Mapping of wheat stripe rust resistance gene Yr041133 by BSR-Seq analysis

Li, Yahui; Lin, Ruiming; Hu, Jinghuang; Shi, Xiaohan; Qiu, Dan; Wu, Peipei; Goitom, Gebremedhin Habteab; Wang, Siqi; Zhang, Hongjun; Yang, Li; Liu, Hongwei; Wu, Qiuhong; Xie, Jingzhong; Zhou, Yang; Li, Yong; Li, Hongjie

doi:10.1016/j.cj.2021.06.009

Cited by 9 publications

(4 citation statements)

References 39 publications

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“…This marker was also used in marker-assisted backcross selection of Yr59 to enhance stripe rust resistance in 4 elite wheat cultivars (Zhang et al 2022). Marker Xwmc557 is also linked to Yr59 gene (Li et al 2022). Like Barc232, Gpw5029 also flanked ut6 gene (Kassa et al 2014).…”

Section: Resultsmentioning

confidence: 99%

Characterization of wheat (Triticum aestivum) genotypes for multiple fungal resistance using functional markers

et al. 2023

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Wheat (Triticum aestivum L.) encounters 15–20% yield loss due to fungal diseases. A study was carried out to analyse the allelic variations in functional genes associated with multiple fungal disease resistance, viz. rusts, smuts and powdery mildew in 58 contrasting wheat genotypes. The experiments were conducted at Chaudhary Charan Singh Haryana Agricultural University, Hisar, Haryana during 2020–21. A set of 29 simple sequence repeat (SSR) markers was selected for screening, out of which 24 markers showed amplifications (82.7%) and 23 showed polymorphism (95.83%) with a total of 46 alleles. Alleles per locus varied from 1 to 3 with a mean of 1.96 alleles per locus. At a similarity coefficient of 0.66, dendrogram grouped all the genotypes into 2 major clusters. Two and three dimensional plots also confirmed the distribution. Results showed that genotypes PBW 725 and WH 1268 were found to be most diverse at a similarity coefficient of 77%. SSR polymorphism rates were analysed using polymorphism information content, expected heterozygosity, marker index, discriminating power and resolving power values, where first two ranged from 0.03–0.65, and later three ranged from 0.03–1.94, 0.03–0.66 and 0.03–2.00, respectively. Based on these results, 8 proficient markers, viz. Barc232, Swm271, Xbarc124, Xbarc32, Xwmc44, Xgwm296, Gpw5029 and Xwmc557 are suggested for Indian wheat fungal disease resistance profiling. Among these, first two markers (Barc232 and Swm271) were detected in most (57) of the genotypes which are associated with ut6 and Lr75 genes, providing resistance to loose smut and leaf rust, respectively. This study can further help in gene pyramiding for producing multiple disease resistant genotypes.

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Section: Resultsmentioning

confidence: 99%

Characterization of wheat (Triticum aestivum) genotypes for multiple fungal resistance using functional markers

et al. 2023

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“…tritici, PST) in polyploid wheat F 2 generation and mapped the rust resistance gene Yr15 to a 0.77-cM interval. In addition, the wheat stripe rust resistance genes YrZH22 (Wang et al, 2017), YrZM103 (Zhang et al, 2017), Yr26 (Wu et al, 2018b), Yr041133 (Li et al, 2022) were successfully localized and identified by RNA-Seq. In sugarcane, only Gao et al (2022) constructed a genetic map of sugarcane-S. scitamineum interactions with an average distance of 1.96 cM using specific locus amplified fragment sequencing (SLAF-Seq) and BSR-Seq.…”

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Genetic identification of SNP markers and candidate genes associated with sugarcane smut resistance using BSR-Seq

Pan

et al. 2022

Front. Plant Sci.

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Sugarcane smut caused by Sporisorium scitamineum is one of the most severe fungal diseases worldwide. In this study, a cross was made between a smut-resistant variety YT93-159 and a smut-susceptible variety ROC22, and 312 progenies were obtained. Two bulks of progenies were then constructed, one consisted of 27 highly smut resistant progenies and the other 24 smut susceptible progenies. Total RNAs of the progenies of each bulk, were pooled and subject to bulked segregant RNA-sequence analysis (BSR-Seq). A total of 164.44 Gb clean data containing 2,341,449 SNPs and 64,999 genes were obtained, 7,295 of which were differentially expressed genes (DEGs). These DEGs were mainly enriched in stress-related metabolic pathways, including carbon metabolism, phenylalanine metabolism, plant hormone signal transduction, glutathione metabolism, and plant-pathogen interactions. Besides, 45,946 high-quality, credible SNPs, a 1.27 Mb region at Saccharum spontaneum chromosome Chr5B (68,904,827 to 70,172,982), and 129 candidate genes were identified to be associated with smut resistance. Among them, twenty-four genes, either encoding key enzymes involved in signaling pathways or being transcription factors, were found to be very closely associated with stress resistance. RT-qPCR analysis demonstrated that they played a positive role in smut resistance. Finally, a potential molecular mechanism of sugarcane and S. scitamineum interaction is depicted that activations of MAPK cascade signaling, ROS signaling, Ca2+ signaling, and PAL metabolic pathway and initiation of the glyoxalase system jointly promote the resistance to S. scitamineum in sugarcane. This study provides potential SNP markers and candidate gene resources for smut resistance breeding in sugarcane.

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“…Seq to obtain large amount of SNP markers, which has been widely used in fast mapping and identi cation of candidate genes in wheat(Wang et al 2017;Wang et al 2018;Li et al 2021). …”

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confidence: 99%

Genetic analysis of stripe rust resistance in CIMMYT common wheat line KFA/2*KACHU under Chinese rust environment

Lan

Yin

Yuan

et al. 2023

Preprint

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Breeding resistant wheat variety is the most economic and efficient way to manage wheat stripe rust, while identification of new stripe rust resistance gene and development the molecular markers will be very useful for wheat breeder in the breeding program. In the present study, a recombinant inbred line (RIL) population derived from a cross of the resistant parent KFA/2*KACHU and susceptible parent Apav#1 was used to map stripe rust resistance loci. In combination of GBS genotyping platform and BSR-Seq method, we mapped a new race-specific stripe rust resistance gene on wheat chromosome 5BL at the seedling stage, temporarily named as YrK. TraesCS5B02G330700 encoded a receptor-like kinase was considered as the key candidate gene of YrK based on virus induced gene silencing (VIGS) method. Its expression showed a significant up-regulated at 24h after inoculation and the functional molecular markers were developed based on the polymorphic SNPs in the CDS region. In addition, a total of four adult plant resistance (APR) loci were identified on wheat chromosome 1BL, 2AS, 2BS and 4AL, respectively. Among these, QYr.hazu-1BL and QYr.hazu-2AS was verified as the known resistance genes Lr46/Yr29/Pm39 and Yr17, respectively. QYr.hazu-2BS was a new APR locus and the closely linked SNP markers were converted into breeder-friendly KASP markers.

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Mapping of wheat stripe rust resistance gene Yr041133 by BSR-Seq analysis

Cited by 9 publications

References 39 publications

Characterization of wheat (Triticum aestivum) genotypes for multiple fungal resistance using functional markers

Characterization of wheat (Triticum aestivum) genotypes for multiple fungal resistance using functional markers

Genetic identification of SNP markers and candidate genes associated with sugarcane smut resistance using BSR-Seq

Genetic analysis of stripe rust resistance in CIMMYT common wheat line KFA/2*KACHU under Chinese rust environment

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