Next Article in Journal
Progress in Direct Seeding of an Alternative Natural Rubber Plant, Taraxacum kok-saghyz (L.E. Rodin)
Next Article in Special Issue
Genome-Wide Identification and Expression Analysis of the Dof Transcription Factor Gene Family in Gossypium hirsutum L.
Previous Article in Journal
Shaping Plant Adaptability, Genome Structure and Gene Expression through Transposable Element Epigenetic Control: Focus on Methylation
Article Menu
Issue 9 (September) cover image

Export Article

Open AccessArticle
Agronomy 2018, 8(9), 181; https://doi.org/10.3390/agronomy8090181

Genome-Wide Mining and Characterization of SSR Markers for Gene Mapping and Gene Diversity in Gossypium barbadense L. and Gossypium darwinii G. Watt Accessions

1
State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, China
2
Plant Breeding and Genetics Division, Cotton Group, Nuclear Institute for Agriculture and Biology (NIAB), Jhang Road, Faisalabad 38000, Punjab, Pakistan
3
Hamelmalo Agricultural College, Keren P.O. Box 397, Eritrea
These authors contributed equally.
*
Authors to whom correspondence should be addressed.
Received: 4 August 2018 / Revised: 1 September 2018 / Accepted: 10 September 2018 / Published: 12 September 2018
(This article belongs to the Special Issue Cotton Breeding, Genetics and Genomics)
Full-Text   |   PDF [4371 KB, uploaded 12 September 2018]   |  

Abstract

The present study aimed to characterize the simple sequence repeat markers in cotton using the cotton expressed sequence tags. A total of 111 EST-SSR polymorphic molecular markers with trinucleotide motifs were used to evaluate the 79 accessions of Gossypium L., (G. darwinii, 59 and G. barbadense, 20) collected from the Galapagos Islands. The allele number ranged from one to seven, with an average value of 2.85 alleles per locus, while polymorphism information content values varied from 0.008 to 0.995, with an average of 0.520. The discrimination power ranks high for the majority of the SSRs, with an average value of 0.98. Among 111 pairs of EST-SSRs and gSSRs, a total of 49 markers, comprising nine DPLs, one each of MonCGR, MUCS0064, and NAU1028, and 37 SWUs (D-genome), were found to be the best matched hits, similar to the 155 genes identified by BLASTx in the reference genome of G. barbadense, G. arboreum L., and G. raimondii Ulbr. Related genes GOBAR_DD21902, GOBAR_DD15579, GOBAR_DD27526, and GOBAR_AA04676 revealed highly significant expression 10, 15, 18, 21, and 28 days post-anthesis of fiber development. The identified EST-SSR and gSSR markers can be effectively used for mapping functional genes of segregating cotton populations, QTL identification, and marker-assisted selection in cotton breeding programs. View Full-Text
Keywords: SSR markers; Gossypium accessions; genes; gene diversity; polymorphism information content and discrimination power SSR markers; Gossypium accessions; genes; gene diversity; polymorphism information content and discrimination power
Figures

Figure 1

This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

Supplementary material

SciFeed

Share & Cite This Article

MDPI and ACS Style

Ditta, A.; Zhou, Z.; Cai, X.; Shehzad, M.; Wang, X.; Okubazghi, K.W.; Xu, Y.; Hou, Y.; Sajid Iqbal, M.; Khan, M.K.R.; Wang, K.; Liu, F. Genome-Wide Mining and Characterization of SSR Markers for Gene Mapping and Gene Diversity in Gossypium barbadense L. and Gossypium darwinii G. Watt Accessions. Agronomy 2018, 8, 181.

Show more citation formats Show less citations formats

Note that from the first issue of 2016, MDPI journals use article numbers instead of page numbers. See further details here.

Related Articles

Article Metrics

Article Access Statistics

1

Comments

[Return to top]
Agronomy EISSN 2073-4395 Published by MDPI AG, Basel, Switzerland RSS E-Mail Table of Contents Alert
Back to Top