Phylogenetic and Functional Analysis of Metagenome Sequence from High-Temperature Archaeal Habitats Demonstrate Linkages between Metabolic Potential and Geochemistry.
Phylogenetic and Functional Analysis of Metagenome Sequence from High-Temperature Archaeal Habitats Demonstrate Linkages between Metabolic Potential and Geochemistry.
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DOI：
10.3389/fmicb.2013.00095
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发表时间：
2013
影响因子：
5.2
通讯作者：
Roberto FF
中科院分区：
文献类型：
--
作者：
Inskeep WP;Jay ZJ;Herrgard MJ;Kozubal MA;Rusch DB;Tringe SG;Macur RE;Jennings Rd;Boyd ES;Spear JR;Roberto FF
黄石国家公园（YNP）的古生菌栖息地提供了一个无与伦比的机会来了解控制古生菌在热栖息地分布的环境因素。在这里，我们描述，分析和合成宏基因组和地球化学数据收集从七个高温站点，包含微生物群落占主导地位的古细菌相对于细菌。该研究的具体目标是使用宏基因组测序来确定pH值范围为2.5至6.4的嗜热古菌为主的微生物群落的结构和功能能力，并讨论代谢潜力与测量的环境参数相关的具体例子和地球化学过程发生在原地。从高温沉积物和/或微生物垫提取的环境DNA中获得随机鸟枪法宏基因组序列（每个位点约40-45 Mb桑格测序），并进行了许多系统发育和功能分析。单个序列的分析（例如，MEGAN和G + C含量）和组件从每个栖息地类型揭示了在所有环境中的优势古菌种群的存在，其中10个基因组在很大程度上是从序列数据重建。对蛋白质家族发生的分析，特别是那些参与能量守恒、电子传递和自养代谢的蛋白质家族的分析，揭示了不同地点的代谢策略的显著差异，这与主要地球化学属性的差异一致（例如，硫化物、氧、pH）。这些观测结果为了解YNP高温系统中土著古菌谱系的分布提供了生态学基础。
Geothermal habitats in Yellowstone National Park (YNP) provide an unparalleled opportunity to understand the environmental factors that control the distribution of archaea in thermal habitats. Here we describe, analyze, and synthesize metagenomic and geochemical data collected from seven high-temperature sites that contain microbial communities dominated by archaea relative to bacteria. The specific objectives of the study were to use metagenome sequencing to determine the structure and functional capacity of thermophilic archaeal-dominated microbial communities across a pH range from 2.5 to 6.4 and to discuss specific examples where the metabolic potential correlated with measured environmental parameters and geochemical processes occurring in situ. Random shotgun metagenome sequence (∼40–45 Mb Sanger sequencing per site) was obtained from environmental DNA extracted from high-temperature sediments and/or microbial mats and subjected to numerous phylogenetic and functional analyses. Analysis of individual sequences (e.g., MEGAN and G + C content) and assemblies from each habitat type revealed the presence of dominant archaeal populations in all environments, 10 of whose genomes were largely reconstructed from the sequence data. Analysis of protein family occurrence, particularly of those involved in energy conservation, electron transport, and autotrophic metabolism, revealed significant differences in metabolic strategies across sites consistent with differences in major geochemical attributes (e.g., sulfide, oxygen, pH). These observations provide an ecological basis for understanding the distribution of indigenous archaeal lineages across high-temperature systems of YNP.
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影响因子：
4.4
作者：
Bathe, Stephan;Norris, Paul R.
通讯作者：
Norris, Paul R.
影响因子：
2.9
作者：
Casanueva, Ana;Galada, Ncebakazi;Cowan, Don A.
通讯作者：
Cowan, Don A.
影响因子：
5.6
作者：
Cherney, Maia M.;Zhang, Yanfei;James, Michael N. G.
通讯作者：
James, Michael N. G.
DOI：
10.1073/pnas.0801980105
发表时间：
2008-06-10
影响因子：
11.1
作者：
Elkins, James G.;Podar, Mircea;Stetter, Karl O.
通讯作者：
Stetter, Karl O.
影响因子：
11
作者：
Auguet, Jean-Christophe;Barberan, Albert;Casamayor, Emilio O.
通讯作者：
Casamayor, Emilio O.