Genetic diversity and population structure analysis of Indian garlic (Allium sativum L.) collection using SSR markers

Abstract

Genetic diversity was assessed among 53 Indian garlic accessions using SSR markers. Initially, 24 SSR primer pairs were used for screening three selected garlic accessions. Out of 24 SSR primer pairs, 10 primer pairs which consistently showed good amplification and polymorphism were selected for DNA profiling. SSR primer pairs showed PIC values ranging from 0.30 to 0.99. Based on AMOVA we found that the greater part of the genetic diversity was expected due to intra population with 84% variation and only 16% of variation was due to among populations suggesting presence of genetic structure. The results of cluster analysis and principal component analysis largely correspond to each other. Population structure analysis revealed genetic differentiation of accessions. The results of present study revealed existence of significant variability in Indian garlic germplasm.

Genetic Diversity and Population Structure of Cannabis Based on the Genome-Wide Development of Simple Sequence Repeat Markers

“…Because PIC ranges from 0.25 to 0.78 (mean: 0.50), Cannabis germplasm resources are considered to have a high degree of polymorphism. The values are lower than those of the Kenyan common bean ( Phaseolus vulgaris L.) ( Valentini et al, 2018 ), Indian garlic ( Allium sativum L.) ( Kumar et al, 2019 ), and ramie ( Boehmeria nivea L.) ( Feng et al, 2018 ) and higher than those of tea plants ( Camellia sinensis L.) ( Ori et al, 2017 ), corn ( Zea mays L.) ( Zhang et al, 2017 ), and sesame ( Sesamum indicum L.) ( Yue et al, 2012 ). In addition, the PIC values of the domesticated, wild, and Chinese and foreign accessions range from 0.25 to 0.50, indicating that the germplasm resources in these regions have moderate polymorphism, and the results are consistent among the nine populations.…”

Garlic (Allium sativum L.): Overview on its Biology and Genetic Markers Available for the Analysis of Its Diversity in West Africa

“…Genetic markers such as Random Amplified Polymorphic DNA (RAPD), restriction fragment length polymorphism (RFLP), Amplified Fragment Length Polymorphism (AFLP), Simple Sequence Repeats (SSR S ) Inter-Simple Sequence Repeat (ISSR) have been used to identify genetic markers associated with pollen fertility [51-52], determine the stability of vitro plants [53], group accessions according to their photoperiodic needs [54]. They have also been used to reveal variation in the genome [50, 55,56,57], and variability within cultivated garlic varieties [58].…”

Histological, Physiological and Transcriptomic Analysis Reveal Gibberellin-Induced Axillary Meristem Formation in Garlic (Allium sativum)

“…However, it has been reported that FLOWERING LOCUS T ( FT ) genes regulated axillary meristem formation and clove number in garlic [ 25 ]. As Allium sativum is a nonmodel plant; its genomic information is still scare, except for the development of molecular markers [ 26 , 27 , 28 ], which restricts our understanding of the molecular mechanism of axillary meristem development of garlic. With the development of sequencing technologies, RNA sequencing (RNA-seq) independent of genetic background has been developed [ 29 ].…”