Microarray Analysis of the Transcriptome for Bacterial Wilt Resistance in Pepper (Capsicum annuum L.)

Hwang, Jang Yeon; Choi, Youngmi; Kang, Jum-Soon; Kim, Suntae; Cho, Myeong-Cheoul; Mihalte, Lucica; Park, Young-Hoon

doi:10.15835/nbha3926820

Cited by 14 publications

(9 citation statements)

References 32 publications

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“… Godiard et al (1991) isolated cDNA clones corresponding to mRNAs that accumulate during the early phase of the hypersensitive response in suspension cultured tobacco cells challenged with a non-pathogenic strain of R. solanacearum ( Godiard et al, 1991 ). Microarray analysis showed that R-response genes were related to xyloglucan biosynthesis and cell wall organization, while S-response genes were involved in response to stress and cell death in pepper ( Hwang et al, 2011 ). A root transcriptome provided insight into the dynamic crosstalk between peanut and R. solanacearum ( Chen et al, 2014 ).…”

Section: Introductionmentioning

confidence: 99%

Comparative Transcriptome Profiling Reveals Defense-Related Genes Against Ralstonia solanacearum Infection in Tobacco

et al. 2021

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Bacterial wilt (BW) caused by Ralstonia solanacearum (R. solanacearum), is a vascular disease affecting diverse solanaceous crops and causing tremendous damage to crop production. However, our knowledge of the mechanism underlying its resistance or susceptibility is very limited. In this study, we characterized the physiological differences and compared the defense-related transcriptomes of two tobacco varieties, 4411-3 (highly resistant, HR) and K326 (moderately resistant, MR), after R. solanacearum infection at 0, 10, and 17 days after inoculation (dpi). A total of 3967 differentially expressed genes (DEGs) were identified between the HR and MR genotypes under mock condition at three time points, including1395 up-regulated genes in the HR genotype and 2640 up-regulated genes in the MR genotype. Also, 6,233 and 21,541 DEGs were induced in the HR and MR genotypes after R. solanacearum infection, respectively. Furthermore, GO and KEGG analyses revealed that DEGs in the HR genotype were related to the cell wall, starch and sucrose metabolism, glutathione metabolism, ABC transporters, endocytosis, glycerolipid metabolism, and glycerophospholipid metabolism. The defense-related genes generally showed genotype-specific regulation and expression differences after R. solanacearum infection. In addition, genes related to auxin and ABA were dramatically up-regulated in the HR genotype. The contents of auxin and ABA in the MR genotype were significantly higher than those in the HR genotype after R. solanacearum infection, providing insight into the defense mechanisms of tobacco. Altogether, these results clarify the physiological and transcriptional regulation of R. solanacearum resistance infection in tobacco, and improve our understanding of the molecular mechanism underlying the plant-pathogen interaction.

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Section: Introductionmentioning

confidence: 99%

Comparative Transcriptome Profiling Reveals Defense-Related Genes Against Ralstonia solanacearum Infection in Tobacco

et al. 2021

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“…R. solanacearum infection in chickpea was observed to result in a mild to severe disease symptoms which include yellowing, wilting and cell death; however, it was also observed that R. solanacearum does not provoke sudden plant death in leaf-inoculated plants ( Sinha et al, 2016 ). The molecular responses of plants against R. solanacearum infection has been extensively studied ( Hwang et al, 2011 ; Ishihara et al, 2012 ; Chen et al, 2014 ; Prasath et al, 2014 ; Zuluaga et al, 2015 ); however, so far no attempt has been made to understand the transcriptomic responses of plant to combined drought and R. solanacearum infection.…”

Section: Introductionmentioning

confidence: 99%

Concurrent Drought Stress and Vascular Pathogen Infection Induce Common and Distinct Transcriptomic Responses in Chickpea

