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A MLVA genotyping scheme for global surveillance of the citrus pathogen #Xanthomonas citri# pv. citri suggests a worldwide geographical expansion of a single genetic lineage

机译:用于柑橘病原体#Xanthomonas citri#pv全局监视的MLVA基因分型方案。 citri建议单一遗传谱系在全球范围内扩展

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摘要

MultiLocus Variable number of tandem repeat Analysis (MLVA) has been extensively used to examine epidemiological and evolutionary issues on monomorphic human pathogenic bacteria, but not on bacterial plant pathogens of agricultural importance albeit such tools would improve our understanding of their epidemiology, as well as of the history of epidemics on a global scale. Xanthomonas citri pv. citri is a quarantine organism in several countries and a major threat for the citrus industry worldwide. We screened the genomes of Xanthomonas citri pv. citri strain IAPAR 306 and of phylogenetically related xanthomonads for tandem repeats. From these in silico data, an optimized MLVA scheme was developed to assess the global diversity of this monomorphic bacterium. Thirty-one minisatellite loci (MLVA-31) were selected to assess the genetic structure of 129 strains representative of the worldwide pathological and genetic diversity of X. citri pv. citri. Based on Discriminant Analysis of Principal Components (DAPC), four pathotype-specific clusters were defined. DAPC cluster 1 comprised strains that were implicated in the major geographical expansion of X. citri pv. citri during the 20th century. A subset of 12 loci (MLVA-12) resolved 89% of the total diversity and matched the genetic structure revealed by MLVA-31. MLVA-12 is proposed for routine epidemiological identification of X. citri pv. citri, whereas MLVA-31 is proposed for phylogenetic and population genetics studies. MLVA-31 represents an opportunity for international X. citri pv. citri genotyping and data sharing. The MLVA-31 data generated in this study was deposited in the Xanthomonas citri genotyping database (http://www.biopred.net/MLVA/). (Résumé d'auteur)
机译:MultiLocus可变数目串联重复分析(MLVA)已被广泛用于检查单态人类致病细菌的流行病学和进化问题,但对于具有农业重要性的细菌植物病原体却没有,尽管这样的工具可以增进我们对其流行病学以及全球范围内的流行病史。 Xanthomonas citri pv。柠檬是几个国家的检疫生物,对全世界柑橘产业构成重大威胁。我们筛选了柠檬黄单胞菌的基因组。柠檬酸菌株IAPAR 306和用于串联重复的系统发育相关的黄单胞菌。从这些计算机数据中,开发了一种优化的MLVA方案来评估这种单态细菌的全球多样性。选择了31个小卫星位点(MLVA-31)来评估129株代表全球X.citri pv的病理和遗传多样性的菌株的遗传结构。柠檬基于主成分判别分析(DAPC),定义了四个特定于病理型的聚类。 DAPC群集1包含与X.citri pv的主要地理区域相关的菌株。 20世纪的柠檬。 12个基因座的一个子集(MLVA-12)解决了总多样性的89%,并且与MLVA-31揭示的遗传结构匹配。提出将MLVA-12用于柠檬黄杆菌的常规流行病学鉴定。柠檬酸,而MLVA-31被提议用于系统发育和种群遗传学研究。 MLVA-31为国际X.citri pv。提供了机会。柠檬酸的基因分型和数据共享。这项研究中产生的MLVA-31数据已保存在柑橘黄单胞菌基因型数据库(http://www.biopred.net/MLVA/)中。 (Résuméd'auteur)

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