Dominant constraints on the evolution of rhythmic gene expression
Although the individual transcriptional regulators of the core circadian clock are distinct among different organisms, the autoregulatory feedback loops they form are conserved. This unified design principle explains how daily physiological activities oscillate across species. However, it is unknown...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2023-01-01
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| Series: | Computational and Structural Biotechnology Journal |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2001037023003100 |
| _version_ | 1797384048808558592 |
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| author | Yang Cheng Yuhao Chi Linying Sun Guang-Zhong Wang |
| author_facet | Yang Cheng Yuhao Chi Linying Sun Guang-Zhong Wang |
| author_sort | Yang Cheng |
| collection | DOAJ |
| description | Although the individual transcriptional regulators of the core circadian clock are distinct among different organisms, the autoregulatory feedback loops they form are conserved. This unified design principle explains how daily physiological activities oscillate across species. However, it is unknown whether analogous design principles govern the gene expression output of circadian clocks. In this study, we performed a comparative analysis of rhythmic gene expression in eight diverse species and identified four common distribution patterns of cycling gene expression across these species. We hypothesized that the maintenance of reduced energetic costs constrains the evolution of rhythmic gene expression. Our large-scale computational simulations support this hypothesis by showing that selection against high-energy expenditure completely regenerates all cycling gene patterns. Moreover, we find that the peaks of rhythmic expression have been subjected to this type of selective pressure. The results suggest that selective pressure from circadian regulation efficiently removes unnecessary gene products from the transcriptome, thereby significantly impacting its evolutionary path. |
| first_indexed | 2024-03-08T21:29:51Z |
| format | Article |
| id | doaj.art-1c76ca53b1644ae3886b908ba9a7f4fa |
| institution | Directory Open Access Journal |
| issn | 2001-0370 |
| language | English |
| last_indexed | 2024-03-08T21:29:51Z |
| publishDate | 2023-01-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Computational and Structural Biotechnology Journal |
| spelling | doaj.art-1c76ca53b1644ae3886b908ba9a7f4fa2023-12-21T07:32:03ZengElsevierComputational and Structural Biotechnology Journal2001-03702023-01-012143014311Dominant constraints on the evolution of rhythmic gene expressionYang Cheng0Yuhao Chi1Linying Sun2Guang-Zhong Wang3CAS Key Laboratory of Computational Biology, Shanghai Institute of Nutrition and Health, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai 200031, ChinaCAS Key Laboratory of Computational Biology, Shanghai Institute of Nutrition and Health, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai 200031, ChinaCAS Key Laboratory of Computational Biology, Shanghai Institute of Nutrition and Health, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai 200031, ChinaCorresponding author.; CAS Key Laboratory of Computational Biology, Shanghai Institute of Nutrition and Health, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai 200031, ChinaAlthough the individual transcriptional regulators of the core circadian clock are distinct among different organisms, the autoregulatory feedback loops they form are conserved. This unified design principle explains how daily physiological activities oscillate across species. However, it is unknown whether analogous design principles govern the gene expression output of circadian clocks. In this study, we performed a comparative analysis of rhythmic gene expression in eight diverse species and identified four common distribution patterns of cycling gene expression across these species. We hypothesized that the maintenance of reduced energetic costs constrains the evolution of rhythmic gene expression. Our large-scale computational simulations support this hypothesis by showing that selection against high-energy expenditure completely regenerates all cycling gene patterns. Moreover, we find that the peaks of rhythmic expression have been subjected to this type of selective pressure. The results suggest that selective pressure from circadian regulation efficiently removes unnecessary gene products from the transcriptome, thereby significantly impacting its evolutionary path.http://www.sciencedirect.com/science/article/pii/S2001037023003100Circadian rhythmsRhythmic gene expressionCircadian evolutionTranscription-translation feedback loop (TTFL)Energy expenditure |
| spellingShingle | Yang Cheng Yuhao Chi Linying Sun Guang-Zhong Wang Dominant constraints on the evolution of rhythmic gene expression Computational and Structural Biotechnology Journal Circadian rhythms Rhythmic gene expression Circadian evolution Transcription-translation feedback loop (TTFL) Energy expenditure |
| title | Dominant constraints on the evolution of rhythmic gene expression |
| title_full | Dominant constraints on the evolution of rhythmic gene expression |
| title_fullStr | Dominant constraints on the evolution of rhythmic gene expression |
| title_full_unstemmed | Dominant constraints on the evolution of rhythmic gene expression |
| title_short | Dominant constraints on the evolution of rhythmic gene expression |
| title_sort | dominant constraints on the evolution of rhythmic gene expression |
| topic | Circadian rhythms Rhythmic gene expression Circadian evolution Transcription-translation feedback loop (TTFL) Energy expenditure |
| url | http://www.sciencedirect.com/science/article/pii/S2001037023003100 |
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