2017

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Chickpea (Cicer arietinum); the second largest legume grown worldwide is prone to drought and various pathogen infections. These drought and pathogen stresses often occur concurrently in the field conditions. However, the molecular events in response to that are largely unknown. The present study examines the transcriptome dynamics in chickpea plants exposed to a combination of water-deficit stress and Ralstonia solanacearum infection. R. solanacearum is a potential wilt disease causing pathogen in chickpea. Drought stressed chickpea plants were infected with this pathogen and the plants were allowed to experience progressive drought with 2 and 4 days of R. solanacearum infection called short duration stress (SD stresses) and long duration stress (LD stresses), respectively. Our study showed that R. solanacearum multiplication decreased under SD-combined stress compared to SD-pathogen but there was no significant change in LD-combined stress compared to LD-pathogen. The microarray analysis during these conditions showed that 821 and 1039 differentially expressed genes (DEGs) were unique to SD- and LD-combined stresses, respectively, when compared with individual stress conditions. Three and fifteen genes were common among all the SD-stress treatments and LD-stress treatments, respectively. Genes involved in secondary cell wall biosynthesis, alkaloid biosynthesis, defense related proteins, and osmo-protectants were up-regulated during combined stress. The expression of genes involved in lignin and cellulose biosynthesis were specifically up-regulated in SD-combined, LD-combined, and LD-pathogen stress. A close transcriptomic association of LD-pathogen stress with SD-combined stress was observed in this study which indicates that R. solanacearum infection also exerts drought stress along with pathogen stress thus mimics combined stress effect. Furthermore the expression profiling of candidate genes using real-time quantitative PCR validated the microarray data. The study showed that down-regulation of defense-related genes during LD-combined stress resulted in an increased bacterial multiplication as compared to SD-combined stress. Overall, our study highlights a sub-set of DEGs uniquely expressed in response to combined stress, which serve as potential candidates for further functional characterization to delineate the molecular response of the plant to concurrent drought-pathogen stress.

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“…To further annotate our SNPs, we also took advantage of a previous transcriptome analysis of resistance and susceptible pepper lines, which identified differentially expressed genes (DEGs) in these cultivars using Arabidopsis gene chip analysis [17]. The corresponding direct orthologs with the Arabidopsis gene ID were regarded as candidate DEGs in pepper gene model, and we identified those with non-Syn SNPs between YCM334 and Taean (Table 4).…”

Section: Resultsmentioning

confidence: 99%

“…To take advantage of a published transcriptome analysis comparing YCM334 and Taean and performed using the Arabidopsis gene chip [17], we attempted to identify pepper genes orthologous to those Arabidopsis gene IDs previously identified as DEGs in this study. For this analysis we used the PLAZA 3.0 dicot database [22].…”

Section: Methodsmentioning

confidence: 99%

Resequencing of Capsicum annuum parental lines (YCM334 and Taean) for the genetic analysis of bacterial wilt resistance

et al. 2016

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BackgroundBacterial wilt (BW) is a widespread plant disease that affects a broad range of dicot and monocot hosts and is particularly harmful for solanaceous plants, such as pepper, tomato, and eggplant. The pathogen responsible for BW is the soil-borne bacterium, Ralstonia solanacearum, which can adapt to diverse temperature conditions and is found in climates ranging from tropical to temperate. Resistance to BW has been detected in some pepper plant lines; however, the genomic loci and alleles that mediate this are poorly studied in this species.ResultsWe resequenced the pepper cultivars YCM344 and Taean, which are parental recombinant inbred lines (RIL) that display differential resistance phenotypes against BW, with YCM344 being highly resistant to infection with this pathogen. We identified novel single nucleotide polymorphisms (SNPs) and insertions/deletions (Indels) that are only present in both parental lines, as compared to the reference genome and further determined variations that distinguish these two cultivars from one another. We then identified potentially informative SNPs that were found in genes related to those that have been previously associated with disease resistance, such as the R genes and stress response genes. Moreover, via comparative analysis, we identified SNPs located in genomic regions that have homology to known resistance genes in the tomato genomes.ConclusionsFrom our SNP profiling in both parental lines, we could identify SNPs that are potentially responsible for BW resistance, and practically, these may be used as markers for assisted breeding schemes using these populations. We predict that our analyses will be valuable for both better understanding the YCM334/Taean-derived populations, as well as for enhancing our knowledge of critical SNPs present in the pepper genome.Electronic supplementary materialThe online version of this article (doi:10.1186/s12870-016-0931-0) contains supplementary material, which is available to authorized users.

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Microarray Analysis of the Transcriptome for Bacterial Wilt Resistance in Pepper (Capsicum annuum L.)

Cited by 14 publications

References 32 publications

Comparative Transcriptome Profiling Reveals Defense-Related Genes Against Ralstonia solanacearum Infection in Tobacco

Comparative Transcriptome Profiling Reveals Defense-Related Genes Against Ralstonia solanacearum Infection in Tobacco

Concurrent Drought Stress and Vascular Pathogen Infection Induce Common and Distinct Transcriptomic Responses in Chickpea

Resequencing of Capsicum annuum parental lines (YCM334 and Taean) for the genetic analysis of bacterial wilt resistance

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