Ecology and exploration of the rare biosphere

被引：908

作者：

Lynch, Michael D. J. ^{[1
]}

Neufeld, Josh D. ^{[1
]}

机构：

[1] Univ Waterloo, Dept Biol, Waterloo, ON N2L 3G1, Canada

来源：

NATURE REVIEWS MICROBIOLOGY | 2015年 / 13卷 / 04期

基金：

加拿大自然科学与工程研究理事会; 加拿大健康研究院;

关键词：

RIBOSOMAL-RNA GENES; COMPLEX MICROBIAL COMMUNITIES; LISTERIA-MONOCYTOGENES CELLS; FILAMENTOUS SULFUR BACTERIA; GENERATION SEQUENCE DATA; WESTERN ENGLISH-CHANNEL; ETHIDIUM MONOAZIDE; PROKARYOTIC DIVERSITY; SPECIES RICHNESS; SERIAL ANALYSIS;

D O I：

10.1038/nrmicro3400

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

The profound influence of microorganisms on human life and global biogeochemical cycles underlines the value of studying the biogeography of microorganisms, exploring microbial genomes and expanding our understanding of most microbial species on Earth: that is, those present at low relative abundance. The detection and subsequent analysis of low-abundance microbial populations-the 'rare biosphere' - have demonstrated the persistence, population dynamics, dispersion and predation of these microbial species. We discuss the ecology of rare microbial populations, and highlight molecular and computational methods for targeting taxonomic 'blind spots' within the rare biosphere of complex microbial communities.

引用

页码：217 / 229

页数：13

共 182 条

[1] Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes [J].

Albertsen, Mads ;

Hugenholtz, Philip ;

Skarshewski, Adam ;

Nielsen, Kare L. ;

Tyson, Gene W. ;

Nielsen, Per H. .

NATURE BIOTECHNOLOGY, 2013, 31 (06) :533-+

[2] Progress in Understanding Harmful Algal Blooms: Paradigm Shifts and New Technologies for Research, Monitoring, and Management [J].

Anderson, Donald M. ;

Cembella, Allan D. ;

Hallegraeff, Gustaaf M. .

ANNUAL REVIEW OF MARINE SCIENCE, VOL 4, 2012, 4 :143-176

[3] Serial analysis of rRNA genes and the unexpected dominance of rare members of microbial communities [J].

Ashby, Matthew N. ;

Rine, Jasper ;

Mongodin, Emmanuel F. ;

Nelson, Karen E. ;

Dimster-Denk, Dago .

APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 2007, 73 (14) :4532-4542

[4] Soil Microbial Abundance and Diversity Along a Low Precipitation Gradient [J].

Bachar, Ami ;

Al-Ashhab, Ashraf ;

Soares, M. Ines M. ;

Sklarz, Menachem Y. ;

Angel, Roey ;

Ungar, Eugene D. ;

Gillor, Osnat .

MICROBIAL ECOLOGY, 2010, 60 (02) :453-461

[5] The microbial contribution to macroecology [J].

Barberan, Albert ;

Casamayor, Emilio O. ;

Fierer, Noah .

FRONTIERS IN MICROBIOLOGY, 2014, 5

[6] Using network analysis to explore co-occurrence patterns in soil microbial communities [J].

Barberan, Albert ;

Bates, Scott T. ;

Casamayor, Emilio O. ;

Fierer, Noah .

ISME JOURNAL, 2012, 6 (02) :343-351

[7] Exploring links between pH and bacterial community composition in soils from the Craibstone Experimental Farm [J].

Bartram, Andrea K. ;

Jiang, Xingpeng ;

Lynch, Michael D. J. ;

Masella, Andre P. ;

Nicol, Graeme W. ;

Dushoff, Jonathan ;

Neufeld, Josh D. .

FEMS MICROBIOLOGY ECOLOGY, 2014, 87 (02) :403-415

[8] Generation of Multimillion-Sequence 16S rRNA Gene Libraries from Complex Microbial Communities by Assembling Paired-End Illumina Reads [J].

Bartram, Andrea K. ;

Lynch, Michael D. J. ;

Stearns, Jennifer C. ;

Moreno-Hagelsieb, Gabriel ;

Neufeld, Josh D. .

APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 2011, 77 (11) :3846-3852

[9]

Bass-Becking L.G. M., 1934, Geobiologie of inleiding tot de milieu- kunde

[10] The co-distribution of species in relation to the neutral theory of community ecology [J].

Bell, G .

ECOLOGY, 2005, 86 (07) :1757-1770

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