Genome-wide association study reveals that GhTRL1 and GhPIN8 affect cotton root development

Cui, Ziqian; Liu, Shaodong; Ge, Changwei; Shen, Qian; Zhang, Siping; Ma, Huijuan; Liu, Ruihua; Zhao, Xinhua; Liu, Ruida; Li, Pengzhen; Wang, Hongchen; Wu, Qidi; Pang, Chaoyou; Chen, Jing

doi:10.1007/s00122-022-04177-x

Cited by 3 publications

(2 citation statements)

References 74 publications

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“…However, plant root systems are difficult to phenotype, resulting in a larger number of studies for annual crops, which have smaller root systems, than for perennials. Root traits have been shown to have a moderate-to-high heritability and coefficient of variation in cotton (Cui et al 2022 ) and in several cereal crops, including maize seedlings (Pace et al 2015 ; Sanchez et al 2018 ), barley (Reinert et al 2016 ; Abdel-Ghani et al 2019 ), and rice (Courtois et al 2013 ; Biscarini et al 2016 ; Phung et al 2016 ).…”

Section: Discussionmentioning

confidence: 99%

Dissecting the genetic architecture of root-related traits in a grafted wild Vitis berlandieri population for grapevine rootstock breeding

Blois,

de Miguel,

Bert

et al. 2023

Theor Appl Genet

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In woody perennial plants, quantitative genetics and association studies remain scarce for root-related traits, due to the time required to obtain mature plants and the complexity of phenotyping. In grapevine, a grafted cultivated plant, most of the rootstocks used are hybrids between American Vitis species (V. rupestris, V. riparia, and V. berlandieri). In this study, we used a wild population of an American Vitis species (V. berlandieri) to analyze the genetic architecture of the root-related traits of rootstocks in a grafted context. We studied a population consisting of 211 genotypes, with one to five replicates each (n = 846 individuals), plus four commercial rootstocks as control genotypes (110R, 5BB, Börner, and SO4). After two independent years of experimentation, the best linear unbiased estimates method revealed root-related traits with a moderate-to-high heritability (0.36–0.82) and coefficient of genetic variation (0.15–0.45). A genome-wide association study was performed with the BLINK model, leading to the detection of 11 QTL associated with four root-related traits (one QTL was associated with the total number of roots, four were associated with the number of small roots (< 1 mm in diameter), two were associated with the number of medium-sized roots (1 mm < diameter < 2 mm), and four were associated with mean diameter) accounting for up to 25.1% of the variance. Three genotypes were found to have better root-related trait performances than the commercial rootstocks and therefore constitute possible new candidates for use in grapevine rootstock breeding programs.

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Section: Discussionmentioning

confidence: 99%

Dissecting the genetic architecture of root-related traits in a grafted wild Vitis berlandieri population for grapevine rootstock breeding

Blois,

de Miguel,

Bert

et al. 2023

Theor Appl Genet

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“…However, cotton’s root structure is poorly understood. A GWAS of cotton root traits from 200 upland cotton accessions revealed two candidate genes, GhTRL1-A05 and GhPIN8-D04 [ 66 ]. The virus-induced silencing of these two genes in cotton resulted in a reduced root length and surface area.…”

Section: Vigs For Studying Vegetative Development In Cottonmentioning

confidence: 99%

Applications of Virus-Induced Gene Silencing in Cotton

Tian,

Fang,

Zhang

et al. 2024

Plants

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Virus-induced gene silencing (VIGS) is an RNA-mediated reverse genetics technique that has become an effective tool to investigate gene function in plants. Cotton is one of the most important economic crops globally. In the past decade, VIGS has been successfully applied in cotton functional genomic studies, including those examining abiotic and biotic stress responses and vegetative and reproductive development. This article summarizes the traditional vectors used in the cotton VIGS system, the visible markers used for endogenous gene silencing, the applications of VIGS in cotton functional genomics, and the limitations of VIGS and how they can be addressed in cotton.

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Mining elite loci and candidate genes for root morphology-related traits at the seedling stage by genome-wide association studies in upland cotton (Gossypium hirsutum L.)

Wu,

Song,

Waqas-Amjid

et al. 2024

Journal of Integrative Agriculture

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Genome-wide association study reveals that GhTRL1 and GhPIN8 affect cotton root development

Cited by 3 publications

References 74 publications

Dissecting the genetic architecture of root-related traits in a grafted wild Vitis berlandieri population for grapevine rootstock breeding

Dissecting the genetic architecture of root-related traits in a grafted wild Vitis berlandieri population for grapevine rootstock breeding

Applications of Virus-Induced Gene Silencing in Cotton

Mining elite loci and candidate genes for root morphology-related traits at the seedling stage by genome-wide association studies in upland cotton (Gossypium hirsutum L.)

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