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Molecular analyses of microbial diversity associated with the Lonar soda lake in India: an impact crater in a basalt area.
Res Microbiol. 2006 Dec; 157(10):928-37.RM

Abstract

The prokaryotic diversity associated with an Indian soda lake (Lonar Crater Lake) located in a basaltic soil area was investigated using a culture-independent approach. Community DNA was extracted directly from four sediment samples obtained by coring to depths of 10-20 cm. Small subunit rRNA genes (16S rDNA) were amplified by PCR using primers specific to the domains Bacteria and Archaea. The PCR products were cloned and sequenced. For the bacterial rDNA clone library, 500 clones were randomly selected for further analysis. After restriction fragment length polymorphism (RFLP) analysis and subsequent sequencing, a total of 44 unique phylotypes were obtained. These phylotypes spanned a wide range within the domain Bacteria, occupying eight major lineages/phyla. 34% of the clones were classified as firmicutes. The other clones were grouped into proteobacteria (29.5%), actinobacteria (6.8%), deinococcus-thermus (4.5%), cytophages-flavobacterium-bacteroidetes (13.3%), planctomycetes (6.8%), cyanobacteria (4.5%) and spirochetes (2.27%). In the case of the archaeal 16S rDNA library, analysis of 250 randomly selected clones revealed the presence of 13 distinct phylotypes; 5 phylotypes were associated with Crenarchaeota and 8 with Euryarchaeota. Most of the euryarchaeota sequences were related to methanogens. Findings from this molecular study of a site investigated for the first time have revealed the presence of a highly diverse bacterial population and a comparatively less diverse archaeal population. The majority (approximately 80%) of the cloned sequences show little affiliation with known taxa (<97% sequence similarity) and may represent novel taxa/sequences and organisms specifically adapted to this basaltic soda lake environment. Diversity analyses demonstrate greater diversity and evenness of bacterial species compared to a skewed representation of species for Archaea.

Authors+Show Affiliations

Molecular Biology Unit, National Centre for Cell Science, Pune 411007, Maharashtra, India.No affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info available

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

17070674

Citation

Wani, Aijaz Ahmad, et al. "Molecular Analyses of Microbial Diversity Associated With the Lonar Soda Lake in India: an Impact Crater in a Basalt Area." Research in Microbiology, vol. 157, no. 10, 2006, pp. 928-37.
Wani AA, Surakasi VP, Siddharth J, et al. Molecular analyses of microbial diversity associated with the Lonar soda lake in India: an impact crater in a basalt area. Res Microbiol. 2006;157(10):928-37.
Wani, A. A., Surakasi, V. P., Siddharth, J., Raghavan, R. G., Patole, M. S., Ranade, D., & Shouche, Y. S. (2006). Molecular analyses of microbial diversity associated with the Lonar soda lake in India: an impact crater in a basalt area. Research in Microbiology, 157(10), 928-37.
Wani AA, et al. Molecular Analyses of Microbial Diversity Associated With the Lonar Soda Lake in India: an Impact Crater in a Basalt Area. Res Microbiol. 2006;157(10):928-37. PubMed PMID: 17070674.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Molecular analyses of microbial diversity associated with the Lonar soda lake in India: an impact crater in a basalt area. AU - Wani,Aijaz Ahmad, AU - Surakasi,Venkata Prasad, AU - Siddharth,Jay, AU - Raghavan,Raamesh Gowri, AU - Patole,Milind S, AU - Ranade,Dilip, AU - Shouche,Yogesh S, Y1 - 2006/10/09/ PY - 2006/06/09/received PY - 2006/07/25/revised PY - 2006/08/29/accepted PY - 2006/10/31/pubmed PY - 2007/2/9/medline PY - 2006/10/31/entrez SP - 928 EP - 37 JF - Research in microbiology JO - Res Microbiol VL - 157 IS - 10 N2 - The prokaryotic diversity associated with an Indian soda lake (Lonar Crater Lake) located in a basaltic soil area was investigated using a culture-independent approach. Community DNA was extracted directly from four sediment samples obtained by coring to depths of 10-20 cm. Small subunit rRNA genes (16S rDNA) were amplified by PCR using primers specific to the domains Bacteria and Archaea. The PCR products were cloned and sequenced. For the bacterial rDNA clone library, 500 clones were randomly selected for further analysis. After restriction fragment length polymorphism (RFLP) analysis and subsequent sequencing, a total of 44 unique phylotypes were obtained. These phylotypes spanned a wide range within the domain Bacteria, occupying eight major lineages/phyla. 34% of the clones were classified as firmicutes. The other clones were grouped into proteobacteria (29.5%), actinobacteria (6.8%), deinococcus-thermus (4.5%), cytophages-flavobacterium-bacteroidetes (13.3%), planctomycetes (6.8%), cyanobacteria (4.5%) and spirochetes (2.27%). In the case of the archaeal 16S rDNA library, analysis of 250 randomly selected clones revealed the presence of 13 distinct phylotypes; 5 phylotypes were associated with Crenarchaeota and 8 with Euryarchaeota. Most of the euryarchaeota sequences were related to methanogens. Findings from this molecular study of a site investigated for the first time have revealed the presence of a highly diverse bacterial population and a comparatively less diverse archaeal population. The majority (approximately 80%) of the cloned sequences show little affiliation with known taxa (<97% sequence similarity) and may represent novel taxa/sequences and organisms specifically adapted to this basaltic soda lake environment. Diversity analyses demonstrate greater diversity and evenness of bacterial species compared to a skewed representation of species for Archaea. SN - 0923-2508 UR - https://www.unboundmedicine.com/medline/citation/17070674/Molecular_analyses_of_microbial_diversity_associated_with_the_Lonar_soda_lake_in_India:_an_impact_crater_in_a_basalt_area_ L2 - https://linkinghub.elsevier.com/retrieve/pii/S0923-2508(06)00192-6 DB - PRIME DP - Unbound Medicine ER -