Quantitative trait locus analysis of Verticillium wilt resistance in an introgressed recombinant inbred population of Upland cotton

Fang, Hui; Zhou, Huiping; Sanogo, Soum; Lipka, Alexander E.; Fang, David D.; Percy, Richard G.; Hughs, S. E.; Jones, Don C.; Gore, Michael A.; Zhang, Jinfa

doi:10.1007/s11032-013-9987-9

Cited by 42 publications

(43 citation statements)

References 35 publications

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“…It had an average distance of 18.61 cM per marker and covered 1842.8 cM or approximately 36.8 % of the tetraploid cotton genome. Fang et al constructed a genetic linkage map with 882 marker loci using the RIL population of TM-1 × NM24016 [16]. It had an average distance of 7.06 cM per marker and covered 2267 cM, which is an estimated 55.7 % of the total recombination length of the tetraploid cotton genome.…”

Section: Discussionmentioning

confidence: 99%

“…In the previous reports, most of these linkage maps used to identify QTLs associated with VW resistance had no more than 2000 SSR markers and covered less than 60 % of the cotton genome [2, 15, 16, 19, 22–24]. It is difficult to identify more QTLs for VW resistance from G. barbadense using the limited number of markers and low coverage of the whole cotton genome.…”

Section: Discussionmentioning

confidence: 99%

“…Recently, Said et al reported a meta QTL analyses and established CottonQTLdb database containing 2274 QTL for 66 different QTL trait types [34], including 139 QTLs of VW resistance from nine published papers [15, 16, 18, 19, 24–28]. We got the VW resistance QTL mapping information including their names and CI provided by Said et al [34].…”

Section: Methodsmentioning

confidence: 99%

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Quantitative trait loci analysis of Verticillium wilt resistance in interspecific backcross populations of Gossypium hirsutum × Gossypium barbadense

et al. 2016

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Background Verticillium wilt (VW) caused by Verticillium dahliae (Kleb) is one of the most destructive diseases of cotton. The identification of highly resistant QTLs or genes in the whole cotton genome is quite important for developing a VW-resistant variety and for further molecular design breeding.ResultsIn the present study, BC1F1, BC1S1, and BC2F1 populations derived from an interspecific backcross between the highly resistant line Hai1 (Gossypium barbadense L.) and the susceptible variety CCRI36 (G. hirsutum L.) as the recurrent parent were constructed. Quantitative trait loci (QTL) related to VW resistance were detected in the whole cotton genome using a high-density simple sequence repeat (SSR) genetic linkage map from the BC1F1 population, with 2292 loci covering 5115.16 centiMorgan (cM) of the cotton (AD) genome, and the data concerning VW resistance that were obtained from four dates of BC2F1 in the artificial disease nursery and one date of BC1S1 and BC2F1 in the field. A total of 48 QTLs for VW resistance were identified, and 37 of these QTLs had positive additive effects, which indicated that the G. barbadense alleles increased resistance to VW and decreased the disease index (DI) by about 2.2–10.7. These QTLs were located on 19 chromosomes, in which 33 in the A subgenome and 15 QTLs in the D subgenome. The 6 QTLs were found to be stable. The 6 QTLs were consistent with those identified previously, and another 42 were new, unreported QTLs, of which 31 QTLs were from G. barbadense. By meta-analysis, 17 QTL hotspot regions were identified and 10 of them were new, unreported hotspot regions. 29 QTLs in this paper were in 12 hotspot regions and were all from G. barbadense.ConclusionsThese stable or consensus QTL regions warrant further investigation to better understand the genetics and molecular mechanisms underlying VW resistance. This study provides useful information for further comparative analysis and marker-assisted selection in the breeding of disease-resistant cotton. It may also lay an important foundation for gene cloning and further molecular design breeding for the entire cotton genome.Electronic supplementary materialThe online version of this article (doi:10.1186/s12864-016-3128-x) contains supplementary material, which is available to authorized users.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

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Quantitative trait loci analysis of Verticillium wilt resistance in interspecific backcross populations of Gossypium hirsutum × Gossypium barbadense

et al. 2016

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“…It is being commonly mediated by a plethora of rapidly evolving protein receptors, which are containing ligand-binding and signal transduction domains, such as LRRs and NB-ARC domains, respectively (Perazzolli et al 2014;Sekhwal et al 2015). The development through molecular breeding of fungal resistant genotypes is crucial towards the substantial establishment of fungal diseases management strategies (Ganopoulos et al 2011), especially in upland cotton with a complex allotetraploid genome (Fang et al 2014) being recently available .…”

Section: Resultsmentioning

confidence: 99%

“…Complete resistant upland cotton cultivars against Fov isolates are not reported till date. Nevertheless, numerous efforts have been previously made for assisting disease resistance breeding programs (Fang et al 2014;Hinchliffe et al 2005;Niu et al 2011), mainly by means of cloning segments of putative disease resistance (R) genes known as resistance gene analogues (RGAs).…”

Section: Introductionmentioning

confidence: 99%

Identification and evidence of positive selection upon resistance gene analogs in cotton (Gossypium hirsutum L.)

Zambounis

Ganopoulos

Kalivas³

et al. 2016

Physiol Mol Biol Plants

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Abstracts Upland cotton (Gossypium hirsutum L.) is an important fiber crop species, which is intensively plagued by a plethora of phytopathogenic fungi such as Fusarium oxysporum f. sp. vasinfectum (Fov) causing severe wilt disease. Resistance gene analogs (RGAs) are the largest class of potential resistance (R) genes depicting highly conserved domains and structures in plants. Additionally, RGAs are pivotal components of breeding projects towards host disease resistance, serving as useful functional markers linked to R genes. In this study, a cloning approach based on conserved RGAs motifs was used in order to amplify 38 RGAs from two upland cotton cultivars differing in their Fov susceptibility. Besides, we assessed the phylogenetic expansion and the evolutionary pressures acting upon 127 RGA homologues, which were previously deposited in GenBank along with the 38 RGAs from this study. A total of 165 RGAs sequences were clustered according to their BLAST(P) similarities in ten paralogous genes groups (PGGs). These RGAs exhibited intensive signs of positive selection as it was revealed by inferring various maximum likelihood analyses. The results showed robust signs of positive selection, acting in almost all PGGs across the phylogeny. The evolutionary analysis revealed the existence of 42 positively selected residue sites across the PGG lineages, putatively affecting their ligand-binding specificities. As RGAs derived markers are in close linkage to R genes, these results could be used in ongoing breeding programs of upland cotton.

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Disease Resistance in Cotton

Zhang

Boopathi

2022

Genomic Designing for Biotic Stress Resistant Technical Crops

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Quantitative trait locus analysis of Verticillium wilt resistance in an introgressed recombinant inbred population of Upland cotton

Cited by 42 publications

References 35 publications

Quantitative trait loci analysis of Verticillium wilt resistance in interspecific backcross populations of Gossypium hirsutum × Gossypium barbadense

Quantitative trait loci analysis of Verticillium wilt resistance in interspecific backcross populations of Gossypium hirsutum × Gossypium barbadense

Identification and evidence of positive selection upon resistance gene analogs in cotton (Gossypium hirsutum L.)

Disease Resistance in Cotton

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