A Novel Homeobox-Like Gene Associated with Reaction to Stripe Rust and Powdery Mildew in Common Wheat

Liu, D.; Xia, X. C.; He, Zhonghu; Xu, Shichang

doi:10.1094/phyto-98-12-1291

Cited by 10 publications

(7 citation statements)

References 36 publications

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“…The earlier independent findings also describe the importance of chromosome 2B in spot blotch disease resistance [12,19]. Interestingly QTL found in the present study on 1B in Env1, the proteins involved are Pentatricopeptide repeat-containing protein (TraesCS1B01G424000) mRNAs renders more susceptible to pathogenic bacteria and fungi in Arabidopsis thaliana [109] and Homeobox protein (TraesCS1B01G424100) associated with reaction to stripe rust and powdery mildew in common wheat [72]. The SNPs (S1B_646895451 and S1B_647195634) detected in two environments located on chromosome 1B are 18.97 cM apart on genetic linkage map while those belong to the same geneID TraesCS1B01G424000.…”

Section: Discussionsupporting

confidence: 69%

“…The SNPs (S1B_646895451 and S1B_647195634) detected in two environments located on chromosome 1B are 18.97 cM apart on genetic linkage map while those belong to the same geneID TraesCS1B01G424000. The gene annotation results indicate role in plant disease resistance [69,65,72]. This information obtained from gene annotation could potentially be used in fine mapping and map-based cloning to further characterize the mechanisms of spot blotch disease resistance.…”

Section: Discussionmentioning

confidence: 89%

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Genome-wide association study and Genomic Prediction of spot blotch disease in wheat (Triticum aestivum L.) using genotyping by sequencing

Tomar¹,

Singh²,

Poland³

et al. 2020

Preprint

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Background Spot blotch caused by Bipolaris sorokiniana is a major constraint in wheat production in tropics and subtropics. There is limited information available on GWAS and study on genomic prediction is completely lacking. To reveal the genetic markers associated with disease resistance, we performed a genome-wide association study (GWAS) for spot blotch disease in 141 spring wheat lines. Results Based on the testing under natural infection in three years at hot spots location in Pusa, India and Jamalpur, Bangladesh, the genotypes showed significant genetic variation for disease severity. Using Genotyping-by-Sequencing (GBS) based 18637 polymorphic SNP markers and phenotyping from diverse environments, we identified 23 genomic regions across the genome ( p < 0.001) on 14 chromosomes associated with disease scores. Consistent with the previous reports, a most stable genomic region on chromosome 2B, 5B and 7D were detected across the environments. The new genomic region on chromosome 3D was also identified. We performed functional annotation with wheat genome assembly annotation (IWGSC Ref Seq v1.0) and identified NBS-LRR and 35 other plant defense-related protein families across multiple chromosome regions. Using a five-fold cross-validation scheme, we observed moderate prediction accuracy for 3 of 4 environments indicated that our model was able to successfully capture the quantitative variation underlying the SB variation in our population. Conclusions The GWAS based on the phenotypic data from PUSA India and BARI Bangladesh resulted in a total of 23 genomic regions on 14 chromosomes. The new genomic region appeared on chromosome 3D associated with Zinc finger protein that play important role in plant disease resistance. The genomic prediction model for spot blotch disease resistance in wheat was tested and obtained moderate prediction accuracy.

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Section: Discussionsupporting

confidence: 69%

Section: Discussionmentioning

confidence: 89%

Genome-wide association study and Genomic Prediction of spot blotch disease in wheat (Triticum aestivum L.) using genotyping by sequencing

Tomar¹,

Singh²,

Poland³

et al. 2020

Preprint

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“…Qyrstripe-1BL on long arm of 1BL at 326.58 Mb, defined up to 8.2% of phenotypic variance for disease severity and coincided to the genomic region containing Yr64 and Yr65 genes (Cheng et al, 2014). Besides this, there were other Yr genes, such as Yr10 and Yr29 in the vicinity of the identified QTL on Chr1BL (Liu et al, 2008;Lan et al, 2014;Muhammad et al, 2020). Moreover, we have also identified a haplotype block of 3 SNPs (AX-95243592, AX-95229302 and AX-94850928) on 1B in the interval 606-608 Mb.…”

Section: Comparison Of Identified Qtls With Previously Published Yr Gmentioning

confidence: 92%

Identification of QTLs/Defense Genes Effective at Seedling Stage Against Prevailing Races of Wheat Stripe Rust in India

et al. 2020

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Resistance in modern wheat cultivars for stripe rust is not long lasting due to the narrow genetic base and periodical evolution of new pathogenic races. Though nearly 83 Yr genes conferring resistance to stripe rust have been cataloged so far, few of them have been mapped and utilized in breeding programs. Characterization of wheat germplasm for novel sources of resistance and their incorporation into elite cultivars is required to achieve durable resistance and thus to minimize the yield losses. Here, a genome-wide association study (GWAS) was performed on a set of 391 germplasm lines with the aim to identify quantitative trait loci (QTL) using 35K Axiom® array. Phenotypic evaluation disease severity against four stripe rust pathotypes, i.e., 46S119, 110S119, 238S119, and 47S103 (T) at the seedling stage in a greenhouse providing optimal conditions was carried out consecutively for 2 years (2018 and 2019 winter season). We identified, a total of 17 promising QTl which passed FDR criteria. Moreover these 17 QTL identified in the current study were mapped at different genomic locations i.e. 1B, 2A, 2B, 2D, 3A, 3B, 3D, 4B, 5B and 6B. These 17 QTLs identified in the present study might play a key role in marker-assisted breeding for developing stripe rust resistant wheat cultivars.

