Transcriptome profiling analysis of Vibrio vulnificus during human infection
Transcriptome profiling analysis of Vibrio vulnificus during human infection
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DOI：
10.1099/mic.0.067900-0
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发表时间：
2013-09-01
期刊：
影响因子：
2.8
通讯作者：
Koton, Yael
中科院分区：
文献类型：
--
作者：
Bisharat, Naiel;Bronstein, Michal;Koton, Yael
创伤弧菌是一种水传播病原体，在以色列的养鱼户和鱼类消费者中造成了严重软组织感染的爆发。有几个因素被证明与毒力有关。然而，在人类感染期间病原体的转录组谱尚未确定。我们使用RNA测序，比较了从患有严重软组织感染的坏死性筋膜炎患者的组织中直接收获的人类致病菌株的转录组谱，与相同的菌株和其他三种在体外培养的环境菌株。5个测序文库与创伤弧菌CMCP6和YJ016的参考基因组进行比对。这五次运行产生了大约4780万到6230万对端原始读取。近84%的基因组被来自五次运行中的至少一次的读取覆盖，这表明近16%的基因组没有转录或转录水平很低。我们鉴定出123个在感染急性期差异表达的基因。63个基因被定位到大染色体上，47个基因被定位到小染色体上，13个基因被定位到YJ016质粒上。这123个基因属于多种功能类别，包括转录、信号转导、细胞运动、碳水化合物代谢、细胞内运输和细胞包膜生物发生。在人类感染过程中差异表达的基因中，我们发现了编码细菌毒素（RtxA1）的基因，以及涉及鞭毛成分、flp编码区、GGDEF家族蛋白、铁获取系统和唾液酸代谢的基因。
Vibrio vulnificus is a waterborne pathogen that was responsible for an outbreak of severe soft-tissue infections among fish farmers and fish consumers in Israel. Several factors have been shown to be associated with virulence. However, the transcriptome profile of the pathogen during human infection has not been determined yet. We compared the transcriptome profile, using RNA sequencing, of a human-pathogenic strain harvested directly from tissue of a patient suffering from severe soft-tissue infection with necrotizing fasciitis, with the same strain and three other environmental strains grown in vitro. The five sequenced libraries were aligned to the reference genomes of V. vulnificus strains CMCP6 and YJ016. Approximately 47.8 to 62.3 million paired-end raw reads were generated from the five runs. Nearly 84% of the genome was covered by reads from at least one of the five runs, suggesting that nearly 16% of the genome is not transcribed or is transcribed at low levels. We identified 123 genes that were differentially expressed during the acute phase of infection. Sixty-three genes were mapped to the large chromosome, 47 genes mapped to the small chromosome and 13 genes mapped to the YJ016 plasmid. The 123 genes fell into a variety of functional categories including transcription, signal transduction, cell motility, carbohydrate metabolism, intracellular trafficking and cell envelope biogenesis. Among the genes differentially expressed during human infection we identified genes encoding bacterial toxin (RtxA1) and genes involved in flagellar components, Flp-coding region, GGDEF family protein, iron acquisition system and sialic acid metabolism.