Development of EST-SSR markers related to disease resistance and their application in genetic diversity and evolution analysis in Gossypium

Wang, B.H.; Rong, P.; Cai, X.X.; Wang, W.; Zhu, X.Y.; Chen, C.J.; Xu, Y.Y.; Huang, X.J.; Zhuang, Zhimin; Wang, C.B.

doi:10.4238/2015.september.9.4

Cited by 3 publications

(3 citation statements)

References 35 publications

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“…These species are both island endemics, and typically reside near coastlines with similar environments ( G. darwinii is endemic to the Galapagos Islands, Wendel and Percy 1990 ; G. tomentosum is endemic to the Hawaiian Islands, DeJoode and Wendel 1992 ). Close relationships between these two island-endemic species has also been revealed in previous research ( Wang et al 2015 ).…”

Section: Discussionsupporting

confidence: 81%

A Genetic Map BetweenGossypium hirsutumand the Brazilian EndemicG. mustelinumand Its Application to QTL Mapping

Wang

Liu

Zhang

et al. 2016

G3 Genes|Genomes|Genetics

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Among the seven tetraploid cotton species, little is known about transmission genetics and genome organization in Gossypium mustelinum, the species most distant from the source of most cultivated cotton, G. hirsutum. In this research, an F2 population was developed from an interspecific cross between G. hirsutum and G. mustelinum (HM). A genetic linkage map was constructed mainly using simple sequence repeat (SSRs) and restriction fragment length polymorphism (RFLP) DNA markers. The arrangements of most genetic loci along the HM chromosomes were identical to those of other tetraploid cotton species. However, both major and minor structural rearrangements were also observed, for which we propose a parsimony-based model for structural divergence of tetraploid cottons from common ancestors. Sequences of mapped markers were used for alignment with the 26 scaffolds of the G. hirsutum draft genome, and showed high consistency. Quantitative trait locus (QTL) mapping of fiber elongation in advanced backcross populations derived from the same parents demonstrated the value of the HM map. The HM map will serve as a valuable resource for QTL mapping and introgression of G. mustelinum alleles into G. hirsutum, and help clarify evolutionary relationships between the tetraploid cotton genomes.

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Section: Discussionsupporting

confidence: 81%

A Genetic Map BetweenGossypium hirsutumand the Brazilian EndemicG. mustelinumand Its Application to QTL Mapping

Wang

Liu

Zhang

et al. 2016

G3 Genes|Genomes|Genetics

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“…In addition, developing gSSR markers is complex, difficult, and costly (Wang et al, 2010). With the development of sequencing technology, ESTSSRs have been successfully applied in various crops, such as Gossypium (Wang et al, 2015), grape (Scott et al, 2000), coffee (Combes et al, 2000), rubber tree (Feng et al, 2009), and tomato (Zhou et al, 2015). Because there are few available public sequence databases for black pepper or closely related species, it is difficult to develop gSSR primers (Joy et al, 2011).…”

Section: Discussionmentioning

confidence: 99%

Genetic diversity in the germplasm of black pepper determined by EST-SSR markers

Fan

et al. 2016

Genet. Mol. Res.

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ABSTRACT. This study aimed to assess genetic diversity in the germplasm of black pepper from around the world using SSR markers from EST. In total, 13 markers were selected and successfully amplified the target loci across the black pepper germplasm. All the EST-SSR markers showed high levels of polymorphisms with an average polymorphism information content of 0.93. The genetic similarity coefficients among all accessions ranged from 0.724 to 1.000, with an average of 0.867. These results indicated that black pepper germplasms possess a complex genetic background and high genetic diversity. Based on a cluster analysis, 148 black pepper germplasms were grouped in two major clades: the Neotropics and the Asian tropics. Peperomia pellucida was grouped separately and distantly from all other accessions. These results generally agreed with the genetic and geographic distances. However, the Asian tropics clade did not cluster according to their geographic origins. In addition, compared with the American accessions, the Asian wild accessions and cultivated accessions grouped together, indicating a close genetic relationship. This verified the

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“…Therefore, only 50% of the segregating loci were homozygous while the remaining 50% continued to segregate. To provide a more accurate genetic composition of each IL, a total of 1,629 pairs of SSR primers, including 391 selected from our previous research ( Wang et al 2016a , b ), 238 EST-SSR primers from the NTU series developed by our laboratory ( Wang et al 2014 , 2015 ), and 1,000 CICR primers developed by Institute of Cotton Research Institute of CAAS, were chosen to screen for polymorphisms between PD94042 and G. mustelinum . Polymorphic markers between the two parents were used to scan the IL population.…”

Section: Methodsmentioning

confidence: 99%

Validation of QTLs for Fiber Quality Introgressed from Gossypium mustelinum by Selective Genotyping

Chen

Wang²,

Wang

et al. 2020

G3 Genes|Genomes|Genetics

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Gene introgression from wild species has been shown to be a feasible approach for fiber quality improvement in Upland cotton. Previously, we developed an interspecific G. mustelinum × G. hirsutum advanced-backcross population and mapped over one hundred QTL for fiber quality traits. In the current study, a trait-based selective genotyping approach was utilized to prioritize a small subset of introgression lines with high phenotypic values for different fiber quality traits, to simultaneously validate multiple fiber quality QTL in a single experiment. A total of 75 QTL were detected by CIM and/or single-marker analysis, including 11 significant marker-trait associations (P < 0.001) and three putative associations (P < 0.005) also reported in earlier studies. The QTL that have been validated include three each for fiber length, micronaire, and elongation, and one each for fiber strength and uniformity. Collectively, about 10% of the QTL previously reported have been validated here, indicating that selective genotyping has the potential to validate multiple marker-trait associations for different traits, especially those with a moderate to large-effect detected simultaneously in one experimental population. The G. mustelinum alleles contributed to improved fiber quality for all validated loci. The results from this study will lay the foundation for further fine mapping, marker-assisted selection and map-based gene cloning.

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Development of EST-SSR markers related to disease resistance and their application in genetic diversity and evolution analysis in Gossypium

Cited by 3 publications

References 35 publications

A Genetic Map BetweenGossypium hirsutumand the Brazilian EndemicG. mustelinumand Its Application to QTL Mapping

A Genetic Map BetweenGossypium hirsutumand the Brazilian EndemicG. mustelinumand Its Application to QTL Mapping

Genetic diversity in the germplasm of black pepper determined by EST-SSR markers

Validation of QTLs for Fiber Quality Introgressed from Gossypium mustelinum by Selective Genotyping

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