Genome-wide identification of WRKY family genes in peach and analysis of WRKY expression during bud dormancy

Chen, Min; Tan, Qiuping; Sun, Minghan; Li, Dongmei; Fu, Xiling; Chen, Xiude; Xiao, Wei; Li, Ling; Gao, Dongsheng

doi:10.1007/s00438-016-1171-6

Cited by 54 publications

(47 citation statements)

References 66 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%

“…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: Introductionmentioning

confidence: 99%

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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“…These are consistent with the classification of the WRKY family genes in Arabidopsis (Eulgem et al, 2000), maize (Wei et al, 2012), Populus (Jiang et al, 2014), cassava (Wei et al, 2016, and peach (Prunus persica) (Chen et al, 2016). All the WRKY genes can be classified into three distinct clusters: group I, II, and III depending on the number of conserved WRKY regions and the pattern of zinc-finger motif (Eulgem et al, 2000;Wei et al, 2012;Jiang et al, 2014).…”

Section: Discussionsupporting

confidence: 75%

“…In the present study, the number of introns found in the BvWRKY genes ranges from to 5, with an average of 2.79 introns per BvWRKY, so each BvWRKY sequence was divided into many segments by introns. Similarly, all of the WRKY genes in both cassava and peach have one to five introns (Wei et al, 2006;Chen et al, 2016). However, the SiWRKY genes in sesame have between 1 to 11 introns (Li et al, 2017).…”

Section: Discussionmentioning

confidence: 99%

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Supplemental Information 2: Sequences of T He WRKY Genes From Sugar Beet and Arabidopsis.

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Background: The WRKY transcription factor family plays critical roles in many aspects of physiological processes and adaption to environment. Although the WRKY genes have been widely studied in various plants, the structure and function of the WRKY family in sugar beet (Beta vulgaris L.) remains unknown. Methods: In the present study, the WRKY genes were identified from the sugar beet genome by bioinformatics. Phylogenetic tree was constructed by MEGA7.0 software. Distribution map of these genes was displayed by MapInspect 1.0. Furthermore, the exon-intron structure and the conserved motifs were predicted by GSDS 2.0 and MEME 5.0.5, respectively. Additionally, the expression levels of these genes under alkaline stress were assayed by qRT-PCR. Results: A total of 58 putative BvWRKY genes are identified in the sugar beet genome. The coding sequence of these genes ranged from 558 to 2,307 bp and molecular weight varied from 21.3 to 84. Based on the conserved WRKY domain and zinc-finger motif, the BvWRKY genes are clustered into three major groups I, II and III, with 11, 40 and 7 genes, respectively. The number of intron in the BvWRKY genes ranged from 1 to 5, with majority of BvWRKY (27/58) containing three exons. All the BvWRKY genes have one or two WRKY motifs at the N-terminus. Moreover, the expression levels of BvWRKY genes are increased remarkedly by alkaline stress. Our findings extend understandings of the BvWRKY genes family and provide useful information for subsequent research on their functions in sugar beet under alkaline stress.

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Contrasting Life History Traits in Monocarpic Versus Polycarpic Plants from a Molecular‐Evolutionary Point of View

Kiefer

Bergonzi

Brand

et al. 2019

Annual Plant Reviews Online

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Seed plants can be broadly divided into two groups according to their life history. Annual plants complete their life cycle including germination, vegetative growth, and finally reproduction within one year. Usually, annual plants flower once in their lifetime and are, therefore, referred to as monocarpic. Perennial plants alternate between vegetative and reproductive phases over several consecutive years and usually have the ability to flower multiple times throughout their lifetime and are, therefore, referred to as polycarpic. Shifts between these two life histories have occurred multiple times independently in higher plants. Each life history comes with its own set of typical morphological characters and differential expression of key genes involved in the regulation of juvenile phase, flowering, branching, or senescence shape molecular pathways into fitting with the respective life history.

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Genome-wide identification of WRKY family genes in peach and analysis of WRKY expression during bud dormancy

Cited by 54 publications

References 66 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

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Contrasting Life History Traits in Monocarpic Versus Polycarpic Plants from a Molecular‐Evolutionary Point of View

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