Zeocin-induced DNA damage response in barley and its dependence on ATR
Abstract DNA damage response (DDR) is an essential mechanism by which living organisms maintain their genomic stability. In plants, DDR is important also for normal growth and yield. Here, we explored the DDR of a temperate model crop barley (Hordeum vulgare) at the phenotypic, physiological, and tr...
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| Format: | Article |
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Nature Portfolio
2024-02-01
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| Series: | Scientific Reports |
| Online Access: | https://doi.org/10.1038/s41598-024-53264-0 |
| _version_ | 1797274521506414592 |
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| author | Jovanka Vladejić Martin Kovacik Jana Zwyrtková Miriam Szurman-Zubrzycka Jaroslav Doležel Ales Pecinka |
| author_facet | Jovanka Vladejić Martin Kovacik Jana Zwyrtková Miriam Szurman-Zubrzycka Jaroslav Doležel Ales Pecinka |
| author_sort | Jovanka Vladejić |
| collection | DOAJ |
| description | Abstract DNA damage response (DDR) is an essential mechanism by which living organisms maintain their genomic stability. In plants, DDR is important also for normal growth and yield. Here, we explored the DDR of a temperate model crop barley (Hordeum vulgare) at the phenotypic, physiological, and transcriptomic levels. By a series of in vitro DNA damage assays using the DNA strand break (DNA-SB) inducing agent zeocin, we showed reduced root growth and expansion of the differentiated zone to the root tip. Genome-wide transcriptional profiling of barley wild-type and plants mutated in DDR signaling kinase ATAXIA TELANGIECTASIA MUTATED AND RAD3-RELATED (hvatr.g) revealed zeocin-dependent, ATR-dependent, and zeocin-dependent/ATR-independent transcriptional responses. Transcriptional changes were scored also using the newly developed catalog of 421 barley DDR genes with the phylogenetically-resolved relationships of barley SUPRESSOR OF GAMMA 1 (SOG1) and SOG1-LIKE (SGL) genes. Zeocin caused up-regulation of specific DDR factors and down-regulation of cell cycle and histone genes, mostly in an ATR-independent manner. The ATR dependency was obvious for some factors associated with DDR during DNA replication and for many genes without an obvious connection to DDR. This provided molecular insight into the response to DNA-SB induction in the large and complex barley genome. |
| first_indexed | 2024-03-07T14:59:35Z |
| format | Article |
| id | doaj.art-954d97acf3274dc38ab26490282c72d7 |
| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-03-07T14:59:35Z |
| publishDate | 2024-02-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj.art-954d97acf3274dc38ab26490282c72d72024-03-05T19:12:41ZengNature PortfolioScientific Reports2045-23222024-02-0114111610.1038/s41598-024-53264-0Zeocin-induced DNA damage response in barley and its dependence on ATRJovanka Vladejić0Martin Kovacik1Jana Zwyrtková2Miriam Szurman-Zubrzycka3Jaroslav Doležel4Ales Pecinka5Centre of Plant Structural and Functional Genomics, Institute of Experimental Botany of the Czech Academy of SciencesCentre of Plant Structural and Functional Genomics, Institute of Experimental Botany of the Czech Academy of SciencesCentre of Plant Structural and Functional Genomics, Institute of Experimental Botany of the Czech Academy of SciencesInstitute of Biology, Biotechnology and Environmental Protection, Faculty of Natural Sciences, University of Silesia in KatowiceCentre of Plant Structural and Functional Genomics, Institute of Experimental Botany of the Czech Academy of SciencesCentre of Plant Structural and Functional Genomics, Institute of Experimental Botany of the Czech Academy of SciencesAbstract DNA damage response (DDR) is an essential mechanism by which living organisms maintain their genomic stability. In plants, DDR is important also for normal growth and yield. Here, we explored the DDR of a temperate model crop barley (Hordeum vulgare) at the phenotypic, physiological, and transcriptomic levels. By a series of in vitro DNA damage assays using the DNA strand break (DNA-SB) inducing agent zeocin, we showed reduced root growth and expansion of the differentiated zone to the root tip. Genome-wide transcriptional profiling of barley wild-type and plants mutated in DDR signaling kinase ATAXIA TELANGIECTASIA MUTATED AND RAD3-RELATED (hvatr.g) revealed zeocin-dependent, ATR-dependent, and zeocin-dependent/ATR-independent transcriptional responses. Transcriptional changes were scored also using the newly developed catalog of 421 barley DDR genes with the phylogenetically-resolved relationships of barley SUPRESSOR OF GAMMA 1 (SOG1) and SOG1-LIKE (SGL) genes. Zeocin caused up-regulation of specific DDR factors and down-regulation of cell cycle and histone genes, mostly in an ATR-independent manner. The ATR dependency was obvious for some factors associated with DDR during DNA replication and for many genes without an obvious connection to DDR. This provided molecular insight into the response to DNA-SB induction in the large and complex barley genome.https://doi.org/10.1038/s41598-024-53264-0 |
| spellingShingle | Jovanka Vladejić Martin Kovacik Jana Zwyrtková Miriam Szurman-Zubrzycka Jaroslav Doležel Ales Pecinka Zeocin-induced DNA damage response in barley and its dependence on ATR Scientific Reports |
| title | Zeocin-induced DNA damage response in barley and its dependence on ATR |
| title_full | Zeocin-induced DNA damage response in barley and its dependence on ATR |
| title_fullStr | Zeocin-induced DNA damage response in barley and its dependence on ATR |
| title_full_unstemmed | Zeocin-induced DNA damage response in barley and its dependence on ATR |
| title_short | Zeocin-induced DNA damage response in barley and its dependence on ATR |
| title_sort | zeocin induced dna damage response in barley and its dependence on atr |
| url | https://doi.org/10.1038/s41598-024-53264-0 |
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