Genetic diversity of the Sri Lanka yellow dwarf coconut form as revealed by microsatellite markers

Abstract

ABSTRACT:Sri

Mining and validation of novel genotyping-by-sequencing (GBS)-based simple sequence repeats (SSRs) and their application for the estimation of the genetic diversity and population structure of coconuts (Cocos nucifera L.) in Thailand

“…The SSR markers developed based on this strategy include 296 validated SSR markers available at Tropgenedb (tropgenedb.cirad.fr). The SSR markers from this source have been frequently used in coconut genetic diversity studies 6 , 13 , 41 . Alternatively, with the advancement of next-generation sequencing, NGS-based approaches for identifying a large number of SSR loci have been proposed; for example, RNA sequencing (RNA-seq) analysis identified 6608 gene-based SSR loci from 57,304 unigenes 8 .…”

“…Dwarf coconuts are native to the Pacific region and cultivated worldwide, typically near human dwellings 1 . Tall coconut palms are predominately outcrossing and exhibit varying degrees of heterozygosity, while dwarf palms are normally self-pollinating and present higher levels of homozygosity, showing common morphological characteristics such as dwarf stature due to short internodes and slow growth of height, a slender trunk, a smaller crown, and large numbers of relatively small nuts with a low copra content 6 . Traditionally, genetic diversity assessment in coconut is based on morphological trait characterization and coconut breeding is performed through conventional methods, which are laborious, time consuming, and inefficient due to environmental factors and the limited number of phenotypic markers available 7,8 .…”

Comprehensive Analysis of Metabolome and Transcriptome Reveals the Regulatory Network of Coconut Nutrients

“…Coconut ( Cocos nucifera L.) is a dioecious plant (2n = 2x = 32) with a haploid genome of approximately 2.4 Gb [ 1 , 2 , 3 ], which is native to the coastal regions of Melanesia and Southeast Asia [ 4 ]. According to plant morphology, coconuts can be divided into two subspecies: Cn.…”

Characterisation of Sri Lanka Yellow Dwarf Coconut (Cocos nucifera L.) by DNA fingerprinting with SSR markers

“…In Sri Lanka, coconut has been classified into three varieties as Tall (Typica), Dwarf (Nana) and Intermediate (Aurantiaca), and under these three varieties 13 different forms of coconut were recognised by Liyanage (1958). Later, more forms were added into the varietal classification of coconut in Sri Lanka (Liyanage et al, 1988;Perera et al, 1997; December A recent study reported the morphological nonuniformity of the Sri Lanka Yellow Dwarf (SLYD) coconut population (Kamaral et al, 2014;Perera et al, 2015). Later, in addition to the pure SLYD, a new semi tall coconut phenotype was identified within this population bearing yellow coloured nuts.…”

“…The same studies revealed the presence of coconut phenotypes displaying mixed characters of SLYD and newly identified SLYST. In addition, molecular studies revealed the genetic variation of the coconut population bearing yellow colour coconuts in comparison to Sri Lanka tall, gon thembili tall and green dwarf as reference varieties (Kamaral et al, 2014;Perera et al, 2015).…”