Extensive Horizontal Gene Transfer within and between Species of Coagulase-Negative Staphylococcus.
Extensive Horizontal Gene Transfer within and between Species of Coagulase-Negative Staphylococcus.
复制标题
凝固酶阴性葡萄球菌种内和种间的广泛水平基因转移。
DOI：
10.1093/gbe/evab206
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发表时间：
2021-09-01
影响因子：
3.3
通讯作者：
Andam CP
中科院分区：
文献类型：
--
作者：
Smith JT;Andam CP
革兰氏阳性菌属葡萄球菌历史上根据凝固酶蛋白的诊断表现分为凝固酶阳性葡萄球菌(COPS)和凝固酶阴性葡萄球菌(CONS)。以前的研究已经注意到水平基因转移(HGT)和重组在更知名的COPS物种金黄色葡萄球菌中的重要性，但对这些过程在CONS进化中的贡献知之甚少。在这项研究中，我们旨在阐明HGT在CONS中的系统发育关系、基因组特征和频率，这些现在被认为是人类的主要机会性病原体。我们汇编了1,876个公开可用的命名为CONS的基因组的数据集。根据462个核心基因的等位基因差异和辅助基因含量的差异，可将这些物种划分为55个物种。CONS物种是可转移基因的储存库，这些基因与对不同类别的抗菌素产生抗药性有关。我们还鉴定了9种携带甲氧西林耐药决定簇mecA的移动遗传元件SCCmec。其他频繁转移的基因包括与重金属抗性相关的基因、与毒力和生物膜形成相关的表面相关蛋白、VII型分泌系统、铁捕获、重组和代谢酶。重组DNA片段的接受和捐献频率最高的是头状葡萄球菌、卡氏葡萄球菌、人葡萄球菌、溶血葡萄球菌和腐生菌种组成员。转移伙伴中不同的重组率和偏差意味着某些CONS物种作为整个属的基因流动的枢纽和遗传多样性的主要储存库发挥作用。
Members of the gram-positive bacterial genus Staphylococcus have historically been classified into coagulase-positive Staphylococcus (CoPS) and coagulase-negative Staphylococcus (CoNS) based on the diagnostic presentation of the coagulase protein. Previous studies have noted the importance of horizontal gene transfer (HGT) and recombination in the more well-known CoPS species Staphylococcus aureus, yet little is known of the contributions of these processes in CoNS evolution. In this study, we aimed to elucidate the phylogenetic relationships, genomic characteristics, and frequencies of HGT in CoNS, which are now being recognized as major opportunistic pathogens of humans. We compiled a data set of 1,876 publicly available named CoNS genomes. These can be delineated into 55 species based on allele differences in 462 core genes and variation in accessory gene content. CoNS species are a reservoir of transferrable genes associated with resistance to diverse classes of antimicrobials. We also identified nine types of the mobile genetic element SCCmec, which carries the methicillin resistance determinant mecA. Other frequently transferred genes included those associated with resistance to heavy metals, surface-associated proteins related to virulence and biofilm formation, type VII secretion system, iron capture, recombination, and metabolic enzymes. The highest frequencies of receipt and donation of recombined DNA fragments were observed in Staphylococcus capitis, Staphylococcus caprae, Staphylococcus hominis, Staphylococcus haemolyticus, and members of the Saprophyticus species group. The variable rates of recombination and biases in transfer partners imply that certain CoNS species function as hubs of gene flow and major reservoir of genetic diversity for the entire genus.
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DOI：
10.1093/bioinformatics/bts565
发表时间：
2012-12-01
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Fu L;Niu B;Zhu Z;Wu S;Li W
通讯作者：
Li W
影响因子：
6.7
作者：
Bradshaw, Jessica L.;McDaniel, Larry S.
通讯作者：
McDaniel, Larry S.
DOI：
10.1093/jac/dkaa345
发表时间：
2020-12-01
期刊：
The Journal of antimicrobial chemotherapy
影响因子：
--
作者：
Bortolaia V;Kaas RS;Ruppe E;Roberts MC;Schwarz S;Cattoir V;Philippon A;Allesoe RL;Rebelo AR;Florensa AF;Fagelhauer L;Chakraborty T;Neumann B;Werner G;Bender JK;Stingl K;Nguyen M;Coppens J;Xavier BB;Malhotra-Kumar S;Westh H;Pinholt M;Anjum MF;Duggett NA;Kempf I;Nykäsenoja S;Olkkola S;Wieczorek K;Amaro A;Clemente L;Mossong J;Losch S;Ragimbeau C;Lund O;Aarestrup FM
通讯作者：
Aarestrup FM
影响因子：
10.7
作者：
Hoang DT;Chernomor O;von Haeseler A;Minh BQ;Vinh LS
通讯作者：
Vinh LS
影响因子：
4.5
作者：
Fux, CA;Uehlinger, D;Mühlemann, K
通讯作者：
Mühlemann, K