Cadmium stress triggers significant metabolic reprogramming in Enterococcus faecium CX 2-6.
Cadmium stress triggers significant metabolic reprogramming in Enterococcus faecium CX 2-6.
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DOI：
10.1016/j.csbj.2021.10.021
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发表时间：
2021
影响因子：
6
通讯作者：
Yin Y
中科院分区：
文献类型：
--
作者：
Cheng X;Yang B;Zheng J;Wei H;Feng X;Yin Y
对一株耐镉的粪肠球菌CX2-6进行了序列测定。差异表达分析发现，Cx2-6基因中有47%受到Cd处理的显著影响。差异表达基因(Deg)在CX2-6基因组中形成物理连接的基因簇。噬菌体是CX2-6所特有的，在高浓度的Cd作用下被强烈激活。大多数对Cd处理有反应的deg存在于核心基因组中。土壤中的重金属污染正日益威胁着全球农作物和粮食生产。利用植物伴生细菌修复重金属污染是一种很有前途的方法。我们从重金属污染的农田中分离到一株抗镉(Cd)的粪肠球菌CX2-6。结果表明：(1)Cx2-6对Cd具有较慢的生长速率；(2)Cx2-6全基因组通过PacBio长阅读被完全组装；(3)差异表达分析发现Cx2-6中47%的基因受到Cd处理的显著影响，并形成3个具有不同表达谱的基因群；(4)差异表达基因(Deg)在Cx2-6基因组中形成物理连锁的基因簇，其中一个基因簇对应于Cx2-6所特有的一个前驱体，当Cd浓度较高时，差异表达基因被强烈激活；(V)大多数响应Cd胁迫的DIGs存在于核心基因组中；(Vi)鉴定了55个非编码RNA基因，其中49个是响应Cd胁迫的DIGs。我们的全基因组分析和比较RNA-seq数据分析极大地提高了我们对Cd胁迫下粪肠球菌CX2-6代谢重编程的理解。
A cadmium resistant strain of Enterococcus faecium CX 2–6 is sequenced. Differential expression analysis found 47% of CX 2–6 genes are significantly affected by Cd treatment. Differentially expressed genes (DEGs) form physically linked gene clusters in the CX 2–6 genome. A prophage is unique to CX 2–6 and is strongly activated by high Cd concentration. A majority of DEGs responding to Cd treatment are present in the core genome. Heavy metal pollutions in the soils are increasingly threatening the global crop and food production. Using plant associated bacteria to remediate heavy metal contamination is a promising approach. We have isolated a cadmium (Cd) resistant Enterococcus faecium strain CX 2–6 from a heavy metal contaminated farmland. We have shown that: (i) CX 2–6 can tolerate cadmium (Cd) with a slower growth rate; (ii) The CX 2–6 complete genome is fully assembled using PacBio long reads; (iii) Differential expression analysis found 47% of CX 2–6 genes are significantly affected by Cd treatment and form three gene groups with distinct expression profiles; (iv) Differentially expressed genes (DEGs) form physically linked gene clusters in the CX 2–6 genome, and one of the gene clusters corresponds to a prophage that is unique to CX 2–6 and is strongly activated when Cd concentration is higher; (v) A majority of DEGs responding to Cd treatment are present in the core genome; and (vi) 55 noncoding RNA genes are identified and 49 of them are DEGs responding to cadmium stress. Our pan-genome analysis and comparative RNA-seq data analysis has significantly improved our understanding of the metabolic reprogramming of E. faecium CX 2–6 under Cd stress.
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