scholarly journals Quantitative Trait Locus Analysis and Identification of Candidate Genes for Micronaire in an Interspecific Backcross Inbred Line Population of Gossypium hirsutum × Gossypium barbadense

2021 ◽  
Vol 12 ◽  
Author(s):  
Wenfeng Pei ◽  
Jikun Song ◽  
Wenkui Wang ◽  
Jianjiang Ma ◽  
Bing Jia ◽  
...  
Keyword(s):  
Gossypium Hirsutum ◽  
Candidate Genes ◽  
Quantitative Trait ◽  
Textile Industry ◽  
Upland Cotton ◽  
Fiber Quality ◽  
Interspecific Cross ◽  
Field Tests ◽  
Gossypium Barbadense ◽  
Snp Markers

Cotton is the most important fiber crop and provides indispensable natural fibers for the textile industry. Micronaire (MIC) is determined by fiber fineness and maturity and is an important component of fiber quality. Gossypium barbadense L. possesses long, strong and fine fibers, while upland cotton (Gossypium hirsutum L.) is high yielding with high MIC and widely cultivated worldwide. To identify quantitative trait loci (QTLs) and candidate genes for MIC in G. barbadense, a population of 250 backcross inbred lines (BILs), developed from an interspecific cross of upland cotton CRI36 × Egyptian cotton (G. barbadense) Hai7124, was evaluated in 9 replicated field tests. Based on a high-density genetic map with 7709 genotyping-by-sequencing (GBS)-based single-nucleotide polymorphism (SNP) markers, 25 MIC QTLs were identified, including 12 previously described QTLs and 13 new QTLs. Importantly, two stable MIC QTLs (qMIC-D03-2 on D03 and qMIC-D08-1 on D08) were identified. Of a total of 338 genes identified within the two QTL regions, eight candidate genes with differential expression between TM-1 and Hai7124 were identified. Our research provides valuable information for improving MIC in cotton breeding.

scholarly journals Quantitative Trait Loci and Transcriptome Analysis Reveal Genetic Basis of Fiber Quality Traits in CCRI70 RIL Population of Gossypium hirsutum

2021 ◽  
Vol 12 ◽  
Author(s):  
Xiao Jiang ◽  
Juwu Gong ◽  
Jianhong Zhang ◽  
Zhen Zhang ◽  
Yuzhen Shi ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Gossypium Hirsutum ◽  
Transcriptome Analysis ◽  
Quantitative Trait ◽  
Upland Cotton ◽  
Fiber Quality ◽  
Quality Traits ◽  
High Quality ◽  
Fiber Quality Traits ◽  
Ril Population

Upland cotton (Gossypium hirsutum) is widely planted around the world for its natural fiber, and producing high-quality fiber is essential for the textile industry. CCRI70 is a hybrid cotton plant harboring superior yield and fiber quality, whose recombinant inbred line (RIL) population was developed from two upland cotton varieties (sGK156 and 901-001) and were used here to investigate the source of high-quality related alleles. Based on the material of the whole population, a high-density genetic map was constructed using specific locus-amplified fragment sequencing (SLAF-seq). It contained 24,425 single nucleotide polymorphism (SNP) markers, spanning a distance of 4,850.47 centimorgans (cM) over 26 chromosomes with an average marker interval of 0.20 cM. In evaluating three fiber quality traits in nine environments to detect multiple environments stable quantitative trait loci (QTLs), we found 289 QTLs, of which 36 of them were stable QTLs and 18 were novel. Based on the transcriptome analysis for two parents and two RILs, 24,941 unique differentially expressed genes (DEGs) were identified, 473 of which were promising genes. For the fiber strength (FS) QTLs, 320 DEGs were identified, suggesting that pectin synthesis, phenylpropanoid biosynthesis, and plant hormone signaling pathways could influence FS, and several transcription factors may regulate fiber development, such as GAE6, C4H, OMT1, AFR18, EIN3, bZIP44, and GAI. Notably, the marker D13_56413025 in qFS-chr18-4 provides a potential basis for enhancing fiber quality of upland cotton via marker-assisted breeding and gene cloning of important fiber quality traits.

