Proteogenomic analysis of a thermophilic bacterial consortium adapted to deconstruct switchgrass.
Proteogenomic analysis of a thermophilic bacterial consortium adapted to deconstruct switchgrass.
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DOI：
10.1371/journal.pone.0068465
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发表时间：
2013
期刊：
影响因子：
3.7
通讯作者：
Singer SW
中科院分区：
文献类型：
--
作者：
D'haeseleer P;Gladden JM;Allgaier M;Chain PS;Tringe SG;Malfatti SA;Aldrich JT;Nicora CD;Robinson EW;Paša-Tolić L;Hugenholtz P;Simmons BA;Singer SW
嗜热菌是分解木质纤维生物质的潜在酶来源。然而，用于解构生物量的蛋白质的补充性以及不同微生物群在高温生物量解构中的具体作用还没有得到很好的探索。在这里，我们报告了一种堆肥来源的细菌联合体的后基因组和蛋白质组分析，该细菌群适应于高温下具有高水平糖苷水解酶活性的柳枝条。对最丰富的种群进行了近完整的基因组重建，其中包括与测序菌株Thermus thermophilus和Rhodothermus marinus密切相关的种群的复合基因组，以及与嗜热的Paenibacilli有关的新种群的复合基因组，以及很少被研究的Gemmatmonadetes门的一个未培养的亚群。还重建了一些低丰度嗜热嗜热绿僵菌种群的部分基因组。对木质纤维素加工和代谢重建基因的鉴定表明，红酵母、拟青霉和双生单胞菌是分解生物量的关键类群，Thermus是主要代谢低分子量化合物的类群。用基于质谱学的蛋白质组学分析从培养物分离的样品中鉴定了>；3000蛋白质，并证实了芽孢杆菌和双生孢子菌对生物量解构的重要性。这些研究还表明，还有一些未被发现的蛋白质在细菌木质纤维素的分解过程中起着重要作用。
Thermophilic bacteria are a potential source of enzymes for the deconstruction of lignocellulosic biomass. However, the complement of proteins used to deconstruct biomass and the specific roles of different microbial groups in thermophilic biomass deconstruction are not well-explored. Here we report on the metagenomic and proteogenomic analyses of a compost-derived bacterial consortium adapted to switchgrass at elevated temperature with high levels of glycoside hydrolase activities. Near-complete genomes were reconstructed for the most abundant populations, which included composite genomes for populations closely related to sequenced strains of Thermus thermophilus and Rhodothermus marinus, and for novel populations that are related to thermophilic Paenibacilli and an uncultivated subdivision of the little-studied Gemmatimonadetes phylum. Partial genomes were also reconstructed for a number of lower abundance thermophilic Chloroflexi populations. Identification of genes for lignocellulose processing and metabolic reconstructions suggested Rhodothermus, Paenibacillus and Gemmatimonadetes as key groups for deconstructing biomass, and Thermus as a group that may primarily metabolize low molecular weight compounds. Mass spectrometry-based proteomic analysis of the consortium was used to identify >3000 proteins in fractionated samples from the cultures, and confirmed the importance of Paenibacillus and Gemmatimonadetes to biomass deconstruction. These studies also indicate that there are unexplored proteins with important roles in bacterial lignocellulose deconstruction.
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影响因子：
11.4
作者：
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通讯作者：
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