Guidelines for the nomenclature of genetic elements in tunicate genomes

Alberto Stolfi, Yasunori Sasakura, Domitille Chalopin, Yutaka Satou, Lionel Christiaen, Christelle Dantec, Toshinori Endo, Magali Naville, Hiroki Nishida, Billie J. Swalla, Jean Nicolas Volff, Ayelet Voskoboynik, Delphine Dauga, Patrick Lemaire

Research