Raman-activated cell sorting and metagenomic sequencing revealing carbon-fixing bacteria in the ocean.
Raman-activated cell sorting and metagenomic sequencing revealing carbon-fixing bacteria in the ocean.
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拉曼激活细胞分选和宏基因组测序揭示海洋中的固碳细菌
DOI：
10.1111/1462-2920.14268
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发表时间：
2018-06
影响因子：
5.1
通讯作者：
Huang WE
中科院分区：
文献类型：
--
作者：
Jing X;Gou H;Gong Y;Su X;Xu L;Ji Y;Song Y;Thompson IP;Xu J;Huang WE
了解海洋中CO2的固定具有重要意义。利用单细胞拉曼光谱（SCRS）作为生化特征，拉曼激活细胞排出（RACE）能够将细胞的表型和基因型联系起来。在这里，我们表明来自RACE的迷你宏基因组序列可以作为参考，通过合并鸟枪宏基因组测序数据来重建关键功能细菌的几乎完整的基因组。将该方法应用于中国黄海真光层13 C碳酸氢盐加标海水，对优势细菌聚球藻属（Synechococcus spp.）和Pelagibacter spp.它们都含有类胡萝卜素，并且能够同时将13 C掺入细胞中。重组基因组的遗传分析表明，这两个聚球藻属。和Pelagibacter spp.含有类胡萝卜素合成、光能收集和CO2固定所必需的所有基因。有趣的是，重建的基因组表明，Pelagibacter spp.含有β-胡萝卜素（理性的前体），蛋白视紫质合成和回补CO2固定的完整基因组。这种新的方法通过将尚未培养的聚球藻（Synechococcus spp）与海洋“微生物暗物质”（microbial dark matter）在全球碳循环中的作用联系起来。和Pelagibacter spp.碳固定和流动活动。
It is of great significance to understand CO2 fixation in the oceans. Using single cell Raman spectra (SCRS) as biochemical profiles, Raman activated cell ejection (RACE) was able to link phenotypes and genotypes of cells. Here, we show that mini‐metagenomic sequences from RACE can be used as a reference to reconstruct nearly complete genomes of key functional bacteria by binning shotgun metagenomic sequencing data. By applying this approach to 13C bicarbonate spiked seawater from euphotic zone of the Yellow Sea of China, the dominant bacteria Synechococcus spp. and Pelagibacter spp. were revealed and both of them contain carotenoid and were able to incorporate 13C into the cells at the same time. Genetic analysis of the reconstructed genomes suggests that both Synechococcus spp. and Pelagibacter spp. contained all genes necessary for carotenoid synthesis, light energy harvesting and CO2 fixation. Interestingly, the reconstructed genome indicates that Pelagibacter spp. harbored intact sets of genes for β‐carotene (precursor of retional), proteorhodopsin synthesis and anaplerotic CO2 fixation. This novel approach shines light on the role of marine ‘microbial dark matter’ in global carbon cycling, by linking yet‐to‐be‐cultured Synechococcus spp. and Pelagibacter spp. to carbon fixation and flow activities in situ.
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影响因子：
3.4
作者：
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通讯作者：
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