Genome-Wide Identification of RNA Silencing-Related Genes and Their Expressional Analysis in Response to Heat Stress in Barley (<i>Hordeum vulgare</i> L.)
Barley (<i>Hordeum vulgare</i> L.) is an economically important crop cultivated in temperate climates all over the world. Adverse environmental factors negatively affect its survival and productivity. RNA silencing is a conserved pathway involved in the regulation of growth, development...
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MDPI AG
2020-06-01
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| Series: | Biomolecules |
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| Online Access: | https://www.mdpi.com/2218-273X/10/6/929 |
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| author | Éva Hamar Henrik Mihály Szaker András Kis Ágnes Dalmadi Fabio Miloro György Szittya János Taller Péter Gyula Tibor Csorba Zoltán Havelda |
| author_facet | Éva Hamar Henrik Mihály Szaker András Kis Ágnes Dalmadi Fabio Miloro György Szittya János Taller Péter Gyula Tibor Csorba Zoltán Havelda |
| author_sort | Éva Hamar |
| collection | DOAJ |
| description | Barley (<i>Hordeum vulgare</i> L.) is an economically important crop cultivated in temperate climates all over the world. Adverse environmental factors negatively affect its survival and productivity. RNA silencing is a conserved pathway involved in the regulation of growth, development and stress responses. The key components of RNA silencing are the Dicer-like proteins (DCLs), Argonautes (AGOs) and RNA-dependent RNA polymerases (RDRs). Despite its economic importance, there is no available comprehensive report on barley RNA silencing machinery and its regulation. In this study, we in silico identified five DCL (<i>HvDCL</i>), eleven AGO (<i>HvAGO</i>) and seven RDR (<i>HvRDR</i>) genes in the barley genome. Genomic localization, phylogenetic analysis, domain organization and functional/catalytic motif identification were also performed. To understand the regulation of RNA silencing, we experimentally analysed the transcriptional changes in response to moderate, persistent or gradient heat stress treatments: transcriptional accumulation of siRNA- but not miRNA-based silencing factor was consistently detected. These results suggest that RNA silencing is dynamically regulated and may be involved in the coordination of development and environmental adaptation in barley. In summary, our work provides information about barley RNA silencing components and will be a ground for the selection of candidate factors and in-depth functional/mechanistic analyses. |
| first_indexed | 2024-03-10T19:03:40Z |
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| institution | Directory Open Access Journal |
| issn | 2218-273X |
| language | English |
| last_indexed | 2024-03-10T19:03:40Z |
| publishDate | 2020-06-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Biomolecules |
| spelling | doaj.art-df8972a6b2374e41827edc031bab38b72023-11-20T04:18:05ZengMDPI AGBiomolecules2218-273X2020-06-0110692910.3390/biom10060929Genome-Wide Identification of RNA Silencing-Related Genes and Their Expressional Analysis in Response to Heat Stress in Barley (<i>Hordeum vulgare</i> L.)Éva Hamar0Henrik Mihály Szaker1András Kis2Ágnes Dalmadi3Fabio Miloro4György Szittya5János Taller6Péter Gyula7Tibor Csorba8Zoltán Havelda9Department of Plant Biotechnology, Agricultural Biotechnology Institute, National Agricultural Research and Innovation Centre, 2100 Gödöllő, HungaryDepartment of Plant Biotechnology, Agricultural Biotechnology Institute, National Agricultural Research and Innovation Centre, 2100 Gödöllő, HungaryDepartment of Plant Biotechnology, Agricultural Biotechnology Institute, National Agricultural Research and Innovation Centre, 2100 Gödöllő, HungaryDepartment of Plant Biotechnology, Agricultural Biotechnology Institute, National Agricultural Research and Innovation Centre, 2100 Gödöllő, HungaryDepartment of Plant Biotechnology, Agricultural Biotechnology Institute, National Agricultural