Mehta Nikita, Hagen Ferry, Aamir Sadaf, Singh Sanjay K, Baghela Abhishek
National Fungal Culture Collection of India (NFCCI), Biodiversity and Palaeobiology Group, MACS-Agharkar Research Institute, Pune 411004, India.
Savitribai Phule Pune University, Pune 411007, India.
Mycobiology. 2017 Dec;45(4):401-408. doi: 10.5941/MYCO.2017.45.4.401. Epub 2017 Dec 31.
is an economically important fungal pathogen causing substantial yield losses indifferent host plants. To understand the genetic diversity and molecular epidemiology of this fungus, we have developed a novel, high-resolution multi-locus microsatellite typing (MLMT) method. Bioinformatic analysis of unannotated genome sequence yielded eight potential microsatellite loci, of which five, CG1 (GT), CG2 (GT1), CG3 (TC), CG4 (CT), and CG5 (CT1) were selected for further study based on their universal amplification potential, reproducibility, and repeat number polymorphism. The selected microsatellites were used to analyze 31 strains of isolated from 20 different host plants from India. All microsatellite loci were found to be polymorphic, and the approximate fragment sizes of microsatellite loci CG1, CG2, CG3, CG4, and CG5 were in ranges of 213-241, 197-227, 231-265, 209-275, and 132-188, respectively. Among the 31 isolates, 55 different genotypes were identified. The Simpson's index of diversity (D) values for the individual locus ranged from 0.79 to 0.92, with the D value of all combined five microsatellite loci being 0.99. Microsatellite data analysis revealed that isolates from , (chili pepper), and (mango) formed distinct clusters, therefore exhibited some level of correlation between certain genotypes and host. The developed MLMT method would be a powerful tool for studying the genetic diversity and any possible genotype-host correlation in .
是一种在经济上具有重要意义的真菌病原体，会在不同宿主植物中造成大量产量损失。为了解这种真菌的遗传多样性和分子流行病学，我们开发了一种新颖的、高分辨率的多位点微卫星分型（MLMT）方法。对未注释的基因组序列进行生物信息学分析，得到了8个潜在的微卫星位点，其中5个，即CG1（GT）、CG2（GT1）、CG3（TC）、CG4（CT）和CG5（CT1），基于其通用扩增潜力、可重复性和重复数多态性被选用于进一步研究。所选微卫星用于分析从印度20种不同宿主植物中分离出的31个菌株。发现所有微卫星位点均具有多态性，微卫星位点CG1、CG2、CG3、CG4和CG5的近似片段大小分别在213 - 241、197 - 227、231 - 265、209 - 275和132 - 188范围内。在这31个分离株中，鉴定出了55种不同的基因型。各个位点的辛普森多样性指数（D）值在0.79至0.92之间，所有五个微卫星位点组合的D值为0.99。微卫星数据分析表明，来自[具体植物名称1]、[具体植物名称2]（辣椒）和[具体植物名称3]（芒果）的分离株形成了不同的聚类，因此在某些基因型与宿主之间表现出一定程度的相关性。所开发的MLMT方法将成为研究[具体真菌名称]遗传多样性以及任何可能的基因型 - 宿主相关性的有力工具。