scholarly journals Genome-wide quantitative trait loci mapping on Verticillium wilt resistance in 300 chromosome segment substitution lines from Gossypium hirsutum × Gossypium barbadense

2021 ◽  
Author(s):  
Md Harun or Rashid ◽  
Peng-tao Li ◽  
Ting-ting Chen ◽  
Koffi Kibalou Palanga ◽  
Wan-kui Gong ◽  
...  
Keyword(s):  
Gossypium Hirsutum ◽  
Verticillium Wilt ◽  
Quantitative Trait ◽  
Molecular Mechanisms ◽  
Fiber Quality ◽  
Gossypium Barbadense ◽  
Chromosome Segment ◽  
Substitution Lines ◽  
Chromosome Segment Substitution Lines ◽  
Segment Substitution

Abstract Cotton Verticillium wilt (VW) is a devastating disease seriously affecting fiber yield and quality, and the most effective and economical prevention measure at present is selection and extension of Gossypium varieties harboring high resistance to VW. However, multiple attempts to improve the VW resistance of the most widely cultivated upland cottons have made little significant progress. The introduction of chromosome segment substitution lines (CSSLs) provide the practical solutions for merging the superior genes related with high yield and wide adaptation from Gossypium hirsutum and VW resistance and the excellent fiber quality from Gossypium barbadense. In this study, 300 CSSLs were chosen from the developed BC5F3:5 CSSLs constructed from CCRI36 (G. hirsutum) and Hai1 (G. barbadense) to conduct quantitative trait locus (QTL) mapping of VW resistance, and a total of 40 QTL relevant to VW disease index (DI) were identified. Phenotypic data were obtained from a 2-year investigation in two fields with two replications per year. All the QTL were distributed on 21 chromosomes, with phenotypic variation of 1.05%–10.52%, and 21 stable QTL were consistent in at least two environments. Based on a meta-analysis, 34 novel QTL were identified, while 6 loci were consistent with previously identified QTL. Meanwhile, 70 QTL hotspot regions were detected, including 44 novel regions. This study concentrates on QTL identification and screening for hotspot regions related with VW in the 300 CSSLs, and the results lay a solid foundation not only for revealing the genetic and molecular mechanisms of VW resistance but also for further fine mapping, gene cloning and molecular designing in breeding programs for resistant cotton varieties.

Construction of genetic map and QTL analysis of fiber quality traits for Upland cotton (Gossypium hirsutum L.)

Euphytica ◽  
2014 ◽  
Vol 201 (2) ◽  
pp. 195-213 ◽  
Author(s):  
Shiyi Tang ◽  
Zhonghua Teng ◽  
Tengfei Zhai ◽  
Xiaomei Fang ◽  
Fang Liu ◽  
...  
Keyword(s):  
Gossypium Hirsutum ◽  
Genetic Map ◽  
Qtl Analysis ◽  
Upland Cotton ◽  
Fiber Quality ◽  
Quality Traits ◽  
Gossypium Hirsutum L ◽  
Fiber Quality Traits

scholarly journals A Fine mapping quantitative trait loci that underlie resistance to soybean sudden death syndrome using NILs and SNPs.

2018 ◽  
pp. 583-591
Author(s):  
Yi Chen Lee ◽  
M Javed Iqbal ◽  
Victor N Njiti ◽  
Stella Kantartzi ◽  
David A. Lightfoot
Keyword(s):  
Quantitative Trait Loci ◽  
Sudden Death ◽  
Candidate Genes ◽  
Quantitative Trait ◽  
Soybean Cyst Nematode ◽  
Snp Markers ◽  
Sudden Death Syndrome ◽  
Isogenic Line ◽  
Trait Loci ◽  
Glycine Max L

