The metabolic potential of the single cell genomes obtained from the Challenger Deep, Mariana Trench within the candidate superphylum Parcubacteria (OD1).
The metabolic potential of the single cell genomes obtained from the Challenger Deep, Mariana Trench within the candidate superphylum Parcubacteria (OD1).
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DOI：
10.1111/1462-2920.13789
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发表时间：
2017-07
影响因子：
5.1
通讯作者：
Bartlett DH
中科院分区：
文献类型：
--
作者：
León-Zayas R;Peoples L;Biddle JF;Podell S;Novotny M;Cameron J;Lasken RS;Bartlett DH
候选门（CP）是广泛的生物系统发育集群，缺乏培养的代表。包括在该部分中的是候选Parcubacteria superphylum。已归因于Parcubacteria的具体特征包括减小的基因组大小、有限的代谢潜力以及完全依赖发酵获得能量。新的环境生态位的研究，如海洋与陆地地下，往往扩大了对分类群体的遗传潜力的理解。出于这个原因，我们分析了12 Parcubacteria单扩增基因组（SAG）从沉积物样品中收集的挑战者深的马里亚纳海沟，在深海挑战（DSC）探险。这些SAG中的许多与基于16S rRNA基因相似性从深海环境中获得的环境序列密切相关，并且BLAST与预测的蛋白质匹配。DSC SAG编码以前没有在从其他栖息地获得的Parcubacteria中鉴定的特征。这些包括适应氧化应激，多糖修饰和与呼吸硝酸盐还原相关的基因。DSC SAG的特征还在于用于核苷酸和氨基酸生物合成、烷基化DNA的修复和机械敏感性离子通道的合成的基因的相对更大丰度。这些结果提出了一个扩展的观点Parcubacteria，成员居住在超深的超深渊环境。
Candidate phyla (CP) are broad phylogenetic clusters of organisms that lack cultured representatives. Included in this fraction is the candidate Parcubacteria superphylum. Specific characteristics that have been ascribed to the Parcubacteria include reduced genome size, limited metabolic potential, and exclusive reliance on fermentation for energy acquisition. The study of new environmental niches, such as the marine versus terrestrial subsurface, often expands the understanding of the genetic potential of taxonomic groups. For this reason we analyzed twelve Parcubacteria single amplified genomes (SAGs) from sediment samples collected within the Challenger Deep of the Mariana Trench, obtained during the Deepsea Challenge (DSC) Expedition. Many of these SAGs are closely related to environmental sequences obtained from deep-sea environments based on 16S rRNA gene similarity and BLAST matches to predicted proteins. DSC SAGs encode features not previously identified in Parcubacteria obtained from other habitats. These include adaptation to oxidative stress, polysaccharide modification, and genes associated with respiratory nitrate reduction. The DSC SAGs are also distinguished by relative greater abundance of genes for nucleotide and amino acid biosynthesis, repair of alkylated DNA and the synthesis of mechanosensitive ion channels. These results present an expanded view of the Parcubacteria, among members residing in an ultra-deep hadal environment.
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影响因子：
5.2
作者：
Fujioka, K;Okino, K;Ohara, Y
通讯作者：
Ohara, Y
DOI：
10.1073/pnas.0409727102
发表时间：
2005-02-15
影响因子：
11.1
作者：
Konstantinidis, KT;Tiedje, JM
通讯作者：
Tiedje, JM
影响因子：
3.4
作者：
Gong, Jun;Qing, Yao;Warren, Alan
通讯作者：
Warren, Alan
影响因子：
2.6
作者：
IRGENS, RL;SUZUKI, I;STALEY, JT
通讯作者：
STALEY, JT
影响因子：
1.7
作者：
Bankevich, Anton;Nurk, Sergey;Pevzner, Pavel A.
通讯作者：
Pevzner, Pavel A.