Evolution and functional analysis of the GRAS family genes in six Rosaceae species

Bai, Yibo; Liu, Hui; Zhu, Kehua; Cheng, Zong‐Ming

doi:10.1186/s12870-022-03925-x

Cited by 8 publications

(5 citation statements)

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“…Based on our findings, the expression patterns of GRAS genes in the six cucurbit crops exhibited significant variation among different members, even between orthologous pairs (Figures S7 and S8; Table S6). This result is consistent with previous studies in tomato [10] and Rosaceae species [17], suggesting that GRAS genes may undergo neo-functionalization or sub-functionalization. In this study, we observed a typical example, where most OG-SCR-1 and OG-SCR-2 members were relatively highly expressed in all the tested tissues, while most OG-SCR-3 members were hardly expressed in any analyzed tissues, except for roots (Figure S8).…”

Section: Gene Expression Profiles Unveiled Potential Roles Of Gras Ge...supporting

confidence: 93%

“…The GRAS members have been widely reported to be involved in regulating plant growth and development [6,26]. In a recent study, light-related cis-acting elements were identified in the promoter regions of GRAS genes in six Rosaceae species [17]. Our findings also found light-related cis-acting elements in the GRAS genes of the six cucurbit crops (Table 1; Figure S5), indicating that these GRAS genes may regulate light responses in these six cucurbit crops.…”

Section: Differential Expression Patterns Of Della-2 Genes In Respons...supporting

confidence: 73%

“…The GRAS gene family can be divided into 8-17 subfamilies [7][8][9]11,12], including DELLA, HAM (Hairy meristem), PAT1 (Phytochrome-A signal transduction 1), DLT (Dwarf and low-tillering), SCR (Scarecrow), and SHR (Short root), etc. GRASs have been reported to regulate multiple biological processes and molecular functions, including Horticulturae 2023, 9, 717 2 of 18 hormone-related [1,2,13,14], abiotic stress responses [15][16][17][18], cell cycle [19,20], grain size [21,22], fruit development and ripening [23][24][25], and hypocotyl elongation [26]. For instance, previous studies have reported the involvement of SlGRAS2 (Solyc07g063940) [23], SlGRAS4 (Solyc01g100200) [25], and SlFSR (Solyc07g052960) [24] in fruit development or ripening in tomato.…”

Section: Introductionmentioning

confidence: 99%

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Comparative Analysis of GRAS Genes in Six Cucurbitaceae Species Provides Insights into Their Evolution and Function

Zhang

Wang

et al. 2023

Horticulturae

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The Cucurbitaceae family comprises economically valuable vegetables such as cucumber, melon, and pumpkin. GRAS proteins, which are crucial transcription factors, play diverse roles in plant growth and development. However, comparative investigations of GRAS proteins across Cucurbitaceae species are limited. Here, we identified 241 GRAS family genes in six cucurbit crops. The number of GRAS genes in cucumber, melon, wax gourd, watermelon, and bottle gourd ranged from 36 to 37, while the pumpkin genome contained 57 GRAS genes, possibly due to a recent whole-genome duplication. We classified cucurbit GRAS genes into 16 subfamilies and identified species-specific motifs and specific-expression patterns in the SCLB and RAD1 subfamilies. Notably, we identified 38 tissue-specific expressed genes, particularly fruit-specific genes potentially involved in fruit development. Additionally, we predicted the role of GRAS genes in regulating hypocotyl elongation under weak or dark light conditions in cucurbit plants. These findings enhance our understanding of the characteristics, evolution, and potential functions of GRAS genes in six cucurbit crops, providing valuable resources for genetic research in the Cucurbitaceae family as well as important agronomic traits.

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Section: Gene Expression Profiles Unveiled Potential Roles Of Gras Ge...supporting

confidence: 93%

Section: Differential Expression Patterns Of Della-2 Genes In Respons...supporting

confidence: 73%

Section: Introductionmentioning

confidence: 99%

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Comparative Analysis of GRAS Genes in Six Cucurbitaceae Species Provides Insights into Their Evolution and Function

Zhang

Wang

et al. 2023

Horticulturae

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“…In this study, a total of 82 EgrGRAS family members were identified from the E. grandis genome, and the number of genes was much higher than that of European pear (59), peach (48) and Larix kaempferi (11) [ 16 , 33 ]. Similar to previous studies [ 34 ], the number of family members is not related to genome size, but may be related to gene duplication events.…”

