UCL Discovery
UCL home » Library Services » Electronic resources » UCL Discovery

Widespread use of the “ascidian” mitochondrial genetic code in tunicates [version 1; peer review: 2 approved]

Pichon, J; Luscombe, NM; Plessy, C; (2019) Widespread use of the “ascidian” mitochondrial genetic code in tunicates [version 1; peer review: 2 approved]. F1000Research , 8 , Article 2072. 10.12688/f1000research.21551.1. Green open access

[thumbnail of 30b4efbb-658e-4018-ad85-51a3662fe738_21551_-_charles_plessy.pdf]
Preview
Text
30b4efbb-658e-4018-ad85-51a3662fe738_21551_-_charles_plessy.pdf - Published Version

Download (1MB) | Preview

Abstract

Background: Ascidians, a tunicate class, use a mitochondrial genetic code that is distinct from vertebrates and other invertebrates. Though it has been used to translate the coding sequences from other tunicate species on a case-by-case basis, it is has not been investigated whether this can be done systematically. This is an important because a) some tunicate mitochondrial sequences are currently translated with the invertebrate code by repositories such as NCBI GenBank, and b) uncertainties about the genetic code to use can complicate or introduce errors in phylogenetic studies based on translated mitochondrial protein sequences. Methods: We collected publicly available nucleotide sequences for non-ascidian tunicates including appendicularians such as Oikopleura dioica, translated them using the ascidian mitochondrial code, and built multiple sequence alignments covering all tunicate classes. Results: All tunicates studied here appear to translate AGR codons to glycine instead of serine (invertebrates) or as a stop codon (vertebrates), as initially described in ascidians. Among Oikopleuridae, we suggest further possible changes in the use of the ATA (Ile → Met) and TGA (Trp → Arg) codons. Conclusions: We recommend using the ascidian mitochondrial code in automatic translation pipelines of mitochondrial sequences for all tunicates. Further investigation is required for additional species-specific differences.

Type: Article
Title: Widespread use of the “ascidian” mitochondrial genetic code in tunicates [version 1; peer review: 2 approved]
Location: England
Open access status: An open access version is available from UCL Discovery
DOI: 10.12688/f1000research.21551.1
Publisher version: https://doi.org/10.12688/f1000research.21551.1
Language: English
Additional information: Copyright: © 2019 Pichon J et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. http://creativecommons.org/licenses/by/4.0/
Keywords: Cytochrome oxidase subunit I, Genetic code, Mitochondria, Oikopleura, Tunicate
UCL classification: UCL
UCL > Provost and Vice Provost Offices
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences > Div of Biosciences
UCL > Provost and Vice Provost Offices > School of Life and Medical Sciences > Faculty of Life Sciences > Div of Biosciences > Genetics, Evolution and Environment
URI: https://discovery.ucl.ac.uk/id/eprint/10095606
Downloads since deposit
18Downloads
Download activity - last month
Download activity - last 12 months
Downloads by country - last 12 months

Archive Staff Only

View Item View Item