Development of a multi-locus sequence typing scheme for Laribacter hongkongensis, a novel bacterium associated with freshwater fish-borne gastroenteritis and traveler's diarrhea.
Development of a multi-locus sequence typing scheme for Laribacter hongkongensis, a novel bacterium associated with freshwater fish-borne gastroenteritis and traveler's diarrhea.
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DOI：
10.1186/1471-2180-9-21
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发表时间：
2009-01-30
期刊：
影响因子：
4.2
通讯作者：
Yuen KY
中科院分区：
文献类型：
--
作者：
Woo PC;Teng JL;Tsang AK;Tse H;Tsang VY;Chan KM;Lee EK;Chan JK;Ma SS;Tam DM;Chung LM;Lau SK;Yuen KY
香港拉里杆菌(Laribacter Hongkongensis)是一种新发现的兼性厌氧、革兰氏阴性、能动、海鸥形状的杆状细菌，与淡水鱼传播的胃肠炎和旅行者腹泻有关。一个高度重复性和区分性的分型系统对于更好地了解香港乳杆菌的流行病学是必不可少的。本研究建立了香港乳杆菌的多位点序列分型系统。利用该系统对146株香港乳杆菌进行了鉴定，其中39株来自人，107株来自鱼类。对7个看家基因的362~504bp片段进行了扩增和测序。在7个基因座的3068个碱基中，观察到332个多态位点。每个座位的等位基因数中位数为34[范围为22(IlvC)~45(Thic)]。所有7个基因的dN/ds比值都很低，为-lt；0.04，表明不存在很强的正选择压力。共有97种不同的序列类型(STS)被分配给146株分离物，其中80种STS仅被鉴定一次。总体鉴别力为0.9861。EBURST将这些分离株分成12个谱系，其中6组只包含来自鱼类的分离株，3组仅包含来自人类的分离株。标准化关联指数(ISA)测量显示，在人和鱼的分离株中存在显著的连锁不平衡。人和鱼分离株的ISA值分别为0.270和0.636，表明鱼分离株比人分离株具有更强的克隆性。在分裂图中仅检测到一个互连网络(AcnB)。Sawyer‘s检验中浓缩片段平方和的P值(P=0)显示Rho、acnB和Thic基因座存在基因内重组，但这些基因座最大浓缩片段的P值(P=1)未显示基因内重组。同余分析表明，所有7个MLST基因座的配对比较结果都不一致，表明重组在香港龙须草的进化中起着重要作用。香港松材线虫的网站已设立，网址为http://mlstdb.hku.hk:14206/MLST_index.html.。建立了一套重复性好、区分度高的香港落叶松MLST体系。
Laribacter hongkongensis is a newly discovered, facultative anaerobic, Gram-negative, motile, sea gull-shaped rod associated with freshwater fish borne gastroenteritis and traveler's diarrhea. A highly reproducible and discriminative typing system is essential for better understanding of the epidemiology of L. hongkongensis. In this study, a multilocus sequence typing (MLST) system was developed for L. hongkongensis. The system was used to characterize 146 L. hongkongensis isolates, including 39 from humans and 107 from fish. Fragments (362 to 504 bp) of seven housekeeping genes were amplified and sequenced. Among the 3068 bp of the seven loci, 332 polymorphic sites were observed. The median number of alleles at each locus was 34 [range 22 (ilvC) to 45 (thiC)]. All seven genes showed very low dn/ds ratios of < 0.04, indicating that no strong positive selective pressure is present. A total of 97 different sequence types (STs) were assigned to the 146 isolates, with 80 STs identified only once. The overall discriminatory power was 0.9861. eBURST grouped the isolates into 12 lineages, with six groups containing only isolates from fish and three groups only isolates from humans. Standardized index of association (ISA) measurement showed significant linkage disequilibrium in isolates from both humans and fish. The ISA for the isolates from humans and fish were 0.270 and 0.636, indicating the isolates from fish were more clonal than the isolates from humans. Only one interconnected network (acnB) was detected in the split graphs. The P-value (P = 0) of sum of the squares of condensed fragments in Sawyer's test showed evidence of intragenic recombination in the rho, acnB and thiC loci, but the P-value (P = 1) of maximum condensed fragment in these gene loci did not show evidence of intragenic recombination. Congruence analysis showed that all the pairwise comparisons of the 7 MLST loci were incongruent, indicating that recombination played a substantial role in the evolution of L. hongkongensis. A website for L. hongkongensis MLST was set up and can be accessed at http://mlstdb.hku.hk:14206/MLST_index.html. A highly reproducible and discriminative MLST system was developed for L. hongkongensis.
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影响因子：
3.3
作者：
Didelot, Xavier;Falush, Daniel
通讯作者：
Falush, Daniel
影响因子：
3.2
作者：
Feil, EJ;Li, BC;Spratt, BG
通讯作者：
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5.8
作者：
Jolley, KA;Feil, EJ;Maiden, MCJ
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14.9
作者：
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影响因子：
9.4
作者：
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通讯作者：
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