Section: Discussionmentioning

confidence: 99%

Genome-wide identification and expression analysis of GRAS gene family in Eucalyptus grandis

Lu,

Xu,

et al. 2024

BMC Plant Biol

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Background The GRAS gene family is a class of plant-specific transcription factors with important roles in many biological processes, such as signal transduction, disease resistance and stress tolerance, plant growth and development. So far, no information available describes the functions of the GRAS genes in Eucalyptus grandis. Results A total of 82 GRAS genes were identified with amino acid lengths ranging from 267 to 817 aa, and most EgrGRAS genes had one exon. Members of the GRAS gene family of Eucalyptus grandis are divided into 9 subfamilies with different protein structures, while members of the same subfamily have similar gene structures and conserved motifs. Moreover, these EgrGRAS genes expanded primarily due to segmental duplication. In addition, cis-acting element analysis showed that this family of genes was involved involved in the signal transduction of various plant hormones, growth and development, and stress response. The qRT-PCR data indicated that 18 EgrGRAS genes significantly responded to hormonal and abiotic stresses. Among them, the expression of EgrGRAS13, EgrGRAS68 and EgrGRAS55 genes was significantly up-regulated during the treatment period, and it was hypothesised that members of the EgrGRAS family play an important role in stress tolerance. Conclusions In this study, the phylogenetic relationship, conserved domains, cis-elements and expression patterns of GRAS gene family of Eucalyptus grandis were analyzed, which filled the gap in the identification of GRAS gene family of Eucalyptus grandis and laid the foundation for analyzing the function of EgrGRAS gene in hormone and stress response.

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“…GmGRAS37 boosted drought and salt tolerance in transgenic plants by inducing the expression of GmDREB1 , GmNCED3 , GmCLC1 , GmSOS1 , GmSOD1 , and GmSOD2 [ 9 ]. HAM and the PAT1 subfamily have been linked to responses to drought and salt stress in Fragaria vesca , engaging through various mechanisms to react to different abiotic stresses [ 24 ]. The ectopic expression of VaPAT1 in A. thaliana altered the expressions of a range of stress-related genes, enhancing tolerance to cold, drought, and high salinity in VaPAT1-overexpression lines [ 25 ].…”

Section: Introductionmentioning

confidence: 99%

Genome-Wide Identification and Expression Analysis of the GRAS Gene Family and Their Responses to Heat Stress in Cymbidium goeringii

Huang,

Zheng,

Zhang

et al. 2024

IJMS

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The GRAS gene family, responsible for encoding transcription factors, serves pivotal functions in plant development, growth, and responses to stress. The exploration of the GRAS gene family within the Orchidaceae has been comparatively limited, despite its identification and functional description in various plant species. This study aimed to conduct a thorough examination of the GRAS gene family in Cymbidum goeringii, focusing on its physicochemical attributes, phylogenetic associations, gene structure, cis-acting elements, and expression profiles under heat stress. The results show that a total of 54 CgGRASs were pinpointed from the genome repository and categorized into ten subfamilies via phylogenetic associations. Assessment of gene sequence and structure disclosed the prevalent existence of the VHIID domain in most CgGRASs, with around 57.41% (31/54) CgGRASs lacking introns. The Ka/Ks ratios of all CgGRASs were below one, indicating purifying selection across all CgGRASs. Examination of cis-acting elements unveiled the presence of numerous elements linked to light response, plant hormone signaling, and stress responsiveness. Furthermore, CgGRAS5 contained the highest quantity of cis-acting elements linked to stress response. Experimental results from RT-qPCR demonstrated notable variations in the expression levels of eight CgGRASs after heat stress conditions, particularly within the LAS, HAM, and SCL4/7 subfamilies. In conclusion, this study revealed the expression pattern of CgGRASs under heat stress, providing reference for further exploration into the roles of CgGRAS transcription factors in stress adaptation.

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Evolution and functional analysis of the GRAS family genes in six Rosaceae species

Cited by 8 publications

References 86 publications

Comparative Analysis of GRAS Genes in Six Cucurbitaceae Species Provides Insights into Their Evolution and Function

Comparative Analysis of GRAS Genes in Six Cucurbitaceae Species Provides Insights into Their Evolution and Function

Genome-wide identification and expression analysis of GRAS gene family in Eucalyptus grandis

Genome-Wide Identification and Expression Analysis of the GRAS Gene Family and Their Responses to Heat Stress in Cymbidium goeringii

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