Circadian regulation of the transcriptome in a complex polyploid crop.
The circadian clock is a finely balanced timekeeping mechanism that coordinates programmes of gene expression. It is currently unknown how the clock regulates expression of homoeologous genes in polyploids. Here, we generate a high-resolution time-course dataset to investigate the circadian balance...
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2022-10-01
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| Series: | PLoS Biology |
| Online Access: | https://journals.plos.org/plosbiology/article/file?id=10.1371/journal.pbio.3001802&type=printable |
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| author | Hannah Rees Rachel Rusholme-Pilcher Paul Bailey Joshua Colmer Benjamen White Connor Reynolds Sabrina Jaye Ward Benedict Coombes Calum A Graham Luíza Lane de Barros Dantas Antony N Dodd Anthony Hall |
| author_facet | Hannah Rees Rachel Rusholme-Pilcher Paul Bailey Joshua Colmer Benjamen White Connor Reynolds Sabrina Jaye Ward Benedict Coombes Calum A Graham Luíza Lane de Barros Dantas Antony N Dodd Anthony Hall |
| author_sort | Hannah Rees |
| collection | DOAJ |
| description | The circadian clock is a finely balanced timekeeping mechanism that coordinates programmes of gene expression. It is currently unknown how the clock regulates expression of homoeologous genes in polyploids. Here, we generate a high-resolution time-course dataset to investigate the circadian balance between sets of 3 homoeologous genes (triads) from hexaploid bread wheat. We find a large proportion of circadian triads exhibit imbalanced rhythmic expression patterns, with no specific subgenome favoured. In wheat, period lengths of rhythmic transcripts are found to be longer and have a higher level of variance than in other plant species. Expression of transcripts associated with circadian controlled biological processes is largely conserved between wheat and Arabidopsis; however, striking differences are seen in agriculturally critical processes such as starch metabolism. Together, this work highlights the ongoing selection for balance versus diversification in circadian homoeologs and identifies clock-controlled pathways that might provide important targets for future wheat breeding. |
| format | Article |
| id | doaj-art-2b4f9e86563848d3b9c5b32d5f17bf4f |
| institution | Kabale University |
| issn | 1544-9173 1545-7885 |
| language | English |
| publishDate | 2022-10-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS Biology |
| spelling | doaj-art-2b4f9e86563848d3b9c5b32d5f17bf4f2025-08-20T03:44:43ZengPublic Library of Science (PLoS)PLoS Biology1544-91731545-78852022-10-012010e300180210.1371/journal.pbio.3001802Circadian regulation of the transcriptome in a complex polyploid crop.Hannah ReesRachel Rusholme-PilcherPaul BaileyJoshua ColmerBenjamen WhiteConnor ReynoldsSabrina Jaye WardBenedict CoombesCalum A GrahamLuíza Lane de Barros DantasAntony N DoddAnthony HallThe circadian clock is a finely balanced timekeeping mechanism that coordinates programmes of gene expression. It is currently unknown how the clock regulates expression of homoeologous genes in polyploids. Here, we generate a high-resolution time-course dataset to investigate the circadian balance between sets of 3 homoeologous genes (triads) from hexaploid bread wheat. We find a large proportion of circadian triads exhibit imbalanced rhythmic expression patterns, with no specific subgenome favoured. In wheat, period lengths of rhythmic transcripts are found to be longer and have a higher level of variance than in other plant species. Expression of transcripts associated with circadian controlled biological processes is largely conserved between wheat and Arabidopsis; however, striking differences are seen in agriculturally critical processes such as starch metabolism. Together, this work highlights the ongoing selection for balance versus diversification in circadian homoeologs and identifies clock-controlled pathways that might provide important targets for future wheat breeding.https://journals.plos.org/plosbiology/article/file?id=10.1371/journal.pbio.3001802&type=printable |
| spellingShingle | Hannah Rees Rachel Rusholme-Pilcher Paul Bailey Joshua Colmer Benjamen White Connor Reynolds Sabrina Jaye Ward Benedict Coombes Calum A Graham Luíza Lane de Barros Dantas Antony N Dodd Anthony Hall Circadian regulation of the transcriptome in a complex polyploid crop. PLoS Biology |
| title | Circadian regulation of the transcriptome in a complex polyploid crop. |
| title_full | Circadian regulation of the transcriptome in a complex polyploid crop. |
| title_fullStr | Circadian regulation of the transcriptome in a complex polyploid crop. |
| title_full_unstemmed | Circadian regulation of the transcriptome in a complex polyploid crop. |
| title_short | Circadian regulation of the transcriptome in a complex polyploid crop. |
| title_sort | circadian regulation of the transcriptome in a complex polyploid crop |
| url | https://journals.plos.org/plosbiology/article/file?id=10.1371/journal.pbio.3001802&type=printable |
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