Identification of actinomycete communities in Antarctic soil from Barrientos Island using PCR-denaturing gradient gel electrophoresis
| Autor: | M S Shiran, Lee Learn-Han, R Son, C M W Vui-Ling, H M Andrade, A M Nurul-Syakima, Cheah Yoke-Kqueen |
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| Rok vydání: | 2012 |
| Předmět: |
DNA
Bacterial Molecular Sequence Data Antarctic Regions DNA Ribosomal Polymerase Chain Reaction Soil Abundance (ecology) Frankineae RNA Ribosomal 16S Botany Genetics Animals Molecular Biology Relative species abundance Phylogeny Soil Microbiology biology Denaturing Gradient Gel Electrophoresis General Medicine Biodiversity biology.organism_classification 16S ribosomal RNA Spheniscidae Actinobacteria Rhodococcus Soil microbiology Temperature gradient gel electrophoresis Actinomyces |
| Zdroj: | Genetics and molecular research : GMR. 11(1) |
| ISSN: | 1676-5680 |
| Popis: | The diversity of specific bacteria taxa, such as the actinomycetes, has not been reported from the Antarctic island of Barrientos. The diversity of actinomycetes was estimated with two different strategies that use PCR-denaturing gradient gel electrophoresis. First, a PCR was applied, using a group-specific primer that allows selective amplification of actinomycete sequences. Second, a nested-PCR approach was used that allows the estimation of the relative abundance of actinomycetes within the bacterial community. Molecular identification, which was based on 16S rDNA sequence analysis, revealed eight genera of actinomycetes, Actinobacterium, Actinomyces, an uncultured Actinomycete, Streptomyces, Leifsonia, Frankineae, Rhodococcus, and Mycobacterium. The uncultured Actinomyces sp and Rhodococcus sp appear to be the prominent genera of actinomycetes in Barrientos Island soil. PCR-denaturing gradient gel electrophoresis patterns were used to look for correlations between actinomycete abundance and environmental characteristics, such as type of rookery and vegetation. There was a significant positive correlation between type of rookery and abundance of actinomycetes; soil samples collected from active chinstrap penguin rookeries had the highest actinomycete abundance. Vegetation type, such as moss, which could provide a microhabitat for bacteria, did not correlate significantly with actinomycete abundance. |
| Databáze: | OpenAIRE |
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