Soybean (Glycine max (L.) Merr.) cultivars differ in their resistance to sudden death syndrome (SDS), caused by Fusarium virguliforme. Breeding for improving SDS response has been challenging, due to interactions among the 18-42 known resistance loci. Four quantitative trait loci (QTL) for resistance to SDS (cqRfs–cqRfs3) were clustered within 20 cM of the rhg1 locus underlying resistance to soybean cyst nematode (SCN) on Chromosome (Chr.) 18. Another locus on Chr. 20 (cqRfs5) was reported to interact with this cluster. The aims here were to compare the inheritance of resistance to SDS in a near isogenic line (NIL) population that was fixed for resistance to SCN but segregated at two of the four loci (cqRfs1 and cqRfs) for SDS resistance; to examine the interaction with the locus on Chr. 20; and to identify candidate genes underlying QTL. Used were; a NIL population derived from residual heterozygosity in an F5:7 recombinant inbred line EF60 (lines 1-38); SDS response data from two locations and years; four segregating microsatellite and 1,500 SNP markers. Polymorphic regions were found from 2,788 Kbp to 8,938 Kbp on Chr. 18 and 33,100 Kbp to 34,943 Kbp on Chr. 20 that were significantly (0.005 < P > 0.0001) associated with resistance to SDS. The QTL fine maps suggested that the two loci on Chr. 18 were three loci (cqRfs1, cqRfs, and cqRfs19). Candidate genes were inferred.  An epistatic interaction was inferred between Chr. 18 and Chr. 20 loci. Therefore, SDS resistance QTL were both complex and interacting.

Photosynthetic Rate, Stomatal Conductance and Leaf Area in Two Cotton Species (Gossypium barbadense and Gossypium hirsutum) and their Relation with Heat Resistance and Yield

1997 ◽  
Vol 24 (5) ◽  
pp. 693 ◽  
Author(s):  
Zhenmin Lu ◽  
Jiwei Chen ◽  
Richard G. Percy ◽  
Eduardo Zeiger
Keyword(s):  
Stomatal Conductance ◽  
Gossypium Hirsutum ◽  
Heat Resistance ◽  
Leaf Area ◽  
Photosynthetic Rate ◽  
Upland Cotton ◽  
Gossypium Barbadense ◽  
Lint Yield ◽  
Historical Series ◽  
Field And Laboratory Conditions

Gossypium barbadense L. (Pima) and Gossypium hirsutum L. (upland) cottons are the two major fibre producing species grown in the south-western United States, where lint yields are adversely affected by high temperatures. In these environments, heat-adapted upland cultivars show higher yields and heat resistance than advanced Pima cultivars. Recent studies with an historical series of commercial Pima cultivars have shown that increases in lint yield and heat resistance are tightly coupled to increases in stomatal conductance and photosynthetic rate, and to decreases in leaf area. In the present study, Pima S-6 and Pima S-7 (advanced Pima cultivars) and Deltapine 90 (advanced upland cultivar) were compared under field and laboratory conditions to determine whether the physiological and morphological gradients found in the Pima historical series extrapolate to upland cotton. In the field, Deltapine 90 showed 25–35% higher stomatal conductance, 35–50% higher photosynthetic rate and 45% smaller leaf area than Pima S-6. The higher photosynthetic rate and stomatal conductance of Deltapine 90 leaves were partially related to their sun-tracking ability. In gas exchange experiments that prevented sun-tracking, the two cultivars had comparable photosynthetic rate as a function of incident radiation, while stomatal conductance was higher in upland cotton. In the 25–35°C range, photosynthetic rate as a function of temperature remained nearly constant in both cultivars, and was higher in upland cotton at all temperatures. Stomatal conductance showed a strong temperature-dependence, and conductance value and the slope of the stomatal response to temperature were higher in Deltapine 90. In progeny from a cross between Deltapine 90 and Pima S-7, the segregation of stomatal conductance in F1 and F2 populations showed a clear genetic component. These results indicate that the differences in photosynthetic rate, stomatal conductance and leaf area associated with increases in lint yield and heat resistance in the Pima historical series are also evident in a comparison between advanced cultivars of upland and Pima cotton. Upland cotton could be used as a source of genetic variation for high stomatal conductance in Pima breeding programs.

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