Diversity and abundance of Crenarchaeota in terrestrial habitats studied by 16S RNA surveys and real time PCR - PubMed (original) (raw)
Diversity and abundance of Crenarchaeota in terrestrial habitats studied by 16S RNA surveys and real time PCR
Torsten Ochsenreiter et al. Environ Microbiol. 2003 Sep.
Abstract
Novel phylogenetic lineages of as yet uncultivated crenarchaeota have been frequently detected in low to moderate-temperature, marine and terrestrial environments. In order to gain a more comprehensive view on the distribution and diversity of Crenarchaeota in moderate habitats, we have studied 18 different terrestrial and freshwater samples by 16S rDNA-based phylogenetic surveys. In seven different soil samples of diverse geographic areas in Europe (forest, grassland, ruderal) and Asia (permafrost, ruderal) as well as in two microbial mats, we have consistently found one particular lineage of crenarchaeota. The diversity of Crenarchaeota in freshwater sediments was considerably higher with respresentative 16S rDNA sequences distributed over four different groups within the moderate crenarchaeota. Systematic analysis of a 16S rDNA universal library from a sandy ecosystem containing 800 clones exclusively revealed the presence of the soil-specific crenarchaeotal cluster. With primers specific for non-thermophilic crenarchaeota we established a rapid method to quantify archaeal 16S rDNA in real time PCR. The relative abundance of crenarchaeotal rDNA was 0.5-3% in the bulk soil sample and only 0.16% in the rhizosphere of the sandy ecosystem. A nearby agricultural setting yielded a relative abundance of 0.17% crenarchaeotal rDNA. In total our data suggest that soil crenarchaeota represent a stable and specific component of the microbiota in terrestrial habitats.
Similar articles
- Recovery of partial 16S rDNA sequences suggests the presence of Crenarchaeota in the human digestive ecosystem.
Rieu-Lesme F, Delbès C, Sollelis L. Rieu-Lesme F, et al. Curr Microbiol. 2005 Nov;51(5):317-21. doi: 10.1007/s00284-005-0036-8. Epub 2005 Sep 20. Curr Microbiol. 2005. PMID: 16187155 - Biogeography and landscape-scale diversity of the dominant Crenarchaeota of soil.
Oline DK, Schmidt SK, Grant MC. Oline DK, et al. Microb Ecol. 2006 Oct;52(3):480-90. doi: 10.1007/s00248-006-9101-5. Epub 2006 Aug 15. Microb Ecol. 2006. PMID: 16909343 - Soil pH regulates the abundance and diversity of Group 1.1c Crenarchaeota.
Lehtovirta LE, Prosser JI, Nicol GW. Lehtovirta LE, et al. FEMS Microbiol Ecol. 2009 Dec;70(3):367-76. doi: 10.1111/j.1574-6941.2009.00748.x. Epub 2009 Jul 24. FEMS Microbiol Ecol. 2009. PMID: 19732147 - Vertical distribution of ammonia-oxidizing crenarchaeota and methanogens in the epipelagic waters of Lake Kivu (Rwanda-Democratic Republic of the Congo).
Llirós M, Gich F, Plasencia A, Auguet JC, Darchambeau F, Casamayor EO, Descy JP, Borrego C. Llirós M, et al. Appl Environ Microbiol. 2010 Oct;76(20):6853-63. doi: 10.1128/AEM.02864-09. Epub 2010 Aug 27. Appl Environ Microbiol. 2010. PMID: 20802065 Free PMC article. - Spatial heterogeneity of crenarchaeal assemblages within mesophilic soil ecosystems as revealed by PCR-single-stranded conformation polymorphism profiling.
Sliwinski MK, Goodman RM. Sliwinski MK, et al. Appl Environ Microbiol. 2004 Mar;70(3):1811-20. doi: 10.1128/AEM.70.3.1811-1820.2004. Appl Environ Microbiol. 2004. PMID: 15006808 Free PMC article.
Cited by
- The Saint-Leonard Urban Glaciotectonic Cave Harbors Rich and Diverse Planktonic and Sedimentary Microbial Communities.
Lauzon J, Caron D, Lazar CS. Lauzon J, et al. Microorganisms. 2024 Aug 29;12(9):1791. doi: 10.3390/microorganisms12091791. Microorganisms. 2024. PMID: 39338466 Free PMC article. - An animal charcoal contaminated cottage industry soil highlighted by halophilic archaea dominance and decimation of bacteria.
Obayori OS, Salam LB, Ashade AO, Oseni TD, Kalu MD, Mustapha FM. Obayori OS, et al. World J Microbiol Biotechnol. 2024 Sep 20;40(10):327. doi: 10.1007/s11274-024-04136-2. World J Microbiol Biotechnol. 2024. PMID: 39299940 - Comammox Nitrospira among dominant ammonia oxidizers within aquarium biofilter microbial communities.
McKnight MM, Neufeld JD. McKnight MM, et al. Appl Environ Microbiol. 2024 Jul 24;90(7):e0010424. doi: 10.1128/aem.00104-24. Epub 2024 Jun 20. Appl Environ Microbiol. 2024. PMID: 38899882 Free PMC article. - Temperature, pH, and oxygen availability contributed to the functional differentiation of ancient Nitrososphaeria.
Luo ZH, Li Q, Xie YG, Lv AP, Qi YL, Li MM, Qu YN, Liu ZT, Li YX, Rao YZ, Jiao JY, Liu L, Narsing Rao MP, Hedlund BP, Evans PN, Fang Y, Shu WS, Huang LN, Li WJ, Hua ZS. Luo ZH, et al. ISME J. 2024 Jan 8;18(1):wrad031. doi: 10.1093/ismejo/wrad031. ISME J. 2024. PMID: 38365241 Free PMC article. - Unveiling novel insights into haloarchaea (Halolamina pelagica CDK2) for alleviation of drought stress in wheat.
Singh D, Kaushik R, Chakdar H, Saxena AK. Singh D, et al. World J Microbiol Biotechnol. 2023 Oct 4;39(12):328. doi: 10.1007/s11274-023-03781-3. World J Microbiol Biotechnol. 2023. PMID: 37792124
Publication types
MeSH terms
Substances
LinkOut - more resources
Full Text Sources
Other Literature Sources