Academic Journal
Conservation and architecture of housekeeping genes in the model marine diatom Thalassiosira pseudonana.
| Τίτλος: | Conservation and architecture of housekeeping genes in the model marine diatom Thalassiosira pseudonana. |
|---|---|
| Συγγραφείς: | Li Z; School of Food and Biological Engineering, Shaanxi University of Science and Technology, Weiyang University Park, Xi'an, Shaanxi, 710021, China.; Department of Oceanography, Dalhousie University, 1355 Oxford St, Halifax, NS, B3H 4R2, Canada., Zhang Y; Department of Oceanography, Dalhousie University, 1355 Oxford St, Halifax, NS, B3H 4R2, Canada.; College of Environmental Science and Engineering, Fujian Key Laboratory of Pollution Control and Resource Recycling, Fujian Normal University, No. 8 Shangsan Road, Fuzhou, Fujian, 350007, China., Li W; College of Life and Environmental Sciences, Huangshan University, 39 Xihai Road, Huangshan, Anhui, 245041, China., Irwin AJ; Department of Mathematics & Statistics, Dalhousie University, 1355 Oxford St, Halifax, NS, B3H 4R2, Canada., Finkel ZV; Department of Oceanography, Dalhousie University, 1355 Oxford St, Halifax, NS, B3H 4R2, Canada. |
| Πηγή: | The New phytologist [New Phytol] 2022 May; Vol. 234 (4), pp. 1363-1376. Date of Electronic Publication: 2022 Mar 24. |
| Τύπος έκδοσης: | Journal Article; Research Support, Non-U.S. Gov't |
| Γλώσσα: | English |
| Στοιχεία περιοδικού: | Publisher: Wiley on behalf of New Phytologist Trust Country of Publication: England NLM ID: 9882884 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1469-8137 (Electronic) Linking ISSN: 0028646X NLM ISO Abbreviation: New Phytol Subsets: MEDLINE |
| Imprint Name(s): | Publication: Oxford : Wiley on behalf of New Phytologist Trust Original Publication: London, New York [etc.] Academic Press. |
| Ιατρικοί όροι (MeSH): | Diatoms*/genetics , Diatoms*/metabolism, Genes, Essential/genetics ; Introns/genetics |
| Περίληψη: | Housekeeping genes (HKGs) are constitutively expressed with low variation across tissues/conditions. They are thought to be highly conserved and fundamental to cellular maintenance, with distinctive genomic features. Here, we identify 1505 HKGs in the unicellular marine diatom Thalassiosira pseudonana based on an RNA-seq analysis of 232 samples taken under 12 experimental conditions over 0-72 h. We identify promising internal reference genes (IRGs) for T. pseudonana from the most stably expressed HKGs. A comparative analysis indicates < 18% of HKGs in T. pseudonana have orthologs in other eukaryotes, including other diatom species. Contrary to work on human tissues, T. pseudonana HKGs are longer than non-HKGs, due to elongated introns. More ancient HKGs tend to be shorter than more recent HKGs, and expression levels of HKGs decrease more rapidly with gene length relative to non-HKGs. Our results indicate that HKGs are highly variable across the tree of life and thus unlikely to be universally fundamental for cellular maintenance. We hypothesize that the distinct genomic features of HKGs of T. pseudonana may be a consequence of selection pressures associated with high expression and low variance across conditions. (© 2022 The Authors. New Phytologist © 2022 New Phytologist Foundation.) |
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| Contributed Indexing: | Keywords: Thalassiosira pseudonana; diatom; environmental stress; housekeeping genes; internal reference genes |
| Entry Date(s): | Date Created: 20220218 Date Completed: 20220420 Latest Revision: 20220510 |
| Update Code: | 20260130 |
| DOI: | 10.1111/nph.18039 |
| PMID: | 35179783 |
| Βάση Δεδομένων: | MEDLINE |
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