The ecological coherence of high bacterial taxonomic ranks - PubMed (original) (raw)
Review
The ecological coherence of high bacterial taxonomic ranks
Laurent Philippot et al. Nat Rev Microbiol. 2010 Jul.
Abstract
The species is a fundamental unit of biological organization, but its relevance for Bacteria and Archaea is still hotly debated. Even more controversial is whether the deeper branches of the ribosomal RNA-derived phylogenetic tree, such as the phyla, have ecological importance. Here, we discuss the ecological coherence of high bacterial taxa in the light of genome analyses and present examples of niche differentiation between deeply diverging groups in terrestrial and aquatic systems. The ecological relevance of high bacterial taxa has implications for bacterial taxonomy, evolution and ecology.
Similar articles
- A Genus Definition for Bacteria and Archaea Based on a Standard Genome Relatedness Index.
Barco RA, Garrity GM, Scott JJ, Amend JP, Nealson KH, Emerson D. Barco RA, et al. mBio. 2020 Jan 14;11(1):e02475-19. doi: 10.1128/mBio.02475-19. mBio. 2020. PMID: 31937639 Free PMC article. - Metagenomics uncovers gaps in amplicon-based detection of microbial diversity.
Eloe-Fadrosh EA, Ivanova NN, Woyke T, Kyrpides NC. Eloe-Fadrosh EA, et al. Nat Microbiol. 2016 Feb 1;1:15032. doi: 10.1038/nmicrobiol.2015.32. Nat Microbiol. 2016. PMID: 27572438 - Major New Microbial Groups Expand Diversity and Alter our Understanding of the Tree of Life.
Castelle CJ, Banfield JF. Castelle CJ, et al. Cell. 2018 Mar 8;172(6):1181-1197. doi: 10.1016/j.cell.2018.02.016. Cell. 2018. PMID: 29522741 Review. - Towards a balanced view of the bacterial tree of life.
Schulz F, Eloe-Fadrosh EA, Bowers RM, Jarett J, Nielsen T, Ivanova NN, Kyrpides NC, Woyke T. Schulz F, et al. Microbiome. 2017 Oct 17;5(1):140. doi: 10.1186/s40168-017-0360-9. Microbiome. 2017. PMID: 29041958 Free PMC article. - Who is out there? Microbial aspects of biodiversity.
Amann R. Amann R. Syst Appl Microbiol. 2000 Apr;23(1):1-8. doi: 10.1016/S0723-2020(00)80039-9. Syst Appl Microbiol. 2000. PMID: 10879972 Review. No abstract available.
Cited by
- A pilot study examining periodontally healthy middle-aged humans and monkeys display different levels of alveolar bone resorption, gingival inflammatory infiltrate, and salivary microbiota profile.
Lin B, Pathak JL, Gao H, Zhou Z, Ser HL, Wu L, Lee LH, Wang L, Chen J, Zhong M. Lin B, et al. PLoS One. 2024 Oct 16;19(10):e0311282. doi: 10.1371/journal.pone.0311282. eCollection 2024. PLoS One. 2024. PMID: 39413077 Free PMC article. - Asymmetric winter warming reduces microbial carbon use efficiency and growth more than symmetric year-round warming in alpine soils.
Li L, Xu Q, Jiang S, Jing X, Shen Q, He JS, Yang Y, Ling N. Li L, et al. Proc Natl Acad Sci U S A. 2024 Oct 22;121(43):e2401523121. doi: 10.1073/pnas.2401523121. Epub 2024 Oct 14. Proc Natl Acad Sci U S A. 2024. PMID: 39401358 - Core Bacterial Taxa Determine Formation of Forage Yield in Fertilized Soil.
Wang X, Zhao N, Li W, Pu X, Xu P, Wang P. Wang X, et al. Microorganisms. 2024 Aug 15;12(8):1679. doi: 10.3390/microorganisms12081679. Microorganisms. 2024. PMID: 39203522 Free PMC article. - Seasonal and interannual variability of the free-living and particle-associated bacteria of a coastal microbiome.
Ferrera I, Auladell A, Balagué V, Reñé A, Garcés E, Massana R, Gasol JM. Ferrera I, et al. Environ Microbiol Rep. 2024 Aug;16(4):e13299. doi: 10.1111/1758-2229.13299. Environ Microbiol Rep. 2024. PMID: 39081120 Free PMC article. - Deciphering Microbial Adaptation in the Rhizosphere: Insights into Niche Preference, Functional Profiles, and Cross-Kingdom Co-occurrences.
Wang Y, Zou Q. Wang Y, et al. Microb Ecol. 2024 May 21;87(1):74. doi: 10.1007/s00248-024-02390-3. Microb Ecol. 2024. PMID: 38771320 Free PMC article.
References
- Ecology. 2007 Jun;88(6):1354-64 - PubMed
- Appl Environ Microbiol. 2004 Sep;70(9):5057-65 - PubMed
- Mol Biol Evol. 2008 Aug;25(8):1659-67 - PubMed
- Environ Microbiol. 2006 Mar;8(3):504-13 - PubMed
- Biol Lett. 2009 Jun 23;5(3):429-32 - PubMed
Publication types
MeSH terms
Substances
LinkOut - more resources
Full Text Sources