PUBLICATION
Gene Characterization of Nocturnin Paralogues in Goldfish: Full Coding Sequences, Structure, Phylogeny and Tissue Expression
- Authors
- Madera, D., Alonso-Gómez, A., Delgado, M.J., Valenciano, A.I., Alonso-Gómez, Á.L.
- ID
- ZDB-PUB-240111-15
- Date
- 2023
- Source
- International Journal of Molecular Sciences 25(1): (Journal)
- Registered Authors
- Keywords
- Carassius auratus, gene evolution, molecular cloning, nocturnin nomenclature, phylogenetic tree, protein structure, synteny analysis, synteny quantification, tissue distribution, zebrafish
- MeSH Terms
-
- Animals
- Goldfish*/genetics
- Nuclear Proteins*
- Phylogeny
- Protein Isoforms/genetics
- Transcription Factors*
- Zebrafish*/genetics
- PubMed
- 38203224 Full text @ Int. J. Mol. Sci.
Citation
Madera, D., Alonso-Gómez, A., Delgado, M.J., Valenciano, A.I., Alonso-Gómez, Á.L. (2023) Gene Characterization of Nocturnin Paralogues in Goldfish: Full Coding Sequences, Structure, Phylogeny and Tissue Expression. International Journal of Molecular Sciences. 25(1):.
Abstract
The aim of this work is the full characterization of all the nocturnin (noc) paralogues expressed in a teleost, the goldfish. An in silico analysis of the evolutive origin of noc in Osteichthyes is performed, including the splicing variants and new paralogues appearing after teleostean 3R genomic duplication and the cyprinine 4Rc. After sequencing the full-length mRNA of goldfish, we obtained two isoforms for noc-a (noc-aa and noc-ab) with two splice variants (I and II), and only one for noc-b (noc-bb) with two transcripts (II and III). Using the splicing variant II, the prediction of the secondary and tertiary structures renders a well-conserved 3D distribution of four α-helices and nine β-sheets in the three noc isoforms. A synteny analysis based on the localization of noc genes in the patrilineal or matrilineal subgenomes and a phylogenetic tree of protein sequences were accomplished to stablish a classification and a long-lasting nomenclature of noc in goldfish, and valid to be extrapolated to allotetraploid Cyprininae. Finally, both goldfish and zebrafish showed a broad tissue expression of all the noc paralogues. Moreover, the enriched expression of specific paralogues in some tissues argues in favour of neo- or subfunctionalization.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping