Linkage map construction and mapping QTL for cotton fibre quality using SRAP, SSR and RAPD

Abstract

Tetraploid cotton is one of the most extensively cultivated species. Two tetraploid species, Gossypium hirsutum L. and G. barbadense L., dominate the world's cotton production. To better understand the genetic basis of cotton fibre traits for the improvement of fibre quality, a genetic linkage map of tetraploid cotton was constructed using sequence-related amplified polymorphisms (SRAPs), simple sequence repeats (SSRs) and random amplified polymorphic DNAs (RAPDs). A total of 238 SRAP primer combinations, 368 SSR primer pairs and 600 RAPD primers were used to screen polymorphisms between G. hirsutum cv. Handan208 and G. barbadense cv. Pima90 which revealed 749 polymorphic loci in total (205 SSRs, 107 RAPDs and 437 SRAPs). Sixty-nine F 2 progeny from the interspecific cross of ÔHandan208Õ · ÔPima90Õ were genotyped with the 749 polymorphic markers. A total of 566 loci were assembled into 41 linkage groups with at least three loci in each group. Twenty-eight linkage groups were assigned to corresponding chromosomes by SSR markers with known chromosome locations. The map covered 5141.8 cM with a mean interlocus space of 9.08 cM. A v 2 test for significance of deviations from the expected ratio (1 : 2 : 1 or 3 : 1) identified 135 loci (18.0%) with skewed segregation, most of which had an excess of maternal parental alleles. In total, 13 QTL associated with fibre traits were detected, among which two QTL were for fibre strength, four for fibre length and seven for micronaire value. These QTL were on nine linkage groups explaining 16.18-28.92% of the trait variation. Six QTL were located in the A subgenome, six QTL in the D subgenome and one QTL in an unassigned linkage group. There were three QTL for micronaire value clustered on LG1, which would be very useful for improving this trait by molecular marker-assisted selection.

Genetic diversity assessment using simple sequence repeats (SSR) and sequence-related amplified polymorphism (SRAP) markers in ramie

“…[30] The SRAP technology has been widely used in genetic identification of many crops, including cotton, [31] kenaf [27] and sugarcane. [32] SSR and SRAP markers have been applied for genetic relationship identification in ramie.…”

Evaluation of SRAP markers for mapping of Pisum sativum L.

“…Since its development, SRAP has been employed in a wide range of plant species for genetic diversity estimation , Espósito et al 2007, Aneja et al 2012, gene tagging (Martin et al 2008, Zhang et al 2010, and map construction (Lin et al 2005, Sun et al 2007, Wang et al 2008, Martin et al 2013. The aim of the current study was to evaluate the usefulness of SRAP markers in the development of a genetic linkage map of Pisum sativum L.…”

QTL mapping of some productivity and fibre traits in Gossypium arboreum

“…Despite the fact that the G. arboreum genome has not been extensively utilised for QTL mapping, QTLs controlling fibre traits have also been identified and mapped to progenitor subgenomes At and Dt (Jiang et al, 1998;Han et al, 2004;Mei et al, 2004;Lin et al, 2005).…”