Molecular mapping of Chilli veinal mottle virus (ChiVMV) resistance in hot pepper (Capsicum annuum L.)

IF 2.2 Q3 GENETICS & HEREDITY Plant Gene Pub Date : 2023-03-01 DOI:10.1016/j.plgene.2022.100396

Naresh Ponnam , Madhavi Reddy K , Krishna Reddy M , Lakshamana Reddy D.C , Anand C. Reddy , Hemachandra Reddy P

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Abstract

Chilli veinal mottle virus (ChiVMV) is a serious potyvirus affecting chilli cultivation in India causing economic yield losses. Breeding resistant varieties/ hybrids is best advocated strategy for viral management. Molecular mapping and markers development greatly facilitates accelerated breeding. Genotyping-by-sequencing was employed for marker discovery and simultaneous genotyping of F2 population developed using contrast parents. Total 6628 single nucleotide polymorphisms (SNP) and 18,125 silicoDArT markers were determined. The SNPs and silicoDArT markers ranged from 280 on chromosome 8 to 625 on chromosome 3 and 857 on chromosome 8 to 1753 on chromosome 3, respectively. Genome wide association study (GWAS) detected 17 SNPs and 21 silicoDArT markers associated with ChiVMV resistance. A major genomic region on chromosome 9 was identified as major candidate loci for ChiVMV resistance. A cluster of defense related genes and elongation translation factors (eIFLE) responsible for disease resistance were predicted within the GWAS regions. A cleaved amplified polymorphic sequence ChiVMVR9_2 CAPS marker was developed for the major resistant locus which was physically mapped at 2,458,715 bp on chromosome 9. This marker can be used in marker-assisted breeding and genomic selection. Further fine mapping of the identified region will facilitate precise marker assisted selection for resistance.

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辣椒对辣椒脉斑病毒（ChiVMV）抗性的分子定位

辣椒脉斑病毒（ChiVMV）是一种严重的马铃薯病毒，影响印度辣椒种植，造成经济产量损失。培育抗病品种/杂交种是病毒管理的最佳策略。分子图谱和标记的开发极大地促进了育种的加速。通过测序进行基因分型用于标记发现和使用对比亲本开发的F2群体的同时基因分型。共测定了6628个单核苷酸多态性（SNP）和18125个硅DArT标记。SNPs和silicadarT标记的范围分别为8号染色体上的280至3号染色体上625和8号染色体的857至3号基因组上的1753。全基因组关联研究（GWAS）检测到17个SNPs和21个与ChiVMV抗性相关的硅DArT标记。9号染色体上的一个主要基因组区域被鉴定为ChiVMV抗性的主要候选基因座。在GWAS区域内预测了一组负责抗病性的防御相关基因和延伸翻译因子（eIFLE）。对9号染色体上2458715bp的主要抗性基因座进行了切割扩增多态性序列ChiVMVR9_2 CAPS标记。该标记可用于标记辅助育种和基因组选择。对识别区域的进一步精细映射将有助于抗性的精确标记辅助选择。

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来源期刊

Plant Gene Agricultural and Biological Sciences-Plant Science

CiteScore

4.50

自引率

0.00%

发文量

审稿时长

51 days

期刊介绍： Plant Gene publishes papers that focus on the regulation, expression, function and evolution of genes in plants, algae and other photosynthesizing organisms (e.g., cyanobacteria), and plant-associated microorganisms. Plant Gene strives to be a diverse plant journal and topics in multiple fields will be considered for publication. Although not limited to the following, some general topics include: Gene discovery and characterization, Gene regulation in response to environmental stress (e.g., salinity, drought, etc.), Genetic effects of transposable elements, Genetic control of secondary metabolic pathways and metabolic enzymes. Herbal Medicine - regulation and medicinal properties of plant products, Plant hormonal signaling, Plant evolutionary genetics, molecular evolution, population genetics, and phylogenetics, Profiling of plant gene expression and genetic variation, Plant-microbe interactions (e.g., influence of endophytes on gene expression; horizontal gene transfer studies; etc.), Agricultural genetics - biotechnology and crop improvement.