<i>SDG721</i> and <i>SDG705</i> are required for rice growth

Jiang, Pengfei; Wang, Shiliang; Ikram, Aziz Ul; Xu, Zhenggang; Jiang, Haiyang; Cheng, Beijiu; Ding, Yong

doi:10.1111/jipb.12644

Cited by 19 publications

(15 citation statements)

References 16 publications

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“…In rice, ATX3-like proteins SDG721 and SDG705 function redundantly in modulating H3K4 methylation levels. The loss of both genes results in semi-dwarfism [67]. Considering the dwarf phenotype of ATX3-like mutants in Arabidopsis and rice, the homologs in D. catenatum and P. equestris might be involved in regulating plant architecture.…”

Section: Class I: E(z)-like (H3k27me2/3)mentioning

confidence: 99%

Genome-wide identification and expression profiling of SET DOMAIN GROUP family in Dendrobium catenatum

et al. 2020

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Background Dendrobium catenatum, as a precious Chinese herbal medicine, is an epiphytic orchid plant, which grows on the trunks and cliffs and often faces up to diverse environmental stresses. SET DOMAIN GROUP (SDG) proteins act as histone lysine methyltransferases, which are involved in pleiotropic developmental events and stress responses through modifying chromatin structure and regulating gene transcription, but their roles in D. catenatum are unknown. Results In this study, we identified 44 SDG proteins from D. catenatum genome. Subsequently, comprehensive analyses related to gene structure, protein domain organization, and phylogenetic relationship were performed to evaluate these D. catenatum SDG (DcSDG) proteins, along with the well-investigated homologs from the model plants Arabidopsis thaliana and Oryza sativa as well as the newly characterized 42 SDG proteins from a closely related orchid plant Phalaenopsis equestris. We showed DcSDG proteins can be grouped into eight distinct classes (I~VII and M), mostly consistent with the previous description. Based on the catalytic substrates of the reported SDG members mainly in Arabidopsis, Class I (E(z)-Like) is predicted to account for the deposition of H3K27me2/3, Class II (Ash-like) for H3K36me, Class III (Trx/ATX-like) for H3K4me2/3, Class M (ATXR3/7) for H3K4me, Class IV (Su (var)-like) for H3K27me1, Class V (Suv-like) for H3K9me, as well as class VI (S-ET) and class VII (RBCMT) for methylation of both histone and non-histone proteins. RNA-seq derived expression profiling showed that DcSDG proteins usually displayed wide but distinguished expressions in different tissues and organs. Finally, environmental stresses examination showed the expressions of DcASHR3, DcSUVR3, DcATXR4, DcATXR5b, and DcSDG49 are closely associated with drought-recovery treatment, the expression of DcSUVH5a, DcATXR5a and DcSUVR14a are significantly influenced by low temperature, and even 61% DcSDG genes are in response to heat shock. Conclusions This study systematically identifies and classifies SDG genes in orchid plant D. catenatum, indicates their functional divergence during the evolution, and discovers their broad roles in the developmental programs and stress responses. These results provide constructive clues for further functional investigation and epigenetic mechanism dissection of SET-containing proteins in orchids.

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Section: Class I: E(z)-like (H3k27me2/3)mentioning

confidence: 99%

Genome-wide identification and expression profiling of SET DOMAIN GROUP family in Dendrobium catenatum

et al. 2020

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“…In rice, ATX3-like proteins SDG721 and SDG705 function redundantly in modulating H3K4 methylation levels. The loss of both genes results in semi-dwarfism, shortened panicle branching and, reduced cell length due to decreased transcription levels and H3K4me3 deposition associated with gibberellin biosynthetic and signaling genes [73]. Considering the dwarf phenotype of ATX3-like mutants in Arabidopsis and rice, the homologs in D. catenatum and P. equestris might be involved in regulating plant architecture.…”

Section: Class I: E(z)-like (H3k27me2/3)mentioning

confidence: 99%

Genome-wide identification and expression profiling of SET DOMAIN GROUP family in Dendrobium catenatum

