Excavation of Pid3 Orthologs with Differential Resistance Spectra to Magnaporthe oryzae in Rice Resource

Xu, Xiao; Lv, Qiming; Shang, Junjun; Pang, Zhe; Zhou, Zhao-Nian; Wang, Jing; Jiang, Guicheng; Tao, Yong; Xu, Qiu-Man; Li, Xiaobing; Zhao, Xianfeng; Li, Shigui; Zhu, Lihuang

doi:10.1371/journal.pone.0093275

Cited by 24 publications

(34 citation statements)

References 46 publications

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“…Such an approach of allelemining has been deployed in wheat for managing powdery mildew wherein different alleles of the resistance gene Pm3 have been cloned from different accessions of wheat and have been shown to confer resistance (Bhullar et al , 2010). Functional orthologues of the gene Pid3 that confer resistance to rice blast with different resistance spectra have been isolated and cloned (Shang et al , 2009; Lv et al , 2013; Xu et al , 2014).…”

Section: Discussionmentioning

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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Section: Discussionmentioning

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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“…The wheat powdery mildew resistance gene Pm3 with 17 identified functional alleles is a remarkable example of natural variations present in GenBank accessions and can be efficiently utilized for conferring broad-spectrum disease resistance. For rice blast resistance gene, functional orthologous have been found in wild rice O. rufipogon accessions (Lv et al, 2013; Xu et al, 2014; Ashkani et al, 2015) defining their utility in widening the genetic base of cultivated rice varieties. A novel allele of PSTOL1 gene is identified in O. glaberrima (CG14) and being transferred to the NERICAs (New Rice for Africa) cultivars using allele-specific markers.…”

Section: Discussionmentioning

confidence: 99%

Novel Alleles of Phosphorus-Starvation Tolerance 1 Gene (PSTOL1) from Oryza rufipogon Confers High Phosphorus Uptake Efficiency

et al. 2017

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Limited phosphorus availability in the soil is one of the major constraints to the growth and productivity of rice across Asian, African and South American countries, where 50% of the rice is grown under rain-fed systems on poor and problematic soils. With an aim to determine novel alleles for enhanced phosphorus uptake efficiency in wild species germplasm of rice Oryza rufipogon, we investigated phosphorus uptake1 (Pup1) locus with 11 previously reported SSR markers and sequence characterized the phosphorus-starvation tolerance 1 (PSTOL1) gene. In the present study, we screened 182 accessions of O. rufipogon along with Vandana as a positive control with SSR markers. From the analysis, it was inferred that all of the O. rufipogon accessions undertaken in this study had an insertion of 90 kb region, including Pup1-K46, a diagnostic marker for PSTOL1, however, it was absent among O. sativa cv. PR114, PR121, and PR122. The complete PSTOL1 gene was also sequenced in 67 representative accessions of O. rufipogon and Vandana as a positive control. From comparative sequence analysis, 53 mutations (52 SNPs and 1 nonsense mutation) were found in the PSTOL1 coding region, of which 28 were missense mutations and 10 corresponded to changes in the amino acid polarity. These 53 mutations correspond to 17 haplotypes, of these 6 were shared and 11 were scored only once. A major shared haplotype was observed among 44 accessions of O. rufipogon along with Vandana and Kasalath. Out of 17 haplotypes, accessions representing 8 haplotypes were grown under the phosphorus-deficient conditions in hydroponics for 60 days. Significant differences were observed in the root length and weight among all the genotypes when grown under phosphorus deficiency conditions as compared to the phosphorus sufficient conditions. The O. rufipogon accession IRGC 106506 from Laos performed significantly better, with 2.5 times higher root weight and phosphorus content as compared to the positive control Vandana. In terms of phosphorus uptake efficiency, the O. rufipogon accessions IRGC 104639, 104712, and 105569 also showed nearly two times higher phosphorus content than Vandana. Thus, these O. rufipogon accessions could be used as the potential donor for improving phosphorus uptake efficiency of elite rice cultivars.

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“…Lv et al, (2013) isolated an ortholog of Pid3 from a common wild rice accession A4 (O. rufipogon) using sequencingbased allele mining, called Pid3-A4, with confirmation of different amount of resistance spectra. Thereafter, Xu et al (2014) isolated 26 orthologs of Pid3 from cultivated and wild rice accessions and evaluate their respective blast resistance by gene transformation and blast inoculation. Another study performed to help formulate a good allelemining set has a heuristic program with SSR genotype information from 4046 rice accessions, and the allelemining the set established is being tested and verified (Zhao et al, 2010).…”

Section: Allele Mining and Blast Resistance Genesmentioning

confidence: 99%

“…Blast resistance (Kiyosawa and Ando, 1990;Joshi et al, 2009) 2 Pid3 6 Blast resistance (Joshi et al, 2009;Shang et al, 2009;Sharma et al, 2009;Rai et al, 2011a;Lv et al, 2013;Xu et al, 2014) 3 Pi-ta(+) 12 Blast resistance (Yang et al, 2007) 4 Pi-2 6 Blast resistance (Hittalmani et al, 2013) 5 Pi54 11 Blast resistance (Kumari et al, 2013) 6 Pi-z(t) 6 Blast resistance (Sharma et al, 2009) 7 AC134922 11 Blast resistance 8…”

Section: Tilling and Eco-tillingmentioning

confidence: 99%

Allele Mining Strategies: Principles and Utilisation for Blast Resistance Genes in Rice (Oryza sativaL.)

Ashkani

Yusop²,

Shabanimofrad³

et al. 2015

Current Issues in Molecular Biology

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Allele mining is a promising way to dissect naturally occurring allelic variants of candidate genes with essential agronomic qualities. With the identification, isolation and characterisation of blast resistance genes in rice, it is now possible to dissect the actual allelic variants of these genes within an array of rice cultivars via allele mining. Multiple alleles from the complex locus serve as a reservoir of variation to generate functional genes. The routine sequence exchange is one of the main mechanisms of R gene evolution and development. Allele mining for resistance genes can be an important method to identify additional resistance alleles and new haplotypes along with the development of allele-specific markers for use in marker-assisted selection. Allele mining can be visualised as a vital link between effective utilisation of genetic and genomic resources in genomics-driven modern plant breeding. This review studies the actual concepts and potential of mining approaches for the discovery of alleles and their utilisation for blast resistance genes in rice. The details provided here will be important to provide the rice breeder with a worthwhile introduction to allele mining and its methodology for breakthrough discovery of fresh alleles hidden in hereditary diversity, which is vital for crop improvement.

show abstract

Excavation of Pid3 Orthologs with Differential Resistance Spectra to Magnaporthe oryzae in Rice Resource

Cited by 24 publications

References 46 publications

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

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

Novel Alleles of Phosphorus-Starvation Tolerance 1 Gene (PSTOL1) from Oryza rufipogon Confers High Phosphorus Uptake Efficiency

Allele Mining Strategies: Principles and Utilisation for Blast Resistance Genes in Rice (Oryza sativaL.)

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