Genome-Wide Identification of GRAS Transcription Factors and Their Potential Roles in Growth and Development of Rose (Rosa chinensis)

Kumari, Priya; Gahlaut, Vijay; Kaur, Ekjot; Singh, Sanatsujat; Kumar, Sanjay; Jaiswal, Vandana

doi:10.1007/s00344-022-10635-z

Cited by 10 publications

(12 citation statements)

References 94 publications

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“…(2021) Ricinus communis (castor beans) Euphorbiaceae Eudicot 48 13 Xu et al. (2016) Rosa chinensis (rose) Rosaceae Eudicot 59 17 Kumari et al. (2022) Selaginella moellendorffii (lycophyte) Selaginellaceae Eudicot 45 15 Engstrom (2011) Setaria italica (foxtail millet) Poaceae Monocot 57 13 Fan et al.…”

Section: Gras Gene Family: Expansion and Diversification In The Plantsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

“…Being a plant-specific TF, the GRAS family has been reported in more than 50 species, including Arabidopsis ( Tian et al., 2004 ), Oryza sativa ( Tian et al., 2004 ), Glycine max ( Wang et al., 2020a ), Manihot esculenta ( Shan et al., 2020 ), Hordeum vulgare ( To et al., 2020 ), Brassica rapa ( Song et al., 2014 ), Solanum lycopersicum ( Huang et al., 2015 ), Nicotiana tobacum ( Chen et al., 2015b ), Camellia sinensis ( Wang et al., 2018 ), and Rosa chinensis ( Kumari et al., 2022 ). Based on conserved domains and functions, the GRAS family was initially classified into eight different subfamilies, including SCR, SCARECROW-LIKE3 (SCL3), SHORT-ROOT (SHR), DELLA, LATERAL SUPPRESSOR (LS), LIGHT SIGNALING through INTERACTIONS LIGHT-RESPONSIVE TRANSCRIPTION FACTOR PIFs (LISCL), HAIRY MERISTEM (HAM) and PHYTOCHROME A SIGNAL TRANSDUCTION1 (PAT1) ( Fan et al., 2017 ; Kumari et al., 2022 ; Lee et al., 2008 ; Tian et al., 2004 ); however, in some plant species number of subfamilies reported the higher number of subfamilies (for details, see the later section). These TFs are reported to regulate multiple biological processes and molecular functions, including gibberellic acid (GA) signaling ( Ikeda et al., 2001 ; Peng et al., 1997 ), brassinosteroid (BR) signaling ( Tong et al., 2009 ), shoot and axillary meristem maintenance ( Greb et al., 2003 ; Stuurman et al., 2002 ), radial organization of the root ( Helariutta et al., 2000 ), phytochrome signal transduction ( Bolle et al., 2000 ), nodulation and arbuscular mycorrhiza (AM) symbiosis ( Gobbato et al., 2012 ; Heckmann et al., 2006 ; Kaló et al., 2005 ; Pimprikar et al., 2016 ; Rich et al., 2017 ; Shtark et al., 2016 ) and abiotic stress responses ( Guo et al., 2019 ; Ma et al., 2010 ).…”

Section: Introductionmentioning

confidence: 99%

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Multifaceted roles of GRAS transcription factors in growth and stress responses in plants

Jaiswal¹,

Kakkar²,

Kumari³

et al. 2022

iScience

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Section: Gras Gene Family: Expansion and Diversification In The Plantsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Multifaceted roles of GRAS transcription factors in growth and stress responses in plants

Jaiswal¹,

Kakkar²,

Kumari³

et al. 2022

iScience

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“…For instance, the overexpression of GRAS protein SCL7 in Populus euphratica improved salt and drought tolerance in transgenic Arabidopsis plants ( Ma et al., 2010 ). Expression of RcGRAS genes were induced by exogenous gibberellin (GA) and drought stress and played prevalent roles in regulations of plant growth and development, GA and drought stress signaling ( Kumari et al., 2022 ). Overexpression of GRAS protein VaPAT1 from Vitis amurensis enhanced the salt, drought, and cold tolerance in transgenic Arabidopsis via the regulation of the expression of several stress-related genes ( Yuan et al., 2016 ).…”

Section: Introductionmentioning

confidence: 99%

Genome-wide identification, expression and salt stress tolerance analysis of the GRAS transcription factor family in Betula platyphylla

Tian

Zhang

et al. 2022

Front. Plant Sci.

