Development of Simple-Sequence Repeats Markers from Durian (Durio zibethinus Murr. cultv. Matahari) Genomic Library

Abstract

Simple sequence repeats have been proved as powerful markers and widely used in molecular breeding to reduce cycles and cost efective. The availability of the marker is, however, very limited in durian. This research aimed to develop SSR markers from durian genomic library. Genomic DNA was isolated from durian shoot leaf, whilst SSR motifs were isolated using membrane-based oligonucleotide enrichment hybridization protocol. Annotation made on the library found 527 unique motifs from 354 durian libraries which form 425 loci. The SSR motifs obtained were generally short repeats which reached 89.6 %, whilst longer repeats were found consisted of compound motifs. Eleven loci were selected as representative for further test to prove their informativity. A number of unique allels were successfully amplified from 17 durian genomes. The analysis showed the polymorphic information content (PIC) values ranged from 0.000 to 0.662 with an average of 0.390. The SSR loci also showed their ability to be used for durian diversity analysis as the evident that the loci could be used as genetic markers for assisting further durian breeding program.

Genetic variation and DNA fingerprinting of durian types in Malaysia using simple sequence repeat (SSR) markers

“…As far as we are aware, this is one of few studies that have used SSR markers to evaluate genetic variation in durian. A study by Santoso et al (2017) reported the development of SSR markers for the study of genetic variation in durian. However, none of the 11 markers reported contained perfect repeat motifs.…”

“…To our knowledge, few studies have used SSR markers to study the genetic variation in durian (e.g., Sales, 2015 ; Santoso et al, 2017 ). In this study, SSR markers were designed from publicly available DNA sequences containing SSR regions, and used to study the genetic variation among major durian types found in Malaysia.…”

Identifikasi Genetik Hasil Grafting Tanaman Durian (Durio zibethinus Murr.) Lokal Menggunakan 8 Primer

“…Identifikasi tentang kebenaran suatu genotipe tanaman menggunakan marka yang tidak terpaut adalah salah satu metode yang bisa digunakan dalam menilai kemurnian benih hibrida serta satu penanda yang polimorfik sudah dapat dikatakan cukup untuk menguji kemurnian benih (Yashitola et al 2002). Penggunaan marka SSR telah dilakukan untuk identifikasi variasi genetik tanaman durian (Sales, 2015), Santoso et al, 2017) dan Siew et al (2018).…”