Isolation, characterization and genetic diversity of NBS-LRR class disease-resistant gene analogs in multiple virus resistant line of chilli (Capsicum annuum L.)

Ponnam, Naresh; Reddy, M. Krishna; Reddy, Anand C.; Lavanya, B.; Reddy, D. C. Lakshmana; Reddy, K. Madhavi

doi:10.1007/s13205-017-0720-y

Cited by 12 publications

(8 citation statements)

References 39 publications

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“…We identified a total of 571 NBS-ARC domain genes, 390 of which had a complete NBS-ARC domain. Before our study, only dozens of NBS-ARC genes were identified by degenerate PCR amplification [ 15 , 16 ]. This is due to either the limitation of degenerate PCR or the absence of genomic sequences at that time.…”

Section: Discussionmentioning

confidence: 99%

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The dissection of R genes and locus Pc5.1 in Phytophthora capsici infection provides a novel view of disease resistance in peppers

Liao

Hao

et al. 2021

BMC Genomics

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Background Phytophthora capsici root rot (PRR) is a disastrous disease in peppers (Capsicum spp.) caused by soilborne oomycete with typical symptoms of necrosis and constriction at the basal stem and consequent plant wilting. Most studies on the QTL mapping of P. capsici resistance suggested a consensus broad-spectrum QTL on chromosome 5 named Pc.5.1 regardless of P. capsici isolates and resistant resources. In addition, all these reports proposed NBS-ARC domain genes as candidate genes controlling resistance. Results We screened out 10 PRR-resistant resources from 160 Capsicum germplasm and inspected the response of locus Pc.5.1 and NBS-ARC genes during P. capsici infection by comparing the root transcriptomes of resistant pepper 305R and susceptible pepper 372S. To dissect the structure of Pc.5.1, we anchored genetic markers onto pepper genomic sequence and made an extended Pc5.1 (Ext-Pc5.1) located at 8.35 Mb–38.13 Mb on chromosome 5 which covered all Pc5.1 reported in publications. A total of 571 NBS-ARC genes were mined from the genome of pepper CM334 and 34 genes were significantly affected by P. capsici infection in either 305R or 372S. Only 5 inducible NBS-ARC genes had LRR domains and none of them was positioned at Ext-Pc5.1. Ext-Pc5.1 did show strong response to P. capsici infection and there were a total of 44 differentially expressed genes (DEGs), but no candidate genes proposed by previous publications was included. Snakin-1 (SN1), a well-known antimicrobial peptide gene located at Pc5.1, was significantly decreased in 372S but not in 305R. Moreover, there was an impressive upregulation of sugar pathway genes in 305R, which was confirmed by metabolite analysis of roots. The biological processes of histone methylation, histone phosphorylation, DNA methylation, and nucleosome assembly were strongly activated in 305R but not in 372S, indicating an epigenetic-related defense mechanism. Conclusions Those NBS-ARC genes that were suggested to contribute to Pc5.1 in previous publications did not show any significant response in P. capsici infection and there were no significant differences of these genes in transcription levels between 305R and 372S. Other pathogen defense-related genes like SN1 might account for Pc5.1. Our study also proposed the important role of sugar and epigenetic regulation in the defense against P. capsici.

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Section: Discussionmentioning

confidence: 99%

“…NBS-ARC-LRR protein genes constitute the predominant majority of disease resistance genes ( R genes). Several doses of R genes have been amplified in peppers by degenerate primers [ 15 , 16 ]. However, most R genes are still unknown because higher plants typically have hundreds of R genes.…”

Section: Introductionmentioning

confidence: 99%

The dissection of R genes and locus Pc5.1 in Phytophthora capsici infection provides a novel view of disease resistance in peppers

Liao

Hao

et al. 2021

BMC Genomics

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“…Yadav et al [169] also identified the LRR LIKE-PROTEIN KINASE gene as MYMIV-resistance in soybean. Likewise, Naresh et al [170] characterized the NBS-LRR class disease resistance gene analogs leading to multi-virus resistance in chilli, indicating the need for deep analysis of NBS-LLR candidates for YMD-resistance in mungbean. These candidates will also help in developing gene-specific markers for resistance breeding.…”

