The tomato DDI2, a PCNA ortholog, associating with DDB1-CUL4 complex is required for UV-damaged DNA repair and plant tolerance to UV stress

Gao, Lanyang; Yang, Shengli; Zhu, Yunye; Zhang, Junfang; Zhuo, Ming; Miao, Ming; Tang, Xiaofeng; Liu, Yongsheng; Wang, Songhu

doi:10.1016/j.plantsci.2015.03.007

Cited by 7 publications

(4 citation statements)

References 36 publications

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“…In addition to its participation in the SCF complex, AT5G20570, which is considered a multi-functional gene, also contributes to CUL4-ROC1-DDB1-PRL1 E3 ligase [ 59 , 60 ]. Such ligase has been reported to interact with DWD proteins which has been confirmed to contribute to the fruit development and formation of specific resistances in various plants including Arabidopsis thaliana , validating the irreplaceable role of our predicted novel gene, AT5G20570 for fruit associated biological processes [ 61 , 62 ]. Another gene, AT4G29040 (as known as regulatory particle AAA-ATPase 2A), a DNA methylation associated gene, contributes to root meristem maintenance, gametogenesis, and DNA methylation [ 63 ].…”

Section: Resultssupporting

confidence: 54%

A Shortest-Path-Based Method for the Analysis and Prediction of Fruit-Related Genes in Arabidopsis thaliana

Zhu

Zhang

et al. 2016

PLoS ONE

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Biologically, fruits are defined as seed-bearing reproductive structures in angiosperms that develop from the ovary. The fertilization, development and maturation of fruits are crucial for plant reproduction and are precisely regulated by intrinsic genetic regulatory factors. In this study, we used Arabidopsis thaliana as a model organism and attempted to identify novel genes related to fruit-associated biological processes. Specifically, using validated genes, we applied a shortest-path-based method to identify several novel genes in a large network constructed using the protein-protein interactions observed in Arabidopsis thaliana. The described analyses indicate that several of the discovered genes are associated with fruit fertilization, development and maturation in Arabidopsis thaliana.

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Section: Resultssupporting

confidence: 54%

A Shortest-Path-Based Method for the Analysis and Prediction of Fruit-Related Genes in Arabidopsis thaliana

Zhu

Zhang

et al. 2016

PLoS ONE

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“…In Arabidopsis, DDB1 is associated with CUL4 and additional substrate receptor proteins including COP1 to form CUL4-RING ubiquitin ligase (CRL4) which is required for many cellular processes 23 – 25 . In tomato ( Solanum lycopersicum ), CUL4-DDB1 complex was proved to participate in plastid development and secondary metabolism 26 – 28 , epigenetic regulation 29 , and stress response 30 – 32 . The mutant high pigment -1 ( hp1 ), which is caused by a point mutation in tomato DDB1 ( SlDDB1 ) gene, displays the enhanced fruit nutrient contents resulting from the increased plastid (chloroplast) numbers and sizes in fruit cells 26 .…”

Section: Introductionmentioning

confidence: 99%

Tomato UV-B receptor SlUVR8 mediates plant acclimation to UV-B radiation and enhances fruit chloroplast development via regulating SlGLK2

Deng

et al. 2018

Sci Rep

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Plants utilize energy from sunlight to perform photosynthesis in chloroplast, an organelle that could be damaged by solar UV radiation. The ultraviolet-B (UV-B) photoreceptor UVR8 is required for UV-B perception and signal transduction. However, little is known about how UVR8 influence chloroplast development under UV-B radiation. Here, we characterized tomato UVR8 gene (SlUVR8) and our results indicated that SlUVR8 facilitate plant acclimation to UV-B stress by orchestrating expression of the UVB-responsive genes (HY5 and CHS) and accumulating UV-absorptive compounds. In addition, we also discovered that SlUVR8 promotes fruit chloroplast development through enhancing accumulation of transcription factor GOLDEN2-LIKE2 (SlGLK2) which determines chloroplast and chlorophyll levels. Furthermore, UV-B radiation could increase expression of SlGLK2 and its target genes in fruits and leaves. SlUVR8 is required for UVB-induced SlGLK2 expression. Together, our work not only identified the conserved functions of SlUVR8 gene in response to UV-B stress, but also uncovered a novel role that SlUVR8 could boost chloroplast development by accumulating SlGLK2 proteins.

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“…Arabidopsis has a small genome, a short life cycle and various transformation methods available, which make these species an attractive model for the study of DNA damage repair mechanisms and other genetic processes. Even though names of other vegetal species are not included in the keywords of DDR & Plant publications, the DDR mechanism has been studied in other different species to Arabidopsis such as tomato [ 51 , 52 ], rice [ 53 ], barley [ 54 ] as well as other important crop plants (review in [ 55 ]). Additionally, it should be note that since few years the term “Genome Stability” is used in several scientific conferences related to DDR, this is due that DDR is a biological process which helps to “Genome Stability.” This study is focused on DDR, where the associated keyword found is “Genomic instability,” which appears 184 times related to DDR, and 13 times in DDR &Plants.…”

Section: Resultsmentioning

confidence: 99%

DNA Damage Repair System in Plants: A Worldwide Research Update

Giménez

Manzano‐Agugliaro

2017

Genes

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Living organisms are usually exposed to various DNA damaging agents so the mechanisms to detect and repair diverse DNA lesions have developed in all organisms with the result of maintaining genome integrity. Defects in DNA repair machinery contribute to cancer, certain diseases, and aging. Therefore, conserving the genomic sequence in organisms is key for the perpetuation of life. The machinery of DNA damage repair (DDR) in prokaryotes and eukaryotes is similar. Plants also share mechanisms for DNA repair with animals, although they differ in other important details. Plants have, surprisingly, been less investigated than other living organisms in this context, despite the fact that numerous lethal mutations in animals are viable in plants. In this manuscript, a worldwide bibliometric analysis of DDR systems and DDR research in plants was made. A comparison between both subjects was accomplished. The bibliometric analyses prove that the first study about DDR systems in plants (1987) was published thirteen years later than that for other living organisms (1975). Despite the increase in the number of papers about DDR mechanisms in plants in recent decades, nowadays the number of articles published each year about DDR systems in plants only represents 10% of the total number of articles about DDR. The DDR research field was done by 74 countries while the number of countries involved in the DDR & Plant field is 44. This indicates the great influence that DDR research in the plant field currently has, worldwide. As expected, the percentage of studies published about DDR systems in plants has increased in the subject area of agricultural and biological sciences and has diminished in medicine with respect to DDR studies in other living organisms. In short, bibliometric results highlight the current interest in DDR research in plants among DDR studies and can open new perspectives in the research field of DNA damage repair.

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The tomato DDI2, a PCNA ortholog, associating with DDB1-CUL4 complex is required for UV-damaged DNA repair and plant tolerance to UV stress

Cited by 7 publications

References 36 publications

A Shortest-Path-Based Method for the Analysis and Prediction of Fruit-Related Genes in Arabidopsis thaliana

A Shortest-Path-Based Method for the Analysis and Prediction of Fruit-Related Genes in Arabidopsis thaliana

Tomato UV-B receptor SlUVR8 mediates plant acclimation to UV-B radiation and enhances fruit chloroplast development via regulating SlGLK2

DNA Damage Repair System in Plants: A Worldwide Research Update

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