Article3 Biotech2023
Genome-wide characterization and development of SSR markers for genetic diversity analysis in northwestern Himalayas Walnut (
Article in 3 Biotech, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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7 citing papers in PubMed.
- Identification of Indigenous ThaiPlants (Basel, Switzerland) · 2025Article
- Genetic diversity evaluation and selection methods of sweet potato hybrid FBMC plant biology · 2025Article
- Genome-wide identification of SSR markers from coding regions for endangered Argania spinosa L. skeels and construction of SSR database: AsSSRdb.Database : the journal of biological databases and curation · 2024Article
- Identification and genetic diversity analysis of specific walnut F1 progeny based on SSR molecular markers: taking heart-shaped walnuts and Jinghong 1 as examples.Scientific reports · 2024Article
- Newly developed genomic SSR markers revealed the population structure and genetic characteristics of abaca (Biotechnologia · 2024Article
- Molecular Characterization of Local Walnut (International journal of molecular sciences · 2023Article
- CRISPR/Cas9 Editing Sites Identification and Multi-Elements Association Analysis inInternational journal of molecular sciences · 2023Article
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11 authors.
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Abstract
In the present study, we designed and validated genome-wide polymorphic SSR markers (110 SSRs) by mining the walnut genome. A total of 198,924 SSR loci were identified. Among these, successful primers were designed for 162,594 (81.73%) SSR loci. Dinucleotides were the most predominant accounting for 88.40% (175,075) of total SSRs. The SSR frequency was 377.312 SSR/Mb and it showed a decreasing trend from dinucleotide to octanucleotide motifs. We identified 20 highly polymorphic SSR markers and used them to genotype 72 walnut accessions. Over all, we obtained 118 alleles that ranged from 2 to 12 with an average value of 5.9. The higher SSR PIC values indicate their robustness in discriminating walnut genotypes. Heat map, PCA, and population structure categorized 72 walnut genotypes into 2 distinct clusters. The genetic variation within population was higher than among population as inferred by analysis of molecular variance (AMOVA). For walnut improvement, it is necessary to have a large repository of SSRs with high discriminative power. The present study reports 150,000 SSRs, which is the largest SSR repository for this important nut crop. Scientific communities may use this repository for walnut improvement such as QTL mapping, genetic studies, linkage map construction, and marker-assisted selection. Supplementary Information: The online version contains supplementary material available at 10.1007/s13205-023-03563-6.
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