Genome-wide identification and analysis of the regulation wheat DnaJ family genes following wheat yellow mosaic virus infection

T, Liu; Xu, Menghui; Gao, Shiqi; Zhang, Yang; Yang, Huanming; Peng, Jin; Cai, Linna; Cheng, Ye; Chen, Jianping; Yang, Jian; Zhong, Kaili

doi:10.1016/s2095-3119(21)63619-5

Cited by 19 publications

(13 citation statements)

References 84 publications

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“…The expression fold changes in HvDnaJ , HvMADS , and HvERF1 in TX9425 were more than that in Franklin ( Table 4 ). DnaJ (also called HSP40 or J-protein) has been demonstrated in the regulation of physiological pathways, including hormone regulation and plant disease resistance ( Liu et al., 2022 ). In plants, the MADS genes play a positive role in abiotic stresses such as salt, drought, cold, and osmotic stress ( Chen et al., 2018 ).…”

Section: Discussionmentioning

confidence: 99%

Genome-wide association scan and transcriptome analysis reveal candidate genes for waterlogging tolerance in cultivated barley

et al. 2022

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Waterlogging is the primary abiotic factor that destabilizes the yield and quality of barley (Hordeum vulgare L.). However, the genetic basis of waterlogging tolerance remains poorly understood. In this study, we conducted a genome-wide association study (GWAS) by involving 106,131 single-nucleotide polymorphisms (SNPs) with a waterlogging score (WLS) of 250 barley accessions in two years. Out of 72 SNPs that were found to be associated with WLS, 34 were detected in at least two environments. We further performed the transcriptome analysis in root samples from TX9425 (waterlogging tolerant) and Franklin (waterlogging sensitive), resulting in the identification of 5,693 and 8,462 differentially expressed genes (DEGs) in these genotypes, respectively. The identified DEGs included various transcription factor (TF) genes, primarily including AP2/ERF, bZIP and MYB. By combining GWAS and RNA-seq, we identified 27 candidate genes associated with waterlogging, of which three TFs (HvDnaJ, HvMADS and HvERF1) were detected in multiple treatments. Moreover, by overexpressing barley HvERF1 in Arabidopsis, the transgenic lines were detected with enhanced waterlogging tolerance. Altogether, our results provide new insights into the genetic mechanisms of waterlogging, which have implications in the molecular breeding of waterlogging-tolerant barley varieties.

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Section: Discussionmentioning

confidence: 99%

Genome-wide association scan and transcriptome analysis reveal candidate genes for waterlogging tolerance in cultivated barley

et al. 2022

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“…In this study, 88 members of CbuDnaJ were successfully identified based on the C. bungei genome. The identified number of CbuDnaJ family genes was lower than that found in wheat, this difference might be due to the evolutionary differences and ploidy among different species (Liu et al, 2022). The isoelectric point of CbuDnaJs protein varies from 4.64 (CbuDnaJ37) to 10.62 (CbuDnaJ61) (Table S5).…”

Section: Discussionmentioning

confidence: 94%

“…Until now, DnaJ proteins have been identified in different species, and generally play a role in plant growth and development, stress resistance, etc (Jacob et al, 2017). With the in-depth study of heat shock proteins, their role in regulating leaf color has also been revealed (Liu et al, 2022). For instance, The DnaJ-A proteins DJA6 and DJA5 are essential for chloroplast iron-sulfur cluster biogenesis (Zhang et al, 2021a).…”

Section: Introductionmentioning

confidence: 99%

Genome-wide identification of DnaJ gene family in Catalpa bungei and functional analysis of CbuDnaJ49 in leaf color formation

Yang

Zhao²,

Wang³

et al. 2023

Front. Plant Sci.

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DnaJs are the common molecular chaperone proteins with strong structural and functional diversity. In recent years, only several DnaJ family members have been found to be able to regulate leaf color, and it remains to be explored whether there are other potential members that also regulate this character. Here, we identified 88 putative DnaJ proteins from Catalpa bungei, and classified them into four types according to their domain. Gene-structure analysis revealed that each member of CbuDnaJ family had same or similar exon-intron structure. Chromosome mapping and collinearity analysis showed that tandem and fragment duplication occurred in the process of evolution. Promoter analyses suggested that CbuDnaJs might be involved in a variety of biological processes. The expression levels of DnaJ family members in different color leaves of Maiyuanjinqiu were respectively extracted from the differential transcriptome. Among these, CbuDnaJ49 was the largest differentially expressed gene between the green and yellow sectors. Ectopic overexpression of CbuDnaJ49 in tobacco showed that the positive transgenic seedlings exhibited albino leaves, and the contents of chlorophyll and carotenoid were significantly reduced compared with those of wild type. The results suggested that CbuDnaJ49 played an important role in regulating leaf color. This study not only identified a novel gene of DnaJ family members regulating leaf color, but also provided new germplasm for landscaping.

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“…While T36 down-regulated a DnaJ 11-like protein, T68-1 up-regulated DnaJ 3-and DnaJ 19-like proteins and down-regulated a DnaJ 6-like protein. Many DnaJ-like host proteins have been reported to interact with plant virus proteins to influence virus infection ( Hofius et al, 2007 ; Shimizu et al, 2009 ; Cho et al, 2012 ; Verchot, 2012 ; Zong et al, 2020 ; Liu et al, 2022 ). Three HSP20, one HSP70, and one HSP90 genes were moderately up-regulated by T68-1.…”

Section: Resultsmentioning

confidence: 99%

Transcriptomic alterations in the sweet orange vasculature correlate with growth repression induced by a variant of citrus tristeza virus

et al. 2023

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Citrus tristeza virus (CTV, family Closteroviridae) is an economically important pathogen of citrus. CTV resides in the phloem of the infected plants and induces a range of disease phenotypes, including stem pitting and quick decline as well as a number of other deleterious syndromes. To uncover the biological processes underlying the poorly understood damaging symptoms of CTV, we profiled the transcriptome of sweet orange (Citrus sinensis) phloem-rich bark tissues of non-infected, mock-inoculated trees and trees singly infected with two distinct variants of CTV, T36 or T68-1. The T36 and T68-1 variants accumulated in the infected plants at similar titers. With that, young trees infected with T68-1 were markedly repressed in growth, while the growth rate of the trees infected with T36 was comparable to the mock-inoculated trees. Only a small number of differentially expressed genes (DEGs) were identified in the nearly asymptomatic T36-infected trees, whereas almost fourfold the number of DEGs were identified with the growth-restricting T68-1 infection. DEGs were validated using quantitative reverse transcription-PCR. While T36 did not induce many noteworthy changes, T68-1 altered the expression of numerous host mRNAs encoding proteins within significant biological pathways, including immunity and stress response proteins, papain-like cysteine proteases (PLCPs), cell-wall modifying enzymes, vascular development proteins and others. The transcriptomic alterations in the T68-1-infected trees, in particular, the strong and persistent increase in the expression levels of PLCPs, appear to contribute to the observed stem growth repression. On the other hand, analysis of the viral small interfering RNAs revealed that the host RNA silencing-based response to the infection by T36 and that by T68-1 was comparable, and thus, the induction of this antiviral mechanism may not contribute to the difference in the observed symptoms. The DEGs identified in this study promote our understanding of the underlying mechanisms of the yet unexplained growth repression induced by severe CTV isolates in sweet orange trees.

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Genome-wide identification and analysis of the regulation wheat DnaJ family genes following wheat yellow mosaic virus infection

Cited by 19 publications

References 84 publications

Genome-wide association scan and transcriptome analysis reveal candidate genes for waterlogging tolerance in cultivated barley

Genome-wide association scan and transcriptome analysis reveal candidate genes for waterlogging tolerance in cultivated barley

Genome-wide identification of DnaJ gene family in Catalpa bungei and functional analysis of CbuDnaJ49 in leaf color formation

Transcriptomic alterations in the sweet orange vasculature correlate with growth repression induced by a variant of citrus tristeza virus

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