Root RNA-seq analysis reveals a distinct transcriptome landscape between clubroot-susceptible and clubroot-resistant Chinese cabbage lines after Plasmodiophora brassicae infection

Jia, Hao; Wei, Xiaochun; Yang, Yan; Yuan, Yuxiang; Wei, Fang; Zhao, Yanyan; Shu, Yang; Qiuju, Yao; Wang, Zhiyong; Tian, Bin; Zhang, Xiaowei

doi:10.1007/s11104-017-3432-5

Cited by 37 publications

(40 citation statements)

References 30 publications

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“…Symptomless roots of clubroot infected plants show transcriptomic traits of 452 clubroot resistant/tolerant plants 453 We found that symptomless roots and clubroots originating from the same plant showed 454 differences in their transcriptomic profile similar to previously described differences of 455 roots between resistant and susceptible plants (Chen et al, 2016a;Jia et al, 2017). Gene 456 expression patterns of symptomless roots were similar to the patterns described for 457 resistant hosts, while in clubroot tissue patterns were similar to those observed in 458 susceptible plants.…”

supporting

confidence: 73%

“…In the brownish kohlrabi galls investigated in our study, lignification genes 580were down-regulated suggesting P. brassicae suppresses host lignification in tissues 581where it is already established. In B. napus reduced lignification was also implied byMüller et al, 2009;Jia et al, 2017). With the exception of CKX6, 590 cytokinin related genes were up-regulated in SL(Fig.…”

mentioning

confidence: 88%

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Transcriptomic response in symptomless roots of clubroot infected kohlrabi (Brassica oleracea var. gongylodes) mirrors resistant plants

Ciaghi

Schwelm

Neuhauser

2018

Preprint

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confidence: 73%

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confidence: 88%

Transcriptomic response in symptomless roots of clubroot infected kohlrabi (Brassica oleracea var. gongylodes) mirrors resistant plants

Ciaghi

Schwelm

Neuhauser

2018

Preprint

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“…RNA sequencing (RNA-seq) is a powerful tool for detecting genes related to a specific trait at the whole-genome level [27]; it has been widely employed to study plant-pathogen interactions, including that between Brassica and P. brassicae. Genes involved in the SA signaling pathway were induced in Arabidopsis thaliana [28], B. rapa (contained CRb gene) [29,30], and B. oleracea [31] following early infection by P. brassicae, whereas the JA pathway was found to be involved in the defense response of B. napus, which harbors the Rcr1 gene [32]. In contrast, JA signaling was suppressed in B. rapa [29].…”

Section: Introductionmentioning

confidence: 99%

“…The observed differences could be due to variations among Brassica species or in the CR genes used in previous studies. Other plant hormones such as ET and brassinosteroid (BR) have also been implicated in the defense response to clubroot [28,30,32]. Additionally, changes in the expression of genes related to metabolism, cell wall modification, nucleotide binding site leucine-rich repeat (NBS-LRR) proteins, Ca 2+ signaling, defense-related callose deposition, chitin metabolism, and the pathogenesis-related (PR) pathway have been reported upon infection of B. rapa with P. brassicae [29,32,[34][35][36][37][38][39].…”

Section: Introductionmentioning

confidence: 99%

Transcriptome Arofile of Brassica rapa L. Reveals the Involvement of Jasmonic Acid, Ethylene, and Brassinosteroid Signaling Pathways in Clubroot Resistance

