Identification of the WRKY gene family and functional analysis of two genes in Caragana intermedia

Wan, Yongqing; MingZhu, Mao; Wan, Dongli; Yang, Qi; Yang, Feiyun; Mandlaa,; Li, Guojing; Wang, Ruigang

doi:10.1186/s12870-018-1235-3

Cited by 62 publications

(59 citation statements)

References 89 publications

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“…For comparative genomic analyses, we collected the WRKY protein coding genes in other plants from previous publications. Finally, 81, 59, 72, 52, 188, 62, 58, and 104 WRKY genes were collected from S. lycopersicum, V. vinifera, A. thaliana, C. papaya, G. max, F. vesca, P. persica, and P. trichocarpa, respectively [8][9][10][11][12][13][14][15][16]49]. The number of CcWRKY genes was similar to V. vinifera, C. papaya, F. vesca, and P. persica; but less than S. lycopersicum, A. thaliana, G. max, and P. trichocarpa (Figure 1).…”

Section: Isolation Of the Wrky Genes In C Canephoramentioning

confidence: 99%

“…Owing to the important roles of WRKY transcription factors in plant kingdoms, genome-wide analyses of the WRKY gene family have been performed in A. thaliana, B. rapa, S. lycopersicum, P. trichocarpa, C. papaya, V. vinifera, peach (P. persica), F. vesca, soybean (G. max), C. sativus, O. sativa, D. officinale, and C. intermedia [3,[6][7][8][9][10][11][12][13][14][15][16]18,49]. In coffee plants, 22 WRKY genes have been isolated based on the EST database [51]; however, only four CcWRKY genes were involved in their study.…”

Section: Wrky Genes In Coffee (Coffea Spp)mentioning

confidence: 99%

“…In the current study, we first provided a systematical analysis of CcWRKY genes and then identified 49 CcWRKYs based on the information regarding the C. canephora genome sequence (Table S1). A comparison of the number of CcWRKYs in C. canephora with other sequenced plants [8][9][10][11][12][13][14][15][16]49], the number of CcWRKY genes was similar to V. vinifera, C. papaya, F. vesca, and P. persica; but, less than S. lycopersicum, A. thaliana, G. max, and P. trichocarpa (Figure 1), which might be due to the whole-genome polyploidization event of S. lycopersicum, A. thaliana, G. max, and P. trichocarpa, because of the triplication at the origin of the core eudicots [34,50].…”

Section: Wrky Genes In Coffee (Coffea Spp)mentioning

confidence: 99%

“…1845), wild strawberry (Fragaria vesca L.), soybean (Glycine max (L.) Merr. ), cucumber (Cucumis sativus L.), rice (Oryza sativa L.), stem-orchid (Dendrobium officinale Kimura et Migo), and the thorny shrub Caragana intermedia Kuang et H.C.Fu [3,[6][7][8][9][10][11][12][13][14][15][16]. Among them, many WRKY proteins have been cloned and shown to be associated with abiotic stress responses, such as cold [17,18], salt [19], and drought [20].…”

Section: Introductionmentioning

confidence: 99%

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Genome-Wide Identification of WRKY Genes and Their Response to Cold Stress in Coffea canephora

Dong

Yang

Zhang

et al. 2019

Forests

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WRKY transcription factors are known to play roles in diverse stress responses in plants. Low temperatures limit the geographic distribution of Coffea canephora Pierre ex A.Froehner. The WRKYs of C. canephora are still not well characterized, and the response of C. canephora WRKYs (CcWRKYs) under cold stress is still largely unknown. We identified 49 CcWRKYs from the C. canephora genome to gain insight into these mechanisms. These CcWRKYs were divided into three groups that were based on the conserved WRKY domains and zinc-finger structure. Gene expression analysis demonstrated that 14 CcWRKYs were induced during the cold acclimation stage, 17 CcWRKYs were preferentially upregulated by 4 °C treatment, and 12 CcWRKYs were downregulated by cold stress. Subsequently, we carried out a genome-wide analysis to predict 14,513 potential CcWRKY target genes in C. canephora. These isolated genes were involved in multiple biological processes, and most of them could be grouped by the response to stimulus. Among the putative CcWRKY target genes, 235 genes were categorized into response to the cold process, including carbohydrate metabolic, lipid metabolic, and photosynthesis process-related genes. Furthermore, the qRT-PCR and correlation analysis indicated that CcWRKY might control their putative targets that respond to cold stress. These results provide a basis for understanding the molecular mechanism for CcWRKY-mediated cold responses.

