Virulence related sequences; insights provided by comparative genomics of Streptococcus uberis of differing virulence.
Virulence related sequences; insights provided by comparative genomics of Streptococcus uberis of differing virulence.
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毒力相关的序列；通过不同毒力的Uberis链球菌的比较基因组学提供的见解。
DOI：
10.1186/s12864-015-1512-6
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发表时间：
2015-04-23
期刊：
影响因子：
4.4
通讯作者：
Emes RD
中科院分区：
文献类型：
--
作者：
Hossain M;Egan SA;Coffey T;Ward PN;Wilson R;Leigh JA;Emes RD
ubercoccus uberis是一种革兰氏阳性，过氧化氢酶阴性的链球菌科成员，是一种重要的环境病原体，是亚临床和临床牛乳腺内感染的重要原因。目前，仅描述了一种参考菌株（0140J）的基因组。在这里，我们提出了一个比较分析的完整草案基因组序列的另外12种葡萄球菌菌株。Pan和核心基因组分析显示，所有菌株的核心基因组共有1550个基因，分布在1509个同源簇中，并有115-246个辅助基因，这些基因在一个或多个uberis菌株中存在，而在参考菌株0140J中没有。大多数先前预测的毒性基因存在于所有13株菌株的核心基因组中，但在CDS中观察到与聚集规律间隔的短回文重复序列（crispr）、原噬菌体和细菌素产生相关的分离株之间的基因增益/损失。实验攻毒实验证实菌株EF20无毒；只能以短暂的方式感染，不会导致临床乳腺炎。将EF20的基因组序列与验证的毒力菌株0140J进行比较，发现了与毒力相关的基因，但这些基因与临床/非临床感染状态没有明显关系。诸如crispr和噬菌体等可移动遗传元素的获得/丢失是进化变化的潜在驱动力。这是第一次对临床与非临床乳腺内感染分离的菌株进行“全基因组”比较，包括毒性菌株与非毒性菌株的类型，但没有确定简单的基因获得/丧失规则，无法轻易解释或自信地与毒性差异相关联。这表明一个更复杂的动态决定感染的可能性和临床结果，而不是简单的基因含量。本文的在线版本（doi:10.1186/s12864-015-1512-6）包含补充材料，可供授权用户使用。
Streptococcus uberis, a Gram-positive, catalase-negative member of the family Streptococcaceae is an important environmental pathogen responsible for a significant proportion of subclinical and clinical bovine intramammary infections. Currently, the genome of only a single reference strain (0140J) has been described. Here we present a comparative analysis of complete draft genome sequences of an additional twelve S. uberis strains. Pan and core genome analysis revealed the core genome common to all strains to be 1,550 genes in 1,509 orthologous clusters, complemented by 115-246 accessory genes present in one or more S. uberis strains but absent in the reference strain 0140J. Most of the previously predicted virulent genes were present in the core genome of all 13 strains but gene gain/loss was observed between the isolates in CDS associated with clustered regularly interspaced short palindromic repeats (CRISPRs), prophage and bacteriocin production. Experimental challenge experiments confirmed strain EF20 as non-virulent; only able to infect in a transient manner that did not result in clinical mastitis. Comparison of the genome sequence of EF20 with the validated virulent strain 0140J identified genes associated with virulence, however these did not relate clearly with clinical/non-clinical status of infection. The gain/loss of mobile genetic elements such as CRISPRs and prophage are a potential driving force for evolutionary change. This first “whole-genome” comparison of strains isolated from clinical vs non-clinical intramammary infections including the type virulent vs non-virulent strains did not identify simple gene gain/loss rules that readily explain, or be confidently associated with, differences in virulence. This suggests that a more complex dynamic determines infection potential and clinical outcome not simply gene content. The online version of this article (doi:10.1186/s12864-015-1512-6) contains supplementary material, which is available to authorized users.
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