4.3 Article

Identification and validation of SSR markers for Xanthomonas axonopodis pv. punicae an incitant of bacterial blight of pomegranate

期刊

3 BIOTECH
卷 12, 期 7, 页码 -

出版社

SPRINGER HEIDELBERG
DOI: 10.1007/s13205-022-03209-z

关键词

Microsatellite; Xanthomonas axonopodis; Bacterial blight; Molecular diversity; Pomegranate; ePCR

资金

  1. Indian Council of Agricultural Research, New Delhi, India

向作者/读者索取更多资源

This study reports the development of microsatellite markers for Xanthomonas axonopodis pv. punicae through in silico analysis of eight sequenced strains. The markers showed moderate genetic diversity among isolates and confirmed the spread of a specific type of Xap in India. These markers will serve as powerful genomics tools for monitoring population dynamics, taxonomy, epidomology, and quarantine aspects in bacterial blight pathogen.
This study reports genome wide characterization and development of first set of microsatellite markers through in silico analysis of eight sequenced Xanthomonas axonopodis pv. punicae strains available in the public database. SSR survey resulted in identification of similar to 4638 perfect SSRs, with mean marker frequency 901 SSRs/Mb and densitiy of 11,006 bp/Mb aross the eight genomes. Frequency distribution graphs revealed hexa-nucleotide repeats were more prominent fowllowed by tri-, tetra-, di- and penta-nucleotides in the analysed genomes. We desinged 2927 SSR primers that are specific to the strain LMG 859 and ePCR confirmed on seven other Xap genomes. This resulted in identification of 542 informative SSRs that are producing single amplicons, from which 66 primers were successfully validated through wet lab experiments on eight Xap isolates of pomegranate. Furthermore, utility of these SSRs were demostrated by analysing molecular diversity among 22 Xap isolates using 20 Xap_SSR primers. SSRs revealed moderate genetic diversity among Xap isolates (61%) and grouped 11 isolates that are repersenting six different states into one cluster. This proved the earlier evidence of wider spread of ST3 type Xap acoss India using Multi locus Sequence Typing (MLST) technique. In summary, Xap_SSR will serve as powerful genomics tools that would helps in monitoring of population dynamics, taxonomy, epidomology and quarantine aspects in bacterial blight pathogen through development of microsatellite based Multilocus Variable number of Tandem repeat analysis (MLVA) in future.

作者

我是这篇论文的作者
点击您的名字以认领此论文并将其添加到您的个人资料中。

评论

主要评分

4.3
评分不足

次要评分

新颖性
-
重要性
-
科学严谨性
-
评价这篇论文

推荐

暂无数据
暂无数据