Molecular dissection of two homoeologous wheat genes encoding RING H2-type E3 ligases: TaSIRFP-3A and TaSIRFP-3B

Park, Yong Chan; Jang, Cheol Seong

doi:10.1007/s00425-020-03431-0

Cited by 3 publications

(2 citation statements)

References 59 publications

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“…Abiotic stress conditions, especially cold stress, considerably impacts expression bias of homeologs involved in physiological responses. Homeologs with differential gene expression are involved in the CBF-COR signaling pathway, fatty acid metabolism which impacts plasma membrane fluidity and stabilization, scavenging reactive oxygen species, sucrose metabolism, and accumulation of secondary metabolites, all which contribute to cold tolerance ( Combes et al., 2013 ; Lee and Adams, 2020 ; Park and Jang, 2020 ; Wu et al., 2022 ). Therefore, studying homeolog gene expression and their sub-functionalization provides foundational knowledge that can be utilized in engineering cold tolerant camelina.…”

Section: Resultsmentioning

confidence: 99%

Cold stress induces differential gene expression of retained homeologs in Camelina sativa cv Suneson

Fang,

Hamilton,

Vaillancourt

et al. 2023

Front. Plant Sci.

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Camelina sativa (L.) Crantz, a member of the Brassicaceae, has potential as a biofuel feedstock which is attributable to the production of fatty acids in its seeds, its fast growth cycle, and low input requirements. While a genome assembly is available for camelina, it was generated from short sequence reads and is thus highly fragmented in nature. Using long read sequences, we generated a chromosome-scale, highly contiguous genome assembly (644,491,969 bp) for the spring biotype cultivar ‘Suneson’ with an N50 contig length of 12,031,512 bp and a scaffold N50 length of 32,184,682 bp. Annotation of protein-coding genes revealed 91,877 genes that encode 133,355 gene models. We identified a total of 4,467 genes that were significantly up-regulated under cold stress which were enriched in gene ontology terms associated with “response to cold” and “response to abiotic stress”. Coexpression analyses revealed multiple coexpression modules that were enriched in genes differentially expressed following cold stress that had putative functions involved in stress adaptation, specifically within the plastid. With access to a highly contiguous genome assembly, comparative analyses with Arabidopsis thaliana revealed 23,625 A. thaliana genes syntenic with 45,453 Suneson genes. Of these, 24,960 Suneson genes were syntenic to 8,320 A. thaliana genes reflecting a 3 camelina homeolog to 1 Arabidopsis gene relationship and retention of all three homeologs. Some of the retained triplicated homeologs showed conserved gene expression patterns under control and cold-stressed conditions whereas other triplicated homeologs displayed diverged expression patterns revealing sub- and neo-functionalization of the homeologs at the transcription level. Access to the chromosome-scale assembly of Suneson will enable both basic and applied research efforts in the improvement of camelina as a sustainable biofuel feedstock.

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Section: Resultsmentioning

confidence: 99%

Cold stress induces differential gene expression of retained homeologs in Camelina sativa cv Suneson

Fang,

Hamilton,

Vaillancourt

et al. 2023

Front. Plant Sci.

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“…A few such examples include drought-responsive TaHVA1, TaRAV, and TaNAC [72,73,160,161]; salt-responsive TaCHYR, TaWRKY75, and TaKNOX11 [84,90,129]; cold-responsive TaEXPA, TaICE, and TaAREB [108,162,163]; and heat-responsive TaMYB, TabZIP, and TaHAG [80,82,83,164,165]. Histone demethylase drought stress [190] TaSIRFP-3A,TaSIRFP-3B RING-HC-type E3 ligases cold stress [191] Plants 2023, 12, 2465 9 of 21…”

Section: Contribution Of Duplicate Genes To Abiotic Stress Resistancementioning

confidence: 99%

Duplicate Genes Contribute to Variability in Abiotic Stress Resistance in Allopolyploid Wheat

Mao

2023

Plants

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Gene duplication is a universal biological phenomenon that drives genomic variation and diversity, plays a crucial role in plant evolution, and contributes to innovations in genetic engineering and crop development. Duplicated genes participate in the emergence of novel functionality, such as adaptability to new or more severe abiotic stress resistance. Future crop research will benefit from advanced, mechanistic understanding of the effects of gene duplication, especially in the development and deployment of high-performance, stress-resistant, elite wheat lines. In this review, we summarize the current knowledge of gene duplication in wheat, including the principle of gene duplication and its effects on gene function, the diversity of duplicated genes, and how they have functionally diverged. Then, we discuss how duplicated genes contribute to abiotic stress response and the mechanisms of duplication. Finally, we have a future prospects section that discusses the direction of future efforts in the short term regarding the elucidation of replication and retention mechanisms of repetitive genes related to abiotic stress response in wheat, excellent gene function research, and practical applications.

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CsMIEL1 effectively inhibits the accumulation of anthocyanins under low temperatures in tea plants (Camellia sinensis)

Xing,

Jin,

Zheng

et al. 2024

Plant Physiology and Biochemistry

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Molecular dissection of two homoeologous wheat genes encoding RING H2-type E3 ligases: TaSIRFP-3A and TaSIRFP-3B

Cited by 3 publications

References 59 publications

Cold stress induces differential gene expression of retained homeologs in Camelina sativa cv Suneson

Cold stress induces differential gene expression of retained homeologs in Camelina sativa cv Suneson

Duplicate Genes Contribute to Variability in Abiotic Stress Resistance in Allopolyploid Wheat

CsMIEL1 effectively inhibits the accumulation of anthocyanins under low temperatures in tea plants (Camellia sinensis)

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