Genetic Mapping and Characteristics of Genes Specifically or Preferentially Expressed during Fiber Development in Cotton

Abstract

Cotton fiber is an ideal model to study cell elongation and cell wall construction in plants. During fiber development, some genes and proteins have been reported to be specifically or preferentially expressed. Mapping of them will reveal the genomic distribution of these genes, and will facilitate selection in cotton breeding. Based on previous reports, we designed 331 gene primers and 164 protein primers, and used single-strand conformation polymorphism (SSCP) to map and integrate them into our interspecific BC1 linkage map. This resulted in the mapping of 57 loci representing 51 genes or proteins on 22 chromosomes. For those three markers which were tightly linked with quantitative trait loci (QTLs), the QTL functions obtained in this study and gene functions reported in previous reports were consistent. Reverse transcription-polymerase chain reaction (RT-PCR) analysis of 52 polymorphic functional primers showed that 21 gene primers and 17 protein primers had differential expression between Emian22 (Gossypium hirsutum) and 3–79 (G. barbadense). Both RT-PCR and quantitative real-time PCR (qRT-PCR) analyses of the three markers tightly linked with QTLs were consistent with QTL analysis and field experiments. Gene Ontology (GO) categorization revealed that almost all 51 mapped genes belonged to multiple categories that contribute to fiber development, indicating that fiber development is a complex process regulated by various genes. These 51 genes were all specifically or preferentially expressed during fiber cell elongation and secondary wall biosynthesis. Therefore, these functional gene-related markers would be beneficial for the genetic improvement of cotton fiber length and strength.

Characterization of a Novel RING-Type Ubiquitin E3 Ligase GhRING2 Differentially Expressed in Cotton Fiber

“…This hypothesis based on the expression data strongly agrees with the empirical data reported [41]. Similar results were reported [42], who performed RT-PCR analysis of the QTL primers that are preferentially expressed between G. hirsutum Emian22 and G. barbadense 3-79 during fiber development. Expression of FPG012 primer, tightly linked with a QTL marker, reached a peak at 20 DPA in Emian 22, while the expression peak appeared at 25 DPA in 3-79.…”

“…Expression of FPG012 primer, tightly linked with a QTL marker, reached a peak at 20 DPA in Emian 22, while the expression peak appeared at 25 DPA in 3-79. Based on the expression data between the two lines, it was suggested that the delay in gene expression may be responsible for the higher fiber strength of 3-79 than Emian 22 [42]. It is possible that the expression peak of GhRING2 in CS-B25 fiber is not at 20 DPA, but at the late secondary wall synthesis stage.…”

Mapping genomic loci for cotton plant architecture, yield components, and fiber properties in an interspecific (Gossypium hirsutum L. × G. barbadense L.) RIL population

“…To date, several thousands of SSR and SNP markers have been developed in cotton (Blenda et al 2012;Fang and Yu 2012;Guo et al 2007;Lacape et al 2009;Yu et al 2012a) and they have been surveyed for polymorphism against a 12-genotype germplasm standard (diversity panel) of six Gossypium species ). The localization of SSR and SNP markers to all 26 chromosomes and the creation of highdensity genetic maps for the tetraploid cotton genome provide opportunities to identify genetic factors controlling and regulating the expression of traits of interest (Lacape et al 2013;Li et al 2013;Marathi et al 2012;Zhu et al 2011). However, due to the allopolyploid nature of the cotton genome, certain chromosomal structures remain to be resolved.…”

“…Many cotton QTL mapping studies were conducted using either F 2 or BC 1 populations Draye et al 2005;Jiang et al 1998;Kohel et al 2001;Lacape et al 2005;Li et al 2013;Shen et al 2005). These QTL studies also employed either single marker regression without a genetic map or interval mapping with an established linkage group Li et al 2013).…”

“…These QTL studies also employed either single marker regression without a genetic map or interval mapping with an established linkage group Li et al 2013). In some cases, multiple environments were used but QTL analyses were conducted on the basis of individual locations (Lacape et al 2010).…”