Piao

Zhan

et al. 2019

Agronomy

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Plasmodiophora brassicae is a protozoan pathogen that causes clubroot disease in cruciferous plants, particularly Chinese cabbage (Brassica rapa). A previous study identified a clubroot resistance gene (CRd) conferring race-specific resistance to P. brassicae. However, the defense mechanisms of B. rapa against virulent vs. avirulent P. brassicae are poorly understood. In this study, we carried out a global transcriptional analysis in the clubroot-resistant Chinese cabbage inbred line “85–74” carrying the CRd gene and inoculated with avirulent (LAB-4) or virulent (SCCD-52) P. brassicae. RNA sequencing showed that “85–74” responded most rapidly to SCCD-52 infection, and the number of differentially expressed genes was much higher in SCCD-52-treated as compared to LAB-4-treated plants (5552 vs. 304). Transcriptome profiling revealed that plant hormone signal transduction and plant–pathogen interaction pathways played key roles in the late stages of P. brassicae infection. Genes relating to the salicyclic acid (SA), jasmonic acid (JA)/ethylene (ET), and brassinosteroid (BR) signaling pathways were up-regulated relative to untreated plants in response to LAB-4 infection at 8, 16, and 32 days post-inoculation (dpi) whereas JA, ET, and BR signaling-related genes were not activated in response to SCCD-52, and SA signaling-related genes were up-regulated in both LAB-4 and SCCD-52, suggesting that SA signaling is not the key factor in host resistance to avirulent P. brassicae. In addition, genes associated with phosphorylation and Ca2+ signaling pathways were down-regulated to a greater degree following LAB-4 as compared to SCCD-52 infection at 8 dpi. These results indicate that effector-triggered immunity in “85–74” is more potently activated in response to infection with avirulent P. brassicae and that JA, ET, and BR signaling are important for the host response at the late stage of infection. These findings provide insight into P. brassicae pathotype-specific defense mechanisms in cruciferous crops.

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“…Many studies focused on the middle or late phase/stage of clubroot course in Arabidopsis, B. rapa (Chinese cabbage), Brassica oleracea, and B. napus on the level of transcriptomics, proteomics, or others (Zhang et al, 2016;Hao et al, 2017;Irani et al, 2018;Ji et al, 2018;Prerostova et al, 2018;Su et al, 2018;Peng et al, 2019), while few studies were aimed at the early infection. In recent years, some researchers put forward that the early infection also played an important role.…”

Section: Discussionmentioning

confidence: 99%

Comparative Transcriptome Analysis Reveals Key Pathways and Hub Genes in Rapeseed During the Early Stage of Plasmodiophora brassicae Infection

Long

et al. 2020

Front. Genet.

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Rapeseed (Brassica napus L., AACC, 2n = 38) is one of the most important oil crops around the world. With intensified rapeseed cultivation, the incidence and severity of clubroot infected by Plasmodiophora brassicae Wor. (P. brassicae) has increased very fast, which seriously impedes the development of rapeseed industry. Therefore, it is very important and timely to investigate the mechanisms and genes regulating clubroot resistance (CR) in rapeseed. In this study, comparative transcriptome analysis was carried out on two rapeseed accessions of R-(resistant) and S-(susceptible) line. Three thousand one hundred seventy-one and 714 differentially expressed genes (DEGs) were detected in the R-and S-line compared with the control groups, respectively. The results indicated that the CR difference between the R-and S-line had already shown during the early stage of P. brassicae infection and the change of gene expression pattern of R-line exhibited a more intense defensive response than that of S-line. Moreover, Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis of 2,163 relative-DEGs, identified between the R-and S-line, revealed that genes participated in plant hormone signal transduction, fatty acid metabolism, and glucosinolate biosynthesis were involved in regulation of CR. Further, 12 hub genes were identified from all relative-DEGs with the help of weighted gene co-expression network analysis. Haplotype analysis indicated that the natural variations in the coding regions of some hub genes also made contributed to CR. This study not only provides valuable information for CR molecular mechanisms, but also has applied implications for CR breeding in rapeseed.

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Root RNA-seq analysis reveals a distinct transcriptome landscape between clubroot-susceptible and clubroot-resistant Chinese cabbage lines after Plasmodiophora brassicae infection

Cited by 37 publications

References 30 publications

Transcriptomic response in symptomless roots of clubroot infected kohlrabi (Brassica oleracea var. gongylodes) mirrors resistant plants

Transcriptomic response in symptomless roots of clubroot infected kohlrabi (Brassica oleracea var. gongylodes) mirrors resistant plants

Transcriptome Arofile of Brassica rapa L. Reveals the Involvement of Jasmonic Acid, Ethylene, and Brassinosteroid Signaling Pathways in Clubroot Resistance

Comparative Transcriptome Analysis Reveals Key Pathways and Hub Genes in Rapeseed During the Early Stage of Plasmodiophora brassicae Infection

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