Research and Innovation Centre, 2100 Gödöllő, HungaryDepartment of Plant Biotechnology, Agricultural Biotechnology Institute, National Agricultural Research and Innovation Centre, 2100 Gödöllő, HungaryDepartment of Plant Sciences and Biotechnology, Georgikon Faculty, University of Pannonia, 8360 Keszthely, HungaryDepartment of Plant Biotechnology, Agricultural Biotechnology Institute, National Agricultural Research and Innovation Centre, 2100 Gödöllő, HungaryDepartment of Plant Biotechnology, Agricultural Biotechnology Institute, National Agricultural Research and Innovation Centre, 2100 Gödöllő, HungaryDepartment of Plant Biotechnology, Agricultural Biotechnology Institute, National Agricultural Research and Innovation Centre, 2100 Gödöllő, HungaryBarley (<i>Hordeum vulgare</i> L.) is an economically important crop cultivated in temperate climates all over the world. Adverse environmental factors negatively affect its survival and productivity. RNA silencing is a conserved pathway involved in the regulation of growth, development and stress responses. The key components of RNA silencing are the Dicer-like proteins (DCLs), Argonautes (AGOs) and RNA-dependent RNA polymerases (RDRs). Despite its economic importance, there is no available comprehensive report on barley RNA silencing machinery and its regulation. In this study, we in silico identified five DCL (<i>HvDCL</i>), eleven AGO (<i>HvAGO</i>) and seven RDR (<i>HvRDR</i>) genes in the barley genome. Genomic localization, phylogenetic analysis, domain organization and functional/catalytic motif identification were also performed. To understand the regulation of RNA silencing, we experimentally analysed the transcriptional changes in response to moderate, persistent or gradient heat stress treatments: transcriptional accumulation of siRNA- but not miRNA-based silencing factor was consistently detected. These results suggest that RNA silencing is dynamically regulated and may be involved in the coordination of development and environmental adaptation in barley. In summary, our work provides information about barley RNA silencing components and will be a ground for the selection of candidate factors and in-depth functional/mechanistic analyses.https://www.mdpi.com/2218-273X/10/6/929barleyRNA silencingDicer-like (DCL)Argonaute (AGO)RNA-dependent RNA polymerase (RDR)heat stress |
| spellingShingle | Éva Hamar Henrik Mihály Szaker András Kis Ágnes Dalmadi Fabio Miloro György Szittya János Taller Péter Gyula Tibor Csorba Zoltán Havelda Genome-Wide Identification of RNA Silencing-Related Genes and Their Expressional Analysis in Response to Heat Stress in Barley (<i>Hordeum vulgare</i> L.) Biomolecules barley RNA silencing Dicer-like (DCL) Argonaute (AGO) RNA-dependent RNA polymerase (RDR) heat stress |
| title | Genome-Wide Identification of RNA Silencing-Related Genes and Their Expressional Analysis in Response to Heat Stress in Barley (<i>Hordeum vulgare</i> L.) |
| title_full | Genome-Wide Identification of RNA Silencing-Related Genes and Their Expressional Analysis in Response to Heat Stress in Barley (<i>Hordeum vulgare</i> L.) |
| title_fullStr | Genome-Wide Identification of RNA Silencing-Related Genes and Their Expressional Analysis in Response to Heat Stress in Barley (<i>Hordeum vulgare</i> L.) |
| title_full_unstemmed | Genome-Wide Identification of RNA Silencing-Related Genes and Their Expressional Analysis in Response to Heat Stress in Barley (<i>Hordeum vulgare</i> L.) |
| title_short | Genome-Wide Identification of RNA Silencing-Related Genes and Their Expressional Analysis in Response to Heat Stress in Barley (<i>Hordeum vulgare</i> L.) |
| title_sort | genome wide identification of rna silencing related genes and their expressional analysis in response to heat stress in barley i hordeum vulgare i l |
| topic | barley RNA silencing Dicer-like (DCL) Argonaute (AGO) RNA-dependent RNA polymerase (RDR) heat stress |
| url | https://www.mdpi.com/2218-273X/10/6/929 |
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