Chen

Qiu

Huang

et al. 2019

Preprint

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Background: Dendrobium catenatum used as a precious Chinese herbal medicine is a kind of epiphytic orchid plant which grows on the trunks and cliffs and often faces up to diverse environmental stresses. SET DOMAIN GROUP (SDG) proteins act as histone lysine methyltransferases which are involved in pleiotropic developmental events and stress responses through modifying chromatin structure and regulating gene transcription, but their roles in D. catenatum are unknown.Results: In this study, we identified 44 SDG proteins from D. catenatum genome. Subsequently, comprehensive analyses related to gene structure, protein domain organization, and phylogenetic relationship were performed to evaluate these D. catenatum SDG (DcSDG) proteins, along with the well-investigated homologs from the model plants Arabidopsis thaliana and Oryza sativa as well as the newly characterized 42 SDG proteins from a closely related orchid plant Phalaenopsis equestris .We showed DcSDG proteins can be grouped into eight distinct classes (I~VII and M), mostly consistent with the previous description. Based on the catalytic substrates of the reported SDG members mainly in Arabidopsis, Class I (E(z)-Like) is predicted to account for the deposition of H3K27me2/3, Class II (Ash-like) for H3K36me, Class III (Trx/ATX-like) for H3K4me2/3, Class M (ATXR3/7) for H3K4me, Class IV (Su(var)-like) for H3K27me1, Class V (Suv-like) for H3K9me, as well as class VI (S-ET) and class VII (RBCMT) for methylation of both histone and non-histone proteins. RNAseq derived expression profiling showed that DcSDG proteins usually have wide but distinguished expression in different tissues and organs. Finally, environmental stresses examination showed the expression of DcASHR3, DcSUVR3, DcATXR4, DcATXR5b, and DcSDG49 is closely associated with drought-recovery treatment, the expression of DcSUVH5a , DcATXR5a and DcSUVR14a is significantly influenced by low temperature, and even 61% DcSDG genes are in response to heat shock.Conclusions: This study systematically identifies and classifies SDG genes in orchid plant D. catenatum , indicates their functional divergence during the evolution, and discovers their broad roles in the developmental programs and stress responses. These results provide constructive clues for further functional investigation and epigenetic mechanism dissection of SET-containing proteins in orchid.3

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“…The trithorax group (TrxG) protein family comprises a large number of functionally diverse regulatory proteins (Kingston and Tamkun, 2014 ), including the Su(var)3‐9, Enhancer‐of‐zeste and Trithorax (SET) domain‐containing proteins with H3K4 methyltransferase activity, ATP‐dependent chromatin‐remodelling factors and other associated proteins (Avramova, 2009 ; Krajewski et al ., 2005 ). The rice genome harbours three genes encoding TrxG family proteins, including the SET domain group protein 723 (OsSDG723; related to ATX1 and ATX2), OsSDG721 (closely related to ATX3) and OsSDG705 (related to ATX4 and ATX5) (Jiang et al ., 2018 ). Loss‐of‐function mutations of OsSDG721 and OsSDG705 in Oryza sativa ssp.…”

Section: Introductionmentioning

confidence: 99%

SET DOMAIN GROUP 721 protein functions in saline–alkaline stress tolerance in the model rice variety Kitaake

Liu

Chen

Xue

et al. 2021

Plant Biotechnology Journal

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To isolate the genetic locus responsible for saline-alkaline stress tolerance, we developed a high-throughput activation tagging-based T-DNA insertion mutagenesis method using the model rice (Oryza sativa L.) variety Kitaake. One of the activation-tagged insertion lines, activation tagging 7 (AC7), showed increased tolerance to saline-alkaline stress. This phenotype resulted from the overexpression of a gene that encodes a SET DOMAIN GROUP 721 protein with H3K4 methyltransferase activity. Transgenic plants overexpressing OsSDG721 showed saline-alkaline stress-tolerant phenotypes, along with increased leaf angle, advanced heading and ripening dates. By contrast, ossdg721 loss-of-function mutants showed increased sensitivity to saline-alkaline stress characterized by decreased survival rates and reduction in plant height, grain size, grain weight and leaf angle. RNA sequencing (RNAseq) analysis of wild-type Kitaake and ossdg721 mutants indicated that OsSDG721 positively regulates the expression level of HIGH-AFFINITY POTASSIUM (K + ) TRANSPORTER1;5 (OsHKT1;5), which encodes a Na + -selective transporter that maintains K + /Na + homeostasis under salt stress. Furthermore, we showed that OsSDG721 binds to and deposits the H3K4me3 mark in the promoter and coding region of OsHKT1;5, thereby upregulating OsHKT1;5 expression under saline-alkaline stress. Overall, by generating Kitaake activationtagging pools, we established that the H3K4 methyltransferase OsSDG721 enhances salinealkaline stress tolerance in rice.

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SDG721 and SDG705 are required for rice growth

Cited by 19 publications

References 16 publications

Genome-wide identification and expression profiling of SET DOMAIN GROUP family in Dendrobium catenatum

Genome-wide identification and expression profiling of SET DOMAIN GROUP family in Dendrobium catenatum

Genome-wide identification and expression profiling of SET DOMAIN GROUP family in Dendrobium catenatum

SET DOMAIN GROUP 721 protein functions in saline–alkaline stress tolerance in the model rice variety Kitaake

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