How Many Faces Does the Plant U-Box E3 Ligase Have?

Mao, Xinguo; Yu, Chunmei; Li, Long; Wang, Min; Yang, Lili; Zhang, Yining; Zhang, Yanfei; Wang, Jingyi; Li, Chaonan; Reynolds, Matthew; Jing, Ruilian

doi:10.3390/ijms23042285

Cited by 15 publications

(19 citation statements)

References 111 publications

(173 reference statements)

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“…The U-box gene encodes a conserved U-box motif of about 70 amino acids and is a member of the ubiquitin ligase family, which regulates ubiquitination of substrates [6]. U-box genes are widely distributed in plants and participate in many biological processes, including responses to biotic and abiotic stresses [9,12]. At present, PUB genes have been found to play an important role in response to salt tolerance in many plant species, such as wheat, A. thaliana, tomato, and soybean [22,23,25].…”

Section: Genome-wide and Phylogenetic Analysis Of Sbpub Genes In Sorghummentioning

confidence: 99%

“…Moreover, ubiquitin mediated proteolysis was found among the top Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways of sorghum salt tolerance. To date, PUB proteins have been found to be related to salt tolerance in many plants, but have been rarely studied in sorghum [5,12,25]. In this study, we identi ed PUB genes genome-wide and analyzed their gene structure and evolution.…”

Section: Introductionmentioning

confidence: 99%

“…The ubiquitin ligases promote covalent binding of ubiquitin to target proteins in eukaryotes, resulting in the addition of a single protein or protein complex to the ubiquitin reaction [8,9]. The U-box domain consists of about 75 amino acids, and many plant U-box (PUB) proteins play a crucial role in development and physiological processes, such as plant hormone responses, seed germination, and responses to biotic and abiotic stresses [10][11][12].…”

Section: Introductionmentioning

confidence: 99%

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Genome-wide identification and expression analysis of the U-box E3 ubiquitin ligase gene family related to salt tolerance in sorghum (Sorghum bicolor L.)

Ren

Cui

Bai

et al. 2022

Preprint

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Background: Plant U-box (PUB) E3 ubiquitin ligases play essential roles in many biological processes and stress responses, but little is known about their functions in sorghum (Sorghum bicolor L.). Results: In the present study, 59 SbPUBgenes were identified in the sorghum genome. Based on the phylogenetic analysis, the 59 SbPUB genes were clustered into five groups, which were also supported by the conserved motifs and structures of these genes. SbPUBgenes were found to be unevenly distributed on the 10 chromosomes of sorghum. Most PUB genes (16) were found on chromosome 4, but there were no PUBgenes on chromosome 5. Analysis of cis-acting elements showed that SbPUBgenes were involved in many important biological processes, particularly in response to salt stress. From proteomic and transcriptomic data, we found that several SbPUB genes had diverse expression under different salt treatments. To verify the expression of SbPUBs, qRT-PCR analyses also were conducted under salt stress, and the result were consistent with the expression analysis. Furthermore, 12 SbPUB genes were found to contain MYB-related elements, which are important regulators of flavonoid biosynthesis. These results, which were consistent with our previous multi-omics analysis of sorghum salt stress, laid a solid foundation for further mechanistic study of salt tolerance in sorghum. Our study showed that PUB genes play a crucial role in regulating salt stress, and might serve as promising targets for breeding of salt-tolerant sorghum in the future.

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Section: Genome-wide and Phylogenetic Analysis Of Sbpub Genes In Sorghummentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Genome-wide identification and expression analysis of the U-box E3 ubiquitin ligase gene family related to salt tolerance in sorghum (Sorghum bicolor L.)

Ren

Cui

Bai

et al. 2022

Preprint

View full text Add to dashboard Cite

show abstract

“…The ubiquitin ligases promote the covalent binding of ubiquitin to target proteins in eukaryotes, resulting in the addition of a single protein or protein complex to the ubiquitin reaction (Berndsen and Wolberger, 2014;Wang et al, 2022). The U-box domain consists of about 75 amino acids, and many plant U-box (PUB) proteins play a crucial role in the development and physiological processes, such as plant hormone responses, seed germination, and responses to biotic and abiotic stresses (Ohi et al, 2003;Zeng et al, 2006;Mao et al, 2022).…”

Section: Introductionmentioning

confidence: 99%

Genome-wide identification and expression analysis of the U-box E3 ubiquitin ligase gene family related to salt tolerance in sorghum (Sorghum bicolor L.)