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The GRAS gene family is a plant-specific family of transcription factors and play a vital role in many plant growth processes and abiotic stress responses. Nevertheless, the functions of the GRAS gene family in woody plants, especially in Betula platyphylla (birch), are hardly known. In this study, we performed a genome-wide analysis of 40 BpGRAS genes (BpGRASs) and identified typical GRAS domains of most BpGRASs. The BpGRASs were unevenly distributed on 14 chromosomes of birch and the phylogenetic analysis of six species facilitated the clustering of 265 GRAS proteins into 17 subfamilies. We observed that closely related GRAS homologs had similar conserved motifs according to motif analysis. Besides, an analysis of the expression patterns of 26 BpGRASs showed that most BpGRASs were highly expressed in the leaves and responded to salt stress. Six BpGRASs were selected for cis-acting element analysis because of their significant upregulation under salt treatment, indicating that many elements were involved in the response to abiotic stress. This result further confirmed that these BpGRASs might participate in response to abiotic stress. Transiently transfected birch plants with transiently overexpressed 6 BpGRASs and RNAi-silenced 6 BpGRASs were generated for gain- and loss-of-function analysis, respectively. In addition, overexpression of BpGRAS34 showed phenotype resistant to salt stress, decreased the cell death and enhanced the reactive oxygen species (ROS) scavenging capabilities and proline content under salt treatment, consistent with the results in transiently transformed birch plants. This study is a systematic analysis of the GRAS gene family in birch plants, and the results provide insight into the molecular mechanism of the GRAS gene family responding to abiotic stress in birch plants.

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“…TFs are essential factors to regulate the biological process and plant growth [32][33][34][35]. The most enriched DEGs among TFs in our study were identified as AP2/ERF-ERF genes.…”

Section: Transcription Factors Regulating the Leaf Colorationmentioning

confidence: 61%

Dynamic transcriptome and network-based analysis of yellow leaf mutant Ginkgo biloba

Sun

Bai

et al. 2022

BMC Plant Biol

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Background Golden leaf in autumn is a prominent feature of deciduous tree species like Ginkgo biloba L., a landscape tree widely cultivated worldwide. However, little was known about the molecular mechanisms of leaf yellowing, especially its dynamic regulatory network. Here, we performed a suite of comparative physiological and dynamic transcriptional analyses on the golden-leaf cultivar and the wild type (WT) ginkgo to investigate the underlying mechanisms of leaf yellowing across different seasons. Results In the present study, we used the natural bud mutant cultivar with yellow leaves “Wannianjin” (YL) as materials. Physiological analysis revealed that higher ratios of chlorophyll a to chlorophyll b and carotenoid to chlorophyll b caused the leaf yellowing of YL. On the other hand, dynamic transcriptome analyses showed that genes related to chlorophyll metabolism played key a role in leaf coloration. Genes encoding non-yellow coloring 1 (NYC1), NYC1-like (NOL), and chlorophyllase (CLH) involved in the degradation of chlorophyll were up-regulated in spring. At the summer stage, down-regulated HEMA encoding glutamyl-tRNA reductase functioned in chlorophyll biosynthesis, while CLH involved in chlorophyll degradation was up-regulated, causing a lower chlorophyll accumulation. In carotenoid metabolism, genes encoding zeaxanthin epoxidase (ZEP) and 9-cis-epoxy carotenoid dioxygenase (NCED) showed significantly different expression levels in the WT and YL. Moreover, the weighted gene co-expression network analysis (WGCNA) suggested that the most associated transcriptional factor, which belongs to the AP2/ERF-ERF family, was engaged in regulating pigment metabolism. Furthermore, quantitative experiments validated the above results. Conclusions By comparing the golden-leaf cultivar and the wide type of ginkgo across three seasons, this study not only confirm the vital role of chlorophyll in leaf coloration of YL but also provided new insights into the seasonal transcriptome landscape and co-expression network. Our novel results pinpoint candidate genes for further wet-bench experiments in tree species.

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Genome-Wide Identification of GRAS Transcription Factors and Their Potential Roles in Growth and Development of Rose (Rosa chinensis)

Cited by 10 publications

References 94 publications

Multifaceted roles of GRAS transcription factors in growth and stress responses in plants

Multifaceted roles of GRAS transcription factors in growth and stress responses in plants

Genome-wide identification, expression and salt stress tolerance analysis of the GRAS transcription factor family in Betula platyphylla

Dynamic transcriptome and network-based analysis of yellow leaf mutant Ginkgo biloba

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