QTL and genetic analysis controlling fiber quality traits using paternal backcross population in Upland Cotton

ABSTRACTIn present study, F14 recombinant inbred line (RIL) population was backcrossed to paternal parent for a paternal backcross (BC/P) population, deriving from one Upland cotton hybrid. Three repetitive BC/P field trials and one BC/M field trial were performed including both two BC populations and the original RIL population. Totally, for fiber quality traits, 24 novel QTLs were detected and 13 QTLs validated previous results. And 19 quantitative trait loci (QTL) in BC/P populations explained 5.01% - 22.09% of phenotype variation (PV). Among the 19 QTLs, three QTLs were detected simultaneously in BC/M population. The present study provided novel alleles of male parent for fiber quality traits with positive genetic effects. Particularly, qFS-Chr3-1 controlling fiber strength explained 22.09% of PV in BC/P population, which increased 0.48 cN/tex for fiber strength. A total of seven, two, eight, two and six QTLs explained over 10.00% of PV for fiber length, fiber uniformity, fiber strength, fiber elongation and fiber micronaire, respectively. In the RIL population, six common QTLs detected in more than one environment such as qFL-Chr1-2, qFS-Chr5-1, qFS-Chr9-1, qFS-Chr21-1, qFM-Chr9-1 and qFM-Chr9-2. Two common QTLs of qFE-Chr2-2 (TMB2386-SWU12343) and qFM-Chr9-1 (NAU2873-CGR6771) explained 22.42% and 21.91% of PV. In addition, a total of 142 and 46 epistatic QTLs and QTL × environments (E-QTLs and QQEs) were identified in RIL-P and BC/P populations, respectively.

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QTL and genetic analysis controlling fiber quality traits using paternal backcross population in upland cotton

Journal of Cotton Research ◽

10.1186/s42397-020-00060-6 ◽

2020 ◽

Vol 3 (1) ◽

Author(s):

LingLing MA ◽

Ying SU ◽

Hushuai NIE ◽

Yupeng CUI ◽

Cheng CHENG ◽

...

Keyword(s):

Genetic Analysis ◽

Upland Cotton ◽

Fiber Quality ◽

Quality Traits ◽

Backcross Population ◽

Fiber Quality Traits

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

G3 Genes|Genome|Genetics ◽

10.1534/g3.120.401125 ◽

2020 ◽

Vol 10 (7) ◽

pp. 2377-2384

Author(s):

Qi Chen ◽

Wei Wang ◽

Caixiang Wang ◽

Mi Zhang ◽

Jiwen Yu ◽

...

Keyword(s):

Fiber Strength ◽

Fiber Quality ◽

Selective Genotyping ◽

Small Subset ◽

Experimental Population ◽

Quality Traits ◽

Backcross Population ◽

Fiber Quality Traits ◽

Advanced Backcross ◽

Trait Associations

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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QTLs Analysis and Validation for Fiber Quality Traits Using Maternal Backcross Population in Upland Cotton

Frontiers in Plant Science ◽

10.3389/fpls.2017.02168 ◽

2017 ◽

Vol 8 ◽

Cited By ~ 15

Author(s):

Lingling Ma ◽

Yanpeng Zhao ◽

Yumei Wang ◽

Lianguang Shang ◽

Jinping Hua

Keyword(s):

Upland Cotton ◽

Fiber Quality ◽

Quality Traits ◽

Backcross Population ◽

Fiber Quality Traits

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

Frontiers in Plant Science ◽

10.3389/fpls.2021.753755 ◽

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.

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QTL controlling fiber quality traits under salt stress in upland cotton (Gossypium hirsutum L.)

Theoretical and Applied Genetics ◽

10.1007/s00122-020-03721-x ◽

2021 ◽

Author(s):

An-hui Guo ◽

Ying Su ◽

Yi Huang ◽

Yu-mei Wang ◽

Hu-shuai Nie ◽

...

Keyword(s):

Salt Stress ◽

Fatty Acid ◽

Gossypium Hirsutum ◽

Salinity Stress ◽

Upland Cotton ◽

Fiber Length ◽

Fiber Strength ◽

Fiber Quality ◽

Quality Traits ◽

Fiber Quality Traits

Abstract Key message QTL for fiber quality traits under salt stress discerned candidate genes controlling fatty acid metabolism. Abstract Salinity stress seriously affects plant growth and limits agricultural productivity of crop plants. To dissect the genetic basis of response to salinity stress, a recombinant inbred line population was developed to compare fiber quality in upland cotton (Gossypium hirsutum L.) under salt stress and normal conditions. Based on three datasets of (1) salt stress, (2) normal growth, and (3) the difference value between salt stress and normal conditions, 51, 70, and 53 QTL were mapped, respectively. Three QTL for fiber length (FL) (qFL-Chr1-1, qFL-Chr5-5, and qFL-Chr24-4) were detected under both salt and normal conditions and explained 4.26%, 9.38%, and 3.87% of average phenotypic variation, respectively. Seven genes within intervals of two stable QTL (qFL-Chr1-1 and qFL-Chr5-5) were highly expressed in lines with extreme long fiber. A total of 35 QTL clusters comprised of 107 QTL were located on 18 chromosomes and exhibited pleiotropic effects. Thereinto, two clusters were responsible for improving five fiber quality traits, and 6 influenced FL and fiber strength (FS). The QTL with positive effect for fiber length exhibited active effects on fatty acid synthesis and elongation, but the ones with negative effect played passive roles on fatty acid degradation under salt stress.

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