Section: Transcriptomics Approachesmentioning

confidence: 99%

Breeding for Enhancing Legumovirus Resistance in Mungbean: Current Understanding and Future Directions

Singh¹,

Singh

Pratap

et al. 2019

Agronomy

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Yellow mosaic disease (YMD) affects several types of leguminous crops, including the Vigna species, which comprises a number of commercially important pulse crops. YMD is characterized by the formation of a bright yellow mosaic pattern on the leaves; in severe forms, this pattern can also be seen on stems and pods. This disease leads to tremendous yield losses, even up to 100%, in addition to deterioration in seed quality. Symptoms of this disease are similar among affected plants; YMD is not limited to mungbean (Vigna radiata L. Wilczek) and also affects other collateral and alternate hosts. In the last decade, rapid advancements in molecular detection techniques have been made, leading to an improved understanding of YMD-causing viruses. Three distinct bipartite begomoviruses, namely, Mungbean Yellow Mosaic India Virus (MYMIV), Mungbean Yellow Mosaic Virus (MYMV), and Horsegram Yellow Mosaic Virus (HgYMV), are known to cause YMD in Vigna spp. Vigna crops serve as an excellent protein source for vegetarians worldwide; moreover, they aid in improving soil health by fixing atmospheric nitrogen through a symbiotic association with Rhizobium bacteria. The loss in the yield of these short-duration crops due to YMD, thus, needs to be checked. This review highlights the discoveries that have been made regarding various aspects of YMD affecting mungbean, including the determination of YMD-causing viruses and strategies used to develop high-yielding YMD-resistant mungbean varieties that harness the potential of related Vigna species through the use of different omics approaches.

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“…These primers are designed based on sequences of DNA resistance genes from other plants, known as resistance gene analogs (RGA) (Naresh et al 2017). One of the largest RGA classes that have been characterized is the Nucleotide Binding Site.…”

Section: Introductionmentioning

confidence: 99%

Resilience response to yellow leaf curl disease and identification of resistance gene analogs (RGA) in pepper (Capsicum annuum)

et al. 2021

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Abstract. Ayu DK, Maharijaya A, Syukur M, Hidayat SH. 2021. Resilience response to yellow leaf curl disease and identification of resistance gene analogs (RGA) in pepper (Capsicum annuum). Biodiversitas 22: 4731-4739. Pepper yellow leaf curl disease (PYLCD) caused by infection of Begomovirus is a serious threat to pepper production worldwide. Identification of the resistance gene analogs (RGA) and resilience response of pepper against PYLCD is needed especially for selection resistance genotype. Evaluation of resistance response involving 28 pepper genotypes was carried out through transmission of Begomovirus using whitefly (Bemisia tabaci) as vector. The result showed that IPB C12 and F4-012328-6-3 were potential resistance genotypes. A total of 15 R gene analogs (CaRGA) containing NBS motif, namely CARGA1 to CARGA15, were identified by degenerated PCR amplification and database mining. The alignment of deduced amino acid sequence revealed conservation of subdomains Ploop (GKTT), kinase2 (LVVLDDV), RNBSB/kinase3 (IILTTR) and GLPL. BLASTp analysis indicated that 15 RGA showed high homology at deduced amino acid level with R gene identified such as whitefly resistance protein Mi-1.2, Pvr 9 gene for potyvirus, Begomovirus resistance protein, TRGA15 and RGA 13 for putative late blight resistance. Phylogenetic analysis exhibited that isolated sequences distinguished into CNL-NBS groups. These pepper RGA could be considered as candidate sequences of resistance genes.

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Isolation, characterization and genetic diversity of NBS-LRR class disease-resistant gene analogs in multiple virus resistant line of chilli (Capsicum annuum L.)

Cited by 12 publications

References 39 publications

The dissection of R genes and locus Pc5.1 in Phytophthora capsici infection provides a novel view of disease resistance in peppers

The dissection of R genes and locus Pc5.1 in Phytophthora capsici infection provides a novel view of disease resistance in peppers

Breeding for Enhancing Legumovirus Resistance in Mungbean: Current Understanding and Future Directions

Resilience response to yellow leaf curl disease and identification of resistance gene analogs (RGA) in pepper (Capsicum annuum)

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