Deep-sea Bacteroidetes from the Mariana Trench specialize in hemicellulose and pectin degradation typically associated with terrestrial systems.
Deep-sea Bacteroidetes from the Mariana Trench specialize in hemicellulose and pectin degradation typically associated with terrestrial systems.
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DOI：
10.1186/s40168-023-01618-7
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发表时间：
2023-08-07
期刊：
影响因子：
15.5
通讯作者：
中科院分区：
文献类型：
--
作者：
深海海沟（>6000米）是地球上最深的海洋区域，也是有机物质的沉积中心。然而，这些神秘的微生物生态系统是如何被推动的在很大程度上还不清楚，特别是通过从上面的透光表面沃茨水沉积引入的复杂多糖的比例重要性。在表面沃茨中，拟杆菌是各种藻类多糖循环和碳通量通过透光层的关键类群。然而，它们在超深渊微生物环中的作用几乎是未知的。在这里，文化依赖和文化无关的方法被用来研究的潜力拟杆菌分解代谢不同的多糖在马里亚纳海沟沃茨。与表层沃茨相比，深海（1000-4000米）和深海（6000- 10500米）沃茨含有不同的拟杆菌群落，中黄杆菌在≥ 4000米处富集，拟杆菌和普罗沃氏菌在10400 - 10500米处富集。此外，这些深海社区拥有不同的基因库编码的碳水化合物活性酶（CAZymes），这表明不同的多糖来源，在这两个区域。与表面对应物相比，深海拟杆菌显示出CAZyme基因的显著富集，其经常组织成靶向藻类/植物细胞壁多糖的多糖利用位点（普尔斯）（即，半纤维素和果胶），其先前被认为是仅与陆生拟杆菌相关的生态性状。使用Hadal Mesoflavibacter分离株（MTRN 7），证明了这种独特的遗传潜力的功能验证。MTRN 7可以利用果胶阿拉伯聚糖，通常与陆地植物和光合藻类，作为模拟深海条件下的碳源。有趣的是，我们证明的PUL可能是从沿海/陆地拟杆菌水平收购被激活的阿拉伯聚糖生长过程中，实验证明编码水解阿拉伯聚糖在深度的酶。我们的研究表明，超深渊拟杆菌通过扩大的CAZyme基因库利用表面种群利用不良的多糖。我们建议，下沉的细胞壁碎片中产生的透光带可以作为一个重要的碳源的超异养生物，并发挥作用，塑造他们的社区和代谢。视频摘要在线版本包含补充材料，可通过10. 1186/s40168-023-01618-7获取。
Hadal trenches (>6000 m) are the deepest oceanic regions on Earth and depocenters for organic materials. However, how these enigmatic microbial ecosystems are fueled is largely unknown, particularly the proportional importance of complex polysaccharides introduced through deposition from the photic surface waters above. In surface waters, Bacteroidetes are keystone taxa for the cycling of various algal-derived polysaccharides and the flux of carbon through the photic zone. However, their role in the hadal microbial loop is almost unknown. Here, culture-dependent and culture-independent methods were used to study the potential of Bacteroidetes to catabolize diverse polysaccharides in Mariana Trench waters. Compared to surface waters, the bathypelagic (1000–4000 m) and hadal (6000–10,500 m) waters harbored distinct Bacteroidetes communities, with Mesoflavibacter being enriched at ≥ 4000 m and Bacteroides and Provotella being enriched at 10,400–10,500 m. Moreover, these deep-sea communities possessed distinct gene pools encoding for carbohydrate active enzymes (CAZymes), suggesting different polysaccharide sources are utilised in these two zones. Compared to surface counterparts, deep-sea Bacteroidetes showed significant enrichment of CAZyme genes frequently organized into polysaccharide utilization loci (PULs) targeting algal/plant cell wall polysaccharides (i.e., hemicellulose and pectin), that were previously considered an ecological trait associated with terrestrial Bacteroidetes only. Using a hadal Mesoflavibacter isolate (MTRN7), functional validation of this unique genetic potential was demonstrated. MTRN7 could utilize pectic arabinans, typically associated with land plants and phototrophic algae, as the carbon source under simulated deep-sea conditions. Interestingly, a PUL we demonstrate is likely horizontally acquired from coastal/land Bacteroidetes was activated during growth on arabinan and experimentally shown to encode enzymes that hydrolyze arabinan at depth. Our study implies that hadal Bacteroidetes exploit polysaccharides poorly utilized by surface populations via an expanded CAZyme gene pool. We propose that sinking cell wall debris produced in the photic zone can serve as an important carbon source for hadal heterotrophs and play a role in shaping their communities and metabolism. Video Abstract The online version contains supplementary material available at 10.1186/s40168-023-01618-7.
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影响因子：
18.3
作者：
Bianchi, Daniele;Weber, Thomas S.;Deutsch, Curtis
通讯作者：
Deutsch, Curtis
影响因子：
3.7
作者：
Barbeyron T;Brillet-Guéguen L;Carré W;Carrière C;Caron C;Czjzek M;Hoebeke M;Michel G
通讯作者：
Michel G
影响因子：
4.3
作者：
Huson DH;Beier S;Flade I;Górska A;El-Hadidi M;Mitra S;Ruscheweyh HJ;Tappu R
通讯作者：
Tappu R
DOI：
10.1093/bioinformatics/btp348
发表时间：
2009-08-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Capella-Gutiérrez S;Silla-Martínez JM;Gabaldón T
通讯作者：
Gabaldón T
影响因子：
6.4
作者：
Gruber-Vodicka HR;Seah BKB;Pruesse E
通讯作者：
Pruesse E