Assessment of Simple Sequence Repeat (SSR) Markers Derived from Whole-Genome Sequence (WGS) of Mungbean (<i>Vigna radiata</i> L. Wilczek): Cross-Species Transferability and Population Genetic Studies in <i>Vigna</i> Species
Pawan Saini,
Asmita Sirari,
Belaghihalli N. Gnanesh,
Kamalpreet Singh Mandahal,
Navkiran Kaur Ludhar,
Sharon Nagpal,
S. A. H. Patel,
Javed Akhatar,
Pooja Saini,
Aditya Pratap,
Tejinderjit Singh Bains,
Inderjit Singh Yadav
Affiliations
Pawan Saini
Department of Plant Breeding and Genetics, Punjab Agricultural University (PAU), Ludhiana 141 004, Punjab, India
Asmita Sirari
Department of Plant Breeding and Genetics, Punjab Agricultural University (PAU), Ludhiana 141 004, Punjab, India
Belaghihalli N. Gnanesh
Department of Genetics and Plant Breeding, Sampoorna International Institute of Agri Science & Horticultural Technology, Maddur 571 433, Karnataka, India
Kamalpreet Singh Mandahal
Department of Plant Breeding and Genetics, Punjab Agricultural University (PAU), Ludhiana 141 004, Punjab, India
Navkiran Kaur Ludhar
Department of Plant Pathology, Punjab Agricultural University (PAU), Ludhiana 141 004, Punjab, India
Sharon Nagpal
Department of Microbiology, School of Bioengineering and Biosciences, Lovely Professional University, Phagwara 144 411, Punjab, India
S. A. H. Patel
Department of Vegetable Science, Punjab Agricultural University (PAU), Ludhiana 141 004, Punjab, India
Javed Akhatar
Department of Plant Breeding and Genetics, Punjab Agricultural University (PAU), Ludhiana 141 004, Punjab, India
Pooja Saini
Department of Plant Breeding, Genetics and Biotechnology, Dr. Khem Singh Gill Akal College of Agriculture, Eternal University (EU), Baru Sahib 173 101, Himachal Pradesh, India
Aditya Pratap
ICAR-Indian Institute of Pulses Research (IIPR), Kanpur 208 024, Uttar Pradesh, India
Tejinderjit Singh Bains
Department of Plant Breeding and Genetics, Punjab Agricultural University (PAU), Ludhiana 141 004, Punjab, India
Inderjit Singh Yadav
School of Agricultural Biotechnology, Punjab Agricultural University (PAU), Ludhiana 141 004, Punjab, India
The genus Vigna is pan-tropical, having more than 200 species with many desirable economically important traits. This study aimed to validate the in silico polymorphism of whole-genome-sequence-developed mungbean-specific SSR markers and their transferability among different Vigna species. The present study utilized a set of 200 SSR markers developed from the whole-genome sequence of mungbean and validated them using a diversity panel of 25 accessions that belong to 13 Vigna species. Out of 200 SSR markers, 130 markers (65%) were polymorphic across the various Vigna species, and the number of alleles amplified varied from 7 to 24. The SSR markers showed more than 90 percent transferability across the different Vigna species accessions. Utilizing allelic data, the 25 Vigna accessions were clustered into three groups using the unweighted pair group method with arithmetic mean (UPGMA). The two integral coalitions explained 50.79 and 15.42% of the total variance. The principal coordinate analysis (PCA) biplot graph and UPGMA-based neighbor-joining clustering diagram showed a similar pattern of Vigna accession distribution. A population structure assessment grouped the cultivated and wild species accessions into two sub-populations based upon a maximum delta K value of 144.79, which drew a sharp peak at K = 2. The estimated marker parameters, such as the polymorphic information content (0.09–0.84), marker index (0.091–3.342), and effective multiplex ratio (1.0–4.0), suggested their adequacy for several genetic studies, such as parental selection, hybrid testing, genetic mapping, and marker-aided breeding programs, for the genetic enhancement of species belonging to the Vigna genus.
