期刊
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
卷 77, 期 4, 页码 1359-1367出版社
AMER SOC MICROBIOLOGY
DOI: 10.1128/AEM.02032-10
关键词
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资金
- National Science Foundation [EF-0328698]
- National Aeronautics and Space Administration Exobiology Program [NAG5-8807]
- U.S. Department of Energy (DOE), Office of Biological and Environmental Research (BER)
- GSP Foundational Scientific Focus Area (FSFA) at the Pacific Northwest National Laboratory (PNNL) [112443]
Previous research has shown that sequences of 16S rRNA genes and 16S-23S rRNA internal transcribed spacer regions may not have enough genetic resolution to define all ecologically distinct Synechococcus populations (ecotypes) inhabiting alkaline, siliceous hot spring microbial mats. To achieve higher molecular resolution, we studied sequence variation in three protein-encoding loci sampled by PCR from 60 degrees C and 65 degrees C sites in the Mushroom Spring mat (Yellowstone National Park, WY). Sequences were analyzed using the ecotype simulation (ES) and AdaptML algorithms to identify putative ecotypes. Between 4 and 14 times more putative ecotypes were predicted from variation in protein-encoding locus sequences than from variation in 16S rRNA and 16S-23S rRNA internal transcribed spacer sequences. The number of putative ecotypes predicted depended on the number of sequences sampled and the molecular resolution of the locus. Chao estimates of diversity indicated that few rare ecotypes were missed. Many ecotypes hypothesized by sequence analyses were different in their habitat specificities, suggesting different adaptations to temperature or other parameters that vary along the flow channel.
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