et al. 2023

View full text Add to dashboard Cite

Plant U-box (PUB) E3 ubiquitin ligases play essential roles in many biological processes and stress responses, but little is known about their functions in sorghum (Sorghum bicolor L.). In the present study, 59 SbPUB genes were identified in the sorghum genome. Based on the phylogenetic analysis, the 59 SbPUB genes were clustered into five groups, which were also supported by the conserved motifs and structures of these genes. SbPUB genes were found to be unevenly distributed on the 10 chromosomes of sorghum. Most PUB genes (16) were found on chromosome 4, but there were no PUB genes on chromosome 5. Analysis of cis-acting elements showed that SbPUB genes were involved in many important biological processes, particularly in response to salt stress. From proteomic and transcriptomic data, we found that several SbPUB genes had diverse expressions under different salt treatments. To verify the expression of SbPUBs, qRT-PCR analyses also were conducted under salt stress, and the result was consistent with the expression analysis. Furthermore, 12 SbPUB genes were found to contain MYB-related elements, which are important regulators of flavonoid biosynthesis. These results, which were consistent with our previous multi-omics analysis of sorghum salt stress, laid a solid foundation for further mechanistic study of salt tolerance in sorghum. Our study showed that PUB genes play a crucial role in regulating salt stress, and might serve as promising targets for the breeding of salt-tolerant sorghum in the future.

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“…The ubiquitination system includes a cascade of enzymatic reactions determining by three main enzymes: ubiquitin-activating enzyme (E1), ubiquitin-conjugating enzyme (E2), and ubiquitin-ligase enzyme (E3). The E3 ligase can be divided into two classes: the Homologous to E6-associated protein Carboxyl Terminus type and the Really Interesting New Gene (RING)/U-box type (Mao et al 2022 ). GW2 encoding a RING-type protein with E3 ubiquitin ligase activity showed a major effect on grain size (Song et al 2007 ).…”

Section: Introductionmentioning

confidence: 99%

Control of Grain Weight and Size in Rice (Oryza sativa L.) by OsPUB3 Encoding a U-Box E3 Ubiquitin Ligase

Wang

Zhang

Fan

et al. 2022

Rice

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Grain weight and size, mostly determined by grain length, width and thickness, are crucial traits affecting grain quality and yield in rice. A quantitative trait locus controlling grain length and width in rice, qGS1-35.2, was previously fine-mapped in a 57.7-kb region on the long arm of chromosome 1. In this study, OsPUB3, a gene encoding a U-box E3 ubiquitin ligase, was validated as the causal gene for qGS1-35.2. The effects were confirmed firstly by using CRISPR/Cas9-based mutagenesis and then through transgenic complementation of a Cas9-free knock-out (KO) mutant. Two homozygous KO lines were produced, each having a 1-bp insertion in OsPUB3 which caused frameshift mutation and premature termination. Compared with the recipient and a transgenic-negative control, both mutants showed significant decreases in grain weight and size. In transgenic complementation populations derived from four independent T0 plants, grain weight of transgenic-positive plants was significantly higher than transgenic-negative plants, coming with increased grain length and a less significant decrease in grain width. Based on data documented in RiceVarMap V2.0, eight haplotypes were classified according to six single-nucleotide polymorphisms (SNPs) found in the OsPUB3 coding region of 4695 rice accessions. Significant differences on grain size traits were detected between the three major haplotypes, Hap1, Hap2 and Hap3 that jointly occupy 98.6% of the accessions. Hap3 having the largest grain weight and grain length but intermediate grain width exhibits a potential for simultaneously improving grain yield and quality. In another set of 257 indica rice cultivars tested in our study, Hap1 and Hap2 remained to be the two largest groups. Their differences on grain weight and size were significant in the background of non-functional gse5, but non-significant in the background of functional GSE5, indicating a genetic interaction between OsPUB3 and GSE5. Cloning of OsPUB3 provides a new gene resource for investigating the regulation of grain weight and size.

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How Many Faces Does the Plant U-Box E3 Ligase Have?

Cited by 15 publications

References 111 publications

Genome-wide identification and expression analysis of the U-box E3 ubiquitin ligase gene family related to salt tolerance in sorghum (Sorghum bicolor L.)

Genome-wide identification and expression analysis of the U-box E3 ubiquitin ligase gene family related to salt tolerance in sorghum (Sorghum bicolor L.)

Genome-wide identification and expression analysis of the U-box E3 ubiquitin ligase gene family related to salt tolerance in sorghum (Sorghum bicolor L.)

Control of Grain Weight and Size in Rice (Oryza sativa L.) by OsPUB3 Encoding a U-Box E3 Ubiquitin Ligase

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