Notre Dame Environmental Change Initiative, University of Notre Dame, 100 Galvin Life Sciences, Notre Dame, IN, 46556, USA.
Environ Microbiol. 2014 Mar;16(3):746-58. doi: 10.1111/1462-2920.12199. Epub 2013 Jul 26.
While micro-organisms actively mediate and participate in freshwater ecosystem services, we know little about freshwater microbial genetic diversity. Genome sequences are available for many bacteria from the human microbiome and the ocean (over 800 and 200, respectively), but only two freshwater genomes are currently available: the streamlined genomes of Polynucleobacter necessarius ssp. asymbioticus and the Actinobacterium AcI-B1. Here, we sequenced and analysed draft genomes of eight phylogentically diverse freshwater bacteria exhibiting a range of lifestyle characteristics. Comparative genomics of these bacteria reveals putative freshwater bacterial lifestyles based on differences in predicted growth rate, capability to respond to environmental stimuli and diversity of useable carbon substrates. Our conceptual model based on these genomic characteristics provides a foundation on which further ecophysiological and genomic studies can be built. In addition, these genomes greatly expand the diversity of existing genomic context for future studies on the ecology and genetics of freshwater bacteria.
虽然微生物积极地调节和参与淡水生态系统服务，但我们对淡水微生物遗传多样性知之甚少。人类微生物组和海洋中有许多细菌的基因组序列可供使用（分别超过 800 和 200 个），但目前只有两个淡水基因组可用：非共生 Polynucleobacter necessarius ssp. asymbioticus 的精简基因组和放线菌 AcI-B1。在这里，我们对 8 个表现出多种生活方式特征的系统发育多样的淡水细菌进行了测序和分析。对这些细菌进行比较基因组学分析，可以根据预测的生长速度、对环境刺激的反应能力和可用碳底物的多样性，推断出可能的淡水细菌生活方式。我们基于这些基因组特征的概念模型为进一步开展有关淡水细菌生态学和遗传学的生态生理和基因组研究提供了基础。此外，这些基因组大大扩展了现有基因组背景的多样性，为未来研究淡水细菌的生态学和遗传学提供了更多的可能性。
