead of a distance matrix. Molecular Biology and Evolution 2009, 26:1641-1650.
    • (2009) Molecular Biology and Evolution , vol.26 , pp. 1641-1650
    • Price, M.N.1    Dehal, P.S.2    Arkin, A.P.3
  • 42
    • 84863304598 scopus 로고    scopus 로고
    • R 21, Foundation for Statistical Computing, Vienna, Austria
    • R Development Core Team R, a Language and Environment for Statistical Computing 2006, R 21, Foundation for Statistical Computing, Vienna, Austria.
    • (2006) R, a Language and Environment for Statistical Computing
  • 44
    • 33644962444 scopus 로고    scopus 로고
    • Effect of pH on isolation and distribution of members of subdivision 1 of the phylum Acidobacteria occurring in soil
    • Sait M., Davis K.E.R., Janssen P.H. Effect of pH on isolation and distribution of members of subdivision 1 of the phylum Acidobacteria occurring in soil. Applied and Environmental Microbiology 2006, 72:1852-1857.
    • (2006) Applied and Environmental Microbiology , vol.72 , pp. 1852-1857
    • Sait, M.1    Davis, K.E.R.2    Janssen, P.H.3
  • 45
    • 84891785745 scopus 로고    scopus 로고
    • Do bacterial and fungal communities assemble differently during primary succession?
    • Schmidt S.K., Nemergut D.R., Darcy J.L., Lynch R. Do bacterial and fungal communities assemble differently during primary succession?. Molecular Ecology 2014, 23:254-258.
    • (2014) Molecular Ecology , vol.23 , pp. 254-258
    • Schmidt, S.K.1    Nemergut, D.R.2    Darcy, J.L.3    Lynch, R.4
  • 47
    • 40549089938 scopus 로고    scopus 로고
    • Microbial community succession and bacterial diversity in soils during 77,000 years of ecosystem development
    • Tarlera S., Jangid K., Ivester A.H., Whitman W.B., Williams M.A. Microbial community succession and bacterial diversity in soils during 77,000 years of ecosystem development. FEMS Microbiology Ecology 2008, 64:129-140.
    • (2008) FEMS Microbiology Ecology , vol.64 , pp. 129-140
    • Tarlera, S.1    Jangid, K.2    Ivester, A.H.3    Whitman, W.B.4    Williams, M.A.5
  • 49
    • 84976220479 scopus 로고    scopus 로고
    • Distribution and diversity of Acidobacteria in tropical rain forest soil of Xishuangbanna
    • Wang C., Tian B., Lv R., Lin W., Xu Y., Huang Q., Huang J. Distribution and diversity of Acidobacteria in tropical rain forest soil of Xishuangbanna. Microbiology 2010, 37:24-29.
    • (2010) Microbiology , vol.37 , pp. 24-29
    • Wang, C.1    Tian, B.2    Lv, R.3    Lin, W.4    Xu, Y.5    Huang, Q.6    Huang, J.7
  • 50
    • 34548293679 scopus 로고    scopus 로고
    • Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy
    • Wang Q., Garrity G.M., Tiedje J.M., Cole J.R. Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Applied and Environmental Microbiology 2007, 73:5261-5267.
    • (2007) Applied and Environmental Microbiology , vol.73 , pp. 5261-5267
    • Wang, Q.1    Garrity, G.M.2    Tiedje, J.M.3    Cole, J.R.4
  • 52
    • 84880924556 scopus 로고    scopus 로고
    • The biogeography of fungal communities in wetland sediments along the Changjiang River and other sites in China
    • Wu B., Tian J.Q., Bai C.M., Xiang M.C., Sun J.Z., Liu X.Z. The biogeography of fungal communities in wetland sediments along the Changjiang River and other sites in China. ISME Journal 2013, 7:1299-1309.
    • (2013) ISME Journal , vol.7 , pp. 1299-1309
    • Wu, B.1    Tian, J.Q.2    Bai, C.M.3    Xiang, M.C.4    Sun, J.Z.5    Liu, X.Z.6
  • 55
    • 27144525864 scopus 로고    scopus 로고
    • Detection and phylogenetic relationships of highly diverse uncultured acidobacterial communities in Altamira Cave using 23S rRNA sequence analysis
    • Zimmermann J., Gonzalez J.M., Saiz-Jimenez C., Ludwig W. Detection and phylogenetic relationships of highly diverse uncultured acidobacterial communities in Altamira Cave using 23S rRNA sequence analysis. Geomicrobiology Journal 2005, 22:379-388.
    • (2005) Geomicrobiology Journal , vol.22 , pp. 379-388
    • Zimmermann, J.1    Gonzalez, J.M.2    Saiz-Jimenez, C.3    Ludwig, W.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.