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“…1). An analysis of the conserved protein domains in the twenty-eight ORFs (Supplementary Table S3), revealed the presence of eight ORFs (ORF1, ORF4, ORF7, 0RF20, ORF22, ORF23, ORF24 and ORF26) encoding for Homeobox, CBS, WRC, QLQ, CC-NB-LRR, Kelch, protein kinase, and A20/AN1-like Zinc finger domain-containing proteins that could be involved in conferring resistance to pathogens (Coego et al , 2005; Wang et al , 2005; Liu et al , 2008; Hewezi et al , 2012; Liu et al , 2014 b; Tyagi et al , 2014; Zuo et al , 2015; Ma et al , 2015; Mou et al , 2015; Omidbakhshfard et al , 2015; Wang et al , 2017). Since a majority of the cloned R genes till date belong to the NB-LRR class (Kourelis and van der Hoorn, 2018), among the eight potential genes for conferring resistance, ORF22 encoding a CC-NB-LRR domain-containing protein as predicted by the online tool Interpro was considered to be the most likely candidate for conferring resistance to white rust in Donskaja-IV.…”

Section: Resultsmentioning

confidence: 99%

BjuWRR1, a CC-NB-LRR gene identified in Brassica juncea, confers resistance to white rust caused by Albugo Candida

Arora

Padmaja

Paritosh

et al. 2019

Preprint

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a CC-NB-LRR gene identified in Brassica juncea, confers resistance to white rust 36 caused by Albugo candida 37 Running title 38 A CNL type R gene confers white rust resistance in B. juncea 39 Highlight 40 BjuWRR1, a CNL type R gene, was identified from an east European gene pool line of 41 Brassica juncea and validated for conferring resistance to white rust by genetic 42 transformation. 43 Abstract 44 White rust caused by oomycete pathogen Albugo candida is a significant disease of crucifer 45 crops including Brassica juncea (mustard), a major oilseed crop of the Indian subcontinent. 46Earlier a resistance-conferring locus named AcB1-A5.1 was mapped in an east European 47 gene pool line of B. juncea  Donskaja-IV. This line was tested along with some other lines 48 of B. juncea (AABB), B. rapa (AA) and B. nigra (BB) for resistance to six isolates of A. 49 candida collected from different mustard growing regions of India. Donskaja-IV was found 50 to be completely resistant to all the tested isolates. Sequencing of a BAC spanning the locus 51 AcB1-A5.1 showed the presence of a single CC-NB-LRR protein encoding R gene. The 52 genomic sequence of the putative R gene with its native promoter and terminator was used 53 for the genetic transformation of a susceptible Indian gene pool line Varuna and was found to 54 confer complete resistance to all the isolates. This is the first white rust resistance-conferring 55 gene described from Brassica species and has been named BjuWRR1. Allelic variants of the 56 gene in B. juncea germplasm and orthologues in the Brassicaceae genomes were studied to 57 understand the evolutionary dynamics of the BjuWRR1 gene. 58 Introduction 61White rust, caused by an oomycete pathogen Albugo candida (Pers.) Kuntze is a serious 62 disease of economically important Brassica species. A. candida is an obligate biotrophic 63 parasite and rated amongst the top ten oomycete pathogens based on its scientific and 64 economic importance (Kamoun et al., 2015). White rust has been reported to cause 65 A. candida isolates, infection and disease evaluation 129 5White rust infected B. juncea leaves were collected from five different mustard growing 130 regions of north India (Pantnagar, Meerut, Samastipur, Hisar and Alwar) and were purified 131 by performing five passages of inoculations for each isolate on a susceptible B. juncea line, 132Varuna. In each passage, zoosporangia collected from a single pustule were suspended in 200 133 L of sterilized double distilled water followed by drop inoculation on cotyledons of seven-134 day-old seedlings of Varuna. Inoculations were performed in a contained white rust infection 135 chamber maintained at a relative humidity of around 90% and 18°C of temperature with a 16-136 h light/8-h dark cycle. After repeated passages of single pustules, the isolates were 137 maintained on Varuna and the purified A. candida isolates were named as AcP1 (Pantnagar), 138

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A Novel Homeobox-Like Gene Associated with Reaction to Stripe Rust and Powdery Mildew in Common Wheat

Cited by 10 publications

References 36 publications

Genome-wide association study and Genomic Prediction of spot blotch disease in wheat (Triticum aestivum L.) using genotyping by sequencing

Genome-wide association study and Genomic Prediction of spot blotch disease in wheat (Triticum aestivum L.) using genotyping by sequencing

Identification of QTLs/Defense Genes Effective at Seedling Stage Against Prevailing Races of Wheat Stripe Rust in India

BjuWRR1, a CC-NB-LRR gene identified in Brassica juncea, confers resistance to white rust caused by Albugo Candida

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