Genome-Wide Analysis of the GRF Family Reveals Their Involvement in Abiotic Stress Response in Cassava

Shang, Shuo; Wu, Chunlai; Huang, Chao; Tie, Weiwei; Yan, Yan; Ding, Zehong; Xia, Zhiqiang; Wang, Wenquan; Peng, Ming; Tian, Libo; Hu, Wei

doi:10.3390/genes9020110

Cited by 25 publications

(18 citation statements)

References 53 publications

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“…Genes with fewer introns can be transcribed faster to cope with various external stresses such as pathogenic and heat shock stress [30,50]. Similar studies have been reported in the leucine-rich repeat family [51] and the GRF family [52]. In our study, only two genes (Bol029467 and Bol007321) contained longer introns, whereas the other genes contained only one or no intron.…”

Section: Discussionsupporting

confidence: 89%

Genome-wide identification and expression analysis of chitin-binding gene family in Brassica oleracea L. reveals its role in different disease resistance

Zhu¹,

Kong²,

Zhuang³

et al. 2020

Preprint

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Background Chitinase, a category of pathogenesis-related proteins, is thought to play an important role in defending external stress in plants. However, comprehensive analysis of chitin-binding gene family has not yet been reported in cabbage (Brassica oleracea L.), especially their roles in response to different diseases. Result in this study, A total of 20 chitinase genes were identified using a genome-wide search method. Phylogenetic analysis classified these genes into two groups. They were distributed unevenly across six chromosomes in cabbage, and all of them contained few introns (≤ 2). The results of colinear analysis showed that the cabbage genome contained 1–5 copies of each chitinase gene (excluding Bol035470) found in Arabidopsis. The heatmap of the chitinase gene family showed that these genes were expressed in various tissues and organs. In addition, under four different stresses of Fusarium wilt, powdery mildew, black spot and downy mildew, we detected 9, 5, 8 and 8 genes with different expression, respectively. Conclusions Our results provide insights for further understanding the role of chitinase in host plants response to different diseases.

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Section: Discussionsupporting

confidence: 89%

Genome-wide identification and expression analysis of chitin-binding gene family in Brassica oleracea L. reveals its role in different disease resistance

Zhu¹,

Kong²,

Zhuang³

et al. 2020

Preprint

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show abstract

“…These GRF family genes were divided into two groups (I and II) and five subgroups (from G1 to G5 subgroups) (Fig. 3), which is similar to the previous results (Kim et al 2003;Cao et al 2016;Shang et al 2018). The G4 and G5 subgroups belonged to the I group, and the G1, G2 and G3 subgroups were clustered in the II group.…”

Section: Phylogenetic Relationships Of Grf Proteins From a Thaliana And F Vescasupporting

confidence: 86%

Genome-Wide Characterization and Expression Analysis of the Growth Regulating Factor (GRF) Gene Family in Strawberry (Fragaria vesca)

Jiang¹

2021

IJAB

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As one of the transcription factors only found in plants, the growth regulating factor (GRF) gene family has been reported in some plant species, but information on this gene family in strawberries remains unclear. Here, Fragaria vesca GRF (FvGRF) genes were systematically studied, including chromosomal location, gene structure, conserved motif, phylogenetic, expression profiling, post-transcriptional regulation, and functional analyses. The identified 10 FvGRFs were phylogenetically classified into two groups and five subgroups. Of these, nine FvGRFs were distributed on the five chromosomes, while FvGRF2 was located on the scf0512956. Motifs 2 and 1 corresponding to QLQ and WRC domains existed in all the FvGRF proteins. FvGRFs showed different expression patterns based on RT-qPCR analyses, for example, FvGRF1, FvGRF3, FvGRF6 and FvGRF8 were predominantly expressed in buds and blooming flowers, FvGRF4 and FvGRF5 were mainly expressed in young leaves, indicating that the roles of these genes are diverse and redundant in strawberry growth and development. Furthermore, FvGRF2 and FvGRF8 were experimentally validated to be the targets of strawberry miR396, suggesting the significance and conservation of miR396 in post-transcriptional regulation of FvGRFs. These results provide fundamental knowledge for further functional analyses of FvGRFs in strawberries. © 2021 Friends Science Publishers

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“…3c). The conserved structure of GmGRFs was similar to those from other plant species, in which most genes contained three introns [29][30][31]. The lengths of individual GmGRFs were variable in intron length could partly reflect the length of different genes.…”

Section: Structural Analysis Of Gmgrfsmentioning

confidence: 54%

Genome-wide identification of GRF transcription factors in soybean and expression analysis of GmGRF family under shade stress

et al. 2019

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Background: The Growth-regulating factor (GRF) family encodes plant-specific transcription factors which contain two conserved domains, QLQ and WRC. Members of this family play vital roles in plant development and stress response processes. Although GRFs have been identified in various plant species, we still know little about the GRF family in soybean (Glycine max). Results: In the present study, 22 GmGRFs distributed on 14 chromosomes and one scaffold were identified by searching soybean genome database and were clustered into five subgroups according to their phylogenetic relationships. GmGRFs belonging to the same subgroup shared a similar motif composition and gene structure. Synteny analysis revealed that large-scale duplications played key roles in the expansion of the GmGRF family. Tissue-specific expression data showed that GmGRFs were strongly expressed in growing tissues, including the shoot apical meristems, developing seeds and flowers, indicating that GmGRFs play critical roles in plant growth and development. On the basis of expression analysis of GmGRFs under shade conditions, we found that all GmGRFs responded to shade stress. Most GmGRFs were down-regulated in soybean leaves after shade treatment. Conclusions: Taken together, this research systematically analyzed the characterization of the GmGRF family and its primary roles in soybean development and shade stress response. Further studies of the function of the GmGRFs in the growth, development and stress tolerance of soybean, especially under shade stress, will be valuable.

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Genome-Wide Analysis of the GRF Family Reveals Their Involvement in Abiotic Stress Response in Cassava

Cited by 25 publications

References 53 publications

Genome-wide identification and expression analysis of chitin-binding gene family in Brassica oleracea L. reveals its role in different disease resistance

Genome-wide identification and expression analysis of chitin-binding gene family in Brassica oleracea L. reveals its role in different disease resistance

Genome-Wide Characterization and Expression Analysis of the Growth Regulating Factor (GRF) Gene Family in Strawberry (Fragaria vesca)

Genome-wide identification of GRF transcription factors in soybean and expression analysis of GmGRF family under shade stress

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