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Section: Isolation Of the Wrky Genes In C Canephoramentioning

confidence: 99%

Section: Wrky Genes In Coffee (Coffea Spp)mentioning

confidence: 99%

Section: Wrky Genes In Coffee (Coffea Spp)mentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Genome-Wide Identification of WRKY Genes and Their Response to Cold Stress in Coffea canephora

Dong

Yang

Zhang

et al. 2019

Forests

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“…Morus005757 shows significant up-regulation in response to dehydration stress, salinity stress, and SA and ABA (Abscisic acid) treatments [27]. Similar results were also found in wheat, common bean [28], grape [29], pineapple [30], soybean [31], moso bamboo [32], Caragana intermedia [33], peanut [34], and broomcorn millet [35]. These observations suggest that studying the WRKY gene families may provide valuable insights into the mechanism underlying abiotic stress tolerance in plants.…”

Section: Introductionmentioning

confidence: 66%

Identification of WRKY Gene Family from Dimocarpus longan and Its Expression Analysis during Flower Induction and Abiotic Stress Responses

Jue

Sang

Liu

et al. 2018

IJMS

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Longan is an important fruit tree in the subtropical region of Southeast Asia and Australia. However, its blooming and its yield are susceptible to stresses such as droughts, high salinity, and high and low temperature. To date, the molecular mechanisms of abiotic stress tolerance and flower induction in longan have not been elucidated. WRKY transcription factors (TFs), which have been studied in various plant species, play important regulatory roles in plant growth, development, and responses to stresses. However, there is no report about WRKYs in longan. In this study, we identified 55 WRKY genes with the conserved WRKY domain and zinc finger motif in the longan genome. Based on the structural features of WRKY proteins and topology of the phylogenetic tree, the longan WRKY (DlWRKY) family was classified into three major groups (I–III) and five subgroups (IIa–IIe) in group II. Tissue expression analysis showed that 25 DlWRKYs were highly expressed in almost all organs, suggesting that these genes may be important for plant growth and organ development in longan. Comparative RNA-seq and qRT-PCR-based gene expression analysis revealed that 18 DlWRKY genes showed a specific expression during three stages of flower induction in “Sijimi” (“SJ”), which exhibited the “perpetual flowering” (PF) habit, indicating that these 18 DlWRKY genes may be involved in the flower induction and the genetic control of the perpetual flowering trait in longan. Furthermore, the RT-qPCR analysis illustrated the significant variation of 27, 18, 15, 17, 27, and 23 DlWRKY genes under SA (Salicylic acid), MeJA (Methyl Jasmonate), heat, cold, drought, or high salinity treatment, respectively, implicating that they might be stress- or hormone-responsive genes. In summary, we systematically and comprehensively analyzed the structure, evolution, and expression pattern of the DlWRKY genes. The results presented here increase our understanding of the WRKY family in fruit trees and provide a basis for the further elucidation of the biological function of DlWRKY genes in longan.

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Promising Transcription Factors for Salt and Drought Tolerance in Plants

Goel

Bhuria

Sinha

et al. 2019

Energy, Environment, and Sustainability

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Identification of the WRKY gene family and functional analysis of two genes in Caragana intermedia

Cited by 62 publications

References 89 publications

Genome-Wide Identification of WRKY Genes and Their Response to Cold Stress in Coffea canephora

Genome-Wide Identification of WRKY Genes and Their Response to Cold Stress in Coffea canephora

Identification of WRKY Gene Family from Dimocarpus longan and Its Expression Analysis during Flower Induction and Abiotic Stress Responses

Promising Transcription Factors for Salt and Drought Tolerance in Plants

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