WITHDRAWN: Genome-wide association study identifies novel loci and candidate genes for drought stress tolerance in rapeseed

Shahzad, Ali; Qian, Minchao; Sun, Bangyang; Mahmood, Umer; Li, Shengting; Fan, Yonghai; Chang, Wei; Dai, Lishi; Zhu, Hong; Li, Jiana; Qu, Cunmin; Lü, Kun

doi:10.1016/j.ocsci.2021.01.001

Cited by 2 publications

(4 citation statements)

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“…SNPs density is crucial for population evolution and GWAS analysis. One previous study obtained 571,521 SNPs in rice [11], a total of 31,561 high-quality SNPs were developed in maize [13], a total of 30,543 SNP markers were developed in barley [14], another study obtained 32,812 SNP markers in common bean [17], and a total of 139 SNPs were developed in rapeseed [18]. In tea, 30,282 SNPs were obtained in one study [9], and 9,436,394 high-quality SNPs were obtained in another [38].…”

Section: Discussionmentioning

confidence: 99%

“…This technique has been widely used in genetic diversity analysis [5], high-density genetic map construction [6], and germplasm resources identification [7]. At present, it has been widely used to develop high-density molecular labels in plants that include tea plant [8,9], rice [10,11], maize [12,13], barley [14,15], bean [16,17], rape [18,19], peanut [20,21], potato [22], soybean [23,24] and other plants.…”

Section: Introductionmentioning

confidence: 99%

“…Genome-wide association studies (GWASs) use a large number of SNPs to conduct control analysis or association analysis at the genome-wide level, screen the genetic variation most likely to affect a trait according to the significance p value, and then mine the genes related to trait variation. At present, many studies have used the molecular markers developed by SLAF-seq for GWAS analysis, and screened many important functional genes in tea plant [8,9], rice [10,11], barley [14,15], rape [18,19] and soybean [23,24].…”

Section: Introductionmentioning

confidence: 99%

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Population Structure Analysis and Genome-Wide Association Study of Tea (Camellia sinensis (L.) Kuntze) Germplasm in Qiannan, China, Based on SLAF-Seq Technology

Zhang¹,

Tian²,

Cen³

et al. 2022

Phyton

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Duyun Maojian tea is a famous tea in China. In this study, the specific-locus amplified fragment (SLAF) sequencing method was used to analyze the population structure and conduct a genome-wide association study (GWAS) of 2 leaf traits of 123 tea plants in Qiannan, China. A total of 462,019 SLAF tags and 11,362,041 single-nucleotide polymorphism (SNP) loci were obtained. The results of phylogenetic tree analysis, cluster analysis, and principal component analysis showed that 123 tea germplasms were clustered into three groups, and the heterozygosity rates for Groups I, II, and II were 0.206, 0.224, and 0.34, respectively. Generally, tea germplasms in a production area are clustered in a group, indicating that tea germplasms in different production areas have certain genetic diversity. The traditional Duyun Maojian tea core production areas, TS and DC-SJ, are clustered into Group I and Group II respectively, while the ZY production area is relatively independent in Group III. Furthermore, based on GWAS analysis, 11 candidate genes related to leaf apex and 7 candidate genes related to leaf shape were obtained. This study clarified the genetic relationship among eight Duyun Maojian tea production areas and obtained candidate genes related to leaf apex and leaf shape development. The results showed that population structure and candidate genes are an effective basis for the breeding of Duyun Maojian tea germplasm.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Population Structure Analysis and Genome-Wide Association Study of Tea (Camellia sinensis (L.) Kuntze) Germplasm in Qiannan, China, Based on SLAF-Seq Technology

Zhang¹,

Tian²,

Cen³

et al. 2022

Phyton

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“…Methods: In this study, three promising lines resulting from the crossing of Herbaceum and Arboreum species (KD-92-11, KD-92-17 and KD-92- 19) along with two diploid control cultivars (Aria and Ghoze Ghermez) were cultivated according to the split-plot design with three replications at four irrigation levels (normal or control, 25, 50 and 75% deficit irrigation compared with normal) in 2020 at the field of the Research and Training Station of Agriculture and Natural Resources in Kashmar. Then, in order to select for drought tolerance, a set of morphological traits (height, number of vegetative and reproductive branches, number of opened and closed bolls, and crown diameter) and agricultural traits (single boll weight) along with yield, earliness and keel percentage were measured.…”

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confidence: 99%

Effect of Different Irrigation Levels on Yield and Yield Components of Some Promising Lines of Cotton

2023

jspi

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Drought is one of the most important abiotic stresses that affects the growth and production of crops. Therefore, the need to breed cultivars that have high compatibility and low water demand is strongly felt. This study was conducted to evaluate the effect of irrigation levels on cultivars and promising lines of cotton, to use the stress tolerance and susceptibility indices for identification and selection of drought tolerant genotypes, as well as to compare cotton promising lines with control cultivars of Aria and Ghoze Ghermez (which are suitable for cotton growing areas in Khorasan and Isfahan provinces). For this purpose, an experiment was performed according to the split-plot design with three replications under four irrigation levels (normal, 25, 50 and 75% deficit irrigation compared with normal) in 2020 at Kashmar. The results showed that the irrigation level had a significant effect on all traits except for keel percentage and earliness. The trait of single boll weight decreased by 7, 24 and 32% at the irrigation levels of 25, 50 and 75%, respectively, compared to the normal regime. In the same conditions, the total yield also decreased by 3, 34 and 48%, respectively. There was a significant difference between genotypes in terms of all studied traits (except for keel percentage and earliness) and drought tolerance and susceptibility indices, which indicates high genetic diversity among the genotypes and can be effective in improving selection in the breeding programs. Mean comparison of traits in the four irrigation levels showed that with the reduction of irrigation levels from 25 to 75%, the average of all traits decreased and the greatest decrease was observed in the 75% moisture regime. In each of the four irrigation levels, control cultivars were superior to promising lines in terms of single boll weight, second harvest yield, and total yield. However, in terms of the traits of keel percentage, early maturity, number of vegetative and reproductive branches, and number of open bolls, the promising lines were superior to the control cultivars. In each of the three moisture stress regimes, the control cultivars of Ghoze Ghermez and Aria did not show any difference in stress tolerance, but compared to hybrids, the promising lines had between 5 and 25% more stress tolerance in terms of various traits.

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WITHDRAWN: Genome-wide association study identifies novel loci and candidate genes for drought stress tolerance in rapeseed

Cited by 2 publications

References 70 publications

Population Structure Analysis and Genome-Wide Association Study of Tea (Camellia sinensis (L.) Kuntze) Germplasm in Qiannan, China, Based on SLAF-Seq Technology

Population Structure Analysis and Genome-Wide Association Study of Tea (Camellia sinensis (L.) Kuntze) Germplasm in Qiannan, China, Based on SLAF-Seq Technology

Effect of Different Irrigation Levels on Yield and Yield Components of Some Promising Lines of Cotton

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