The Nucleotide‐Dependent Interactome of Rice Heterotrimeric G‐Protein α ‐Subunit

Biswal, Akshaya Kumar; McConnell, Evan W.; Werth, Emily G.; Lo, Shuen‐Fang; Yu, Su‐May; Hicks, Leslie M.; Jones, Alan M.

doi:10.1002/pmic.201800385

Cited by 8 publications

(4 citation statements)

References 41 publications

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“…Its target mRNA is novel-osa-miR194-3p [23], which is presumed to be a new gene related to the dehydration rate. Os06g0513943 was up-regulated in the rapid dehydration genotype; its main function is to maintain the integrity of the membrane, reduce physical damage to the seeds, and perform a self-defense role [24]. LOC112938716 was down-regulated in the rapid dehydration genotype, indicating that its expression was inhibited during dehydration.…”

Section: Discussionmentioning

confidence: 99%

Transcriptomic Analysis of the Dehydration Rate of Mature Rice (Oryza sativa) Seeds

Liu

Gui

Yan

et al. 2023

IJMS

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In this study, a transcriptomic analysis of the dehydration rate of mature rice seeds was conducted to explore candidate genes related to the dehydration rate and provide a theoretical basis for breeding and utilization. We selected two rice cultivars for testing (Baghlani Nangarhar, an extremely rapid dehydration genotype, and Saturn, a slow dehydration genotype) based on the results determined by previous studies conducted on the screening of 165 germplasm materials for dehydration rate phenotypes. A rapid dehydration experiment performed on these two types of seeds was conducted. Four comparative groups were set up under control and dehydration conditions. The differentially expressed genes (DEGs) were quantified via transcriptome sequencing and real-time quantitative PCR (RT-qPCR). GO (Gene ontology) and KEGG(Kyoto Encyclopedia of Genes and Genomes) analyses were also conducted. In Baghlani Nangarhar, 53 DEGs were screened, of which 33 were up-regulated and 20 were down-regulated. In Saturn, 25 DEGs were screened, of which 19 were up-regulated and 6 were down-regulated. The results of the GO analysis show that the sites of action of the differentially expressed genes enriched in the rapid dehydration modes are concentrated in the cytoplasm, internal components of the membrane, and nucleosomes. They play regulatory roles in the processes of catalysis, binding, translocation, transcription, protein folding, degradation, and replication. They are also involved in adaptive responses to adverse external environments, such as reactive oxygen species and high temperature. The KEGG analysis showed that protein processing in the endoplasmic reticulum, amino acid biosynthesis, and oxidative phosphorylation were the main metabolic pathways that were enriched. The key differentially expressed genes and the most important metabolic pathways identified in the rapidly and slowly dehydrated genotypes were protein processing in the endoplasmic reticulum and oxidative phosphorylation metabolism. They were presumed to have important regulatory roles in the mechanisms of stress/defense, energy metabolism, protein synthesis/folding, and signal transduction during the dehydration and drying of mature seeds. The results of this study can potentially provide valuable information for further research on the genes and metabolic pathways related to the dehydration rate of mature rice seeds, and provide theoretical guidance for the selection and breeding of new rice germplasm that can be rapidly dehydrated at the mature stage.

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Section: Discussionmentioning

confidence: 99%

Transcriptomic Analysis of the Dehydration Rate of Mature Rice (Oryza sativa) Seeds

Liu

Gui

Yan

et al. 2023

IJMS

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“…RGA1 has a selfactivation/deactivation, nucleic acid-dependent regulatory mechanism. Thus, rice is an ideal model plant species to discover the regulatory mechanism of new activation (Temple and Jones, 2007;Biswal et al, 2019).…”

Section: Review Articlementioning

confidence: 99%

Control of Plant Height by Heterotrimeric G-Protein Αlpha Subunit in Rice

2021

THE JAPS

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Plant height is an important agronomic trait in rice that affects rice morphogenesis, apical dominance, harvest index and yield. Rice plant height is controlled by genes that lie in a complex regulatory network. At present, many plant heightrelated genes have been identified in rice, among which heterotrimeric G-protein α subunit, RGA1, is an important regulator. RGA1 is involved in cell division and regulates internode cell number, and in the biosynthesis and responses to phytohormones gibberellin (GA) and brassinosteroid (BR) signalling that regulates stem and internode elongation. Additionally, RGA1 affects rice plant height via the effect on nitrogen uptake and utilization and the interaction with drought stress responses. This review summarizes the progress on the regulation of rice plant height by RGA1 and proposes a focus of future research on the influence of RGA1 on rice plant height. We hope to provide a theoretical foundation for elucidating the regulatory mechanism of plant height and the application of RGA1 in the genetic improvement of plant height for a high and stable grain yield in rice production. We also propose new ideas for revealing the integral functions of G-proteins in rice.

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“…Unlike A. thaliana, very little interaction data have been produced for rice, Oryza sativa, despite its economic importance as a staple food. The majority of interactome networks in this species were computationally-predicted, although some experimental data have been produced [245][246][247]. Interolog mapping was used to create a proteome-wide interactome for rice, which correlated well [13] with co-expression data [248].…”

Section: Plantsmentioning

confidence: 99%

Expanding Interactome Analyses beyond Model Eukaryotes

James¹,

Wipat²,

Cockell³

2021

Preprint

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Interactome analyses have traditionally been applied to yeast, human and other model organisms due to the availability of protein-protein interactions data for these species. Recently these techniques have been applied to more diverse species using computational interaction prediction from genome sequence and other data types. This review describes the various types of computational interactome networks that can be created and how they have been used in diverse eukaryotic species, highlighting some of the key interactome studies in non-model organisms.

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The Nucleotide‐Dependent Interactome of Rice Heterotrimeric G‐Protein α ‐Subunit

Cited by 8 publications

References 41 publications

Transcriptomic Analysis of the Dehydration Rate of Mature Rice (Oryza sativa) Seeds

Transcriptomic Analysis of the Dehydration Rate of Mature Rice (Oryza sativa) Seeds

Control of Plant Height by Heterotrimeric G-Protein Αlpha Subunit in Rice

Expanding Interactome Analyses beyond Model Eukaryotes

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