Transcriptomic analysis of genes in soybean in response to Peronospora manshurica infection

Dong, Hang; Shi, Shuangfeng; Zhang, Chong; Zhu, Sihui; Mei, Li; Tan, Jie; Yu, Yue; Lin, Liping; Jia, Sun; Wang, Xujing; Wu, Yuanhua; Liu, Yuhui

doi:10.1186/s12864-018-4741-7

Cited by 15 publications

(13 citation statements)

References 42 publications

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“…4 A). Similar observations were found in soybean during Peronospora manshurica infection ( Dong et al, 2018 ), which may be due to stronger signals as a result of bacterial invasion. Also, Fig.…”

Section: Discussionsupporting

confidence: 82%

Comparative transcriptome profiling of pomegranate genotypes having resistance and susceptible reaction to Xanthomonas axonopodis pv. punicae

Singh

Parashuram

Sharma

et al. 2020

Saudi Journal of Biological Sciences

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Pomegranate ( Punica granatum L.) is an important fruit crop, rich in fiber, vitamins, antioxidants, minerals and source of different biologically active compounds. The bacterial blight caused by Xanthomonas axonopodis pv. punicae is a serious threat to the crop leading to 60–80% yield loss under epiphytotic conditions. In this work, we have generated comparative transcriptome profile to mark the gene expression signatures during resistance and susceptible interactions. We analyzed leaf and fruits samples of moderately resistant genotype (IC 524207) and susceptible variety (Bhagawa) of pomegranate at three progressive infection stages upon inoculation with the pathogen. RNA-Seq with the Illumina HiSeq 2500 platform revealed 1,88,337 non-redundant (nr) transcript sequences from raw sequencing data, for a total of 34,626 unigenes with size >2 kb. Moreover, 85.3% unigenes were annotated in at least one of the seven databases examined. Comparative analysis of gene-expression signatures in resistant and susceptible varieties showed that the genes known to be involved in defense mechanism in plants were up-regulated in resistant variety. Gene Ontology (GO) analysis successfully annotated 90,485 pomegranate unigenes, of which 68,464 were assigned to biological, 78,107 unigenes molecular function and 44,414 to cellular components. Significantly enriched GO terms in DEGs were related to oxidations reduction biological process, protein binding and oxidoreductase activity. This transcriptome data on pomegranate could help in understanding resistance and susceptibility nature of cultivars and further detailed fine mapping and functional validation of identified candidate gene would provide scope for resistance breeding programme in pomegranate.

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Section: Discussionsupporting

confidence: 82%

Comparative transcriptome profiling of pomegranate genotypes having resistance and susceptible reaction to Xanthomonas axonopodis pv. punicae

Singh

Parashuram

Sharma

et al. 2020

Saudi Journal of Biological Sciences

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“…This hypothesis is supported by the recent publication by Dong et al. (2018) that identified the differential expression of genes and GO categories related to ion homeostasis in the resistant response to soybean downy mildew ( Peronospora manshurica) , suggesting that modification of nutrient availability plays a vital role in the defense response.…”

Section: Discussionmentioning

confidence: 61%

New tools for characterizing early brown stem rot disease resistance signaling in soybean

McCabe

Graham

2020

The Plant Genome

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Brown stem rot (BSR) reduces soybean [Glycine max (L.) Merr.] yield by up to 38%. The BSR causal agent is Phialophora gregata f. sp. sojae, a slow-growing, necrotrophic fungus whose life cycle includes latent and pathogenic phases, each lasting several weeks. Brown stem rot foliar symptoms are often misdiagnosed as other soybean diseases or nutrient stress, making BSR resistance especially difficult to phenotype. To shed light on the genes and networks contributing to P. gregata resistance, we conducted RNA sequencing (RNA-seq) of a resistant genotype (PI 437970, Rbs3). Leaf, stem, and root tissues were collected 12, 24, and 36 h after stab inoculation with P. gregata, or mock infection, in the plant stem. By using multiple tissues and time points, we could see that leaves, stems, and roots use the same defense pathways. Our analyses suggest that P. gregata induces a biphasic defense response, with pathogen-associated molecular pattern (PAMP) triggered immunity observed in leaves at 12 and 24 h after infection (HAI) and effector triggered immunity detected at 36 h after infection in the stems. Gene networks associated with defense, photosynthesis, nutrient homeostasis, DNA replication, and growth are the hallmarks of resistance to P. gregata. While P. gregata is a slow-growing pathogen, our results demonstrate that pathogen recognition occurs hours after infection. By exploiting the genes and networks described here, we will be able to develop novel diagnostic tools to facilitate breeding and screening for BSR resistance.

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“…Despite VGGRU-1 and VRM (Gg) 1 having different MYMV infection responses, 275 common DEGs were found in both mungbean genotypes. Previous studies have shown the advantage of focusing on the common DEGs between the resistant and susceptible genotypes to discover the possible candidate resistance genes in various diseases [15,22]. Therefore, we were mainly focused on 275 common DEGs.…”

Section: Discussionmentioning

confidence: 99%

“…Recently, transcriptome comparisons among resistant and susceptible genotypes to pathogens in various crops, including mungbean [19], urdbean [20,21], soybean [22,23], rice [24,25], and tomato [16] extended our knowledge on the genes and mechanisms underlying the resistance to plant pathogens. In regard to the available literature information, RNA-Seq has yet to be used to investigate the transcriptome response of mungbean to MYMV.…”

Section: Introductionmentioning

confidence: 99%

Dynamic Transcriptome Profiling of Mungbean Genotypes Unveil the Genes Respond to the Infection of Mungbean Yellow Mosaic Virus

et al. 2022

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Yellow mosaic disease (YMD), incited by mungbean yellow mosaic virus (MYMV), is a primary viral disease that reduces mungbean production in South Asia, especially in India. There is no detailed knowledge regarding the genes and molecular mechanisms conferring resistance of mungbean to MYMV. Therefore, disclosing the genetic and molecular bases related to MYMV resistance helps to develop the mungbean genotypes with MYMV resistance. In this study, transcriptomes of mungbean genotypes, VGGRU-1 (resistant) and VRM (Gg) 1 (susceptible) infected with MYMV were compared to those of uninfected controls. The number of differentially expressed genes (DEGs) in the resistant and susceptible genotypes was 896 and 506, respectively. Among them, 275 DEGs were common between the resistant and susceptible genotypes. Functional annotation of DEGs revealed that the DEGs belonged to the following categories defense and pathogenesis, receptor-like kinases; serine/threonine protein kinases, hormone signaling, transcription factors, and chaperons, and secondary metabolites. Further, we have confirmed the expression pattern of several DEGs by quantitative real-time PCR (qRT-PCR) analysis. Collectively, the information obtained in this study unveils the new insights into characterizing the MYMV resistance and paved the way for breeding MYMV resistant mungbean in the future.

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Transcriptomic analysis of genes in soybean in response to Peronospora manshurica infection

Cited by 15 publications

References 42 publications

Comparative transcriptome profiling of pomegranate genotypes having resistance and susceptible reaction to Xanthomonas axonopodis pv. punicae

Comparative transcriptome profiling of pomegranate genotypes having resistance and susceptible reaction to Xanthomonas axonopodis pv. punicae

New tools for characterizing early brown stem rot disease resistance signaling in soybean

Dynamic Transcriptome Profiling of Mungbean Genotypes Unveil the Genes Respond to the Infection of Mungbean Yellow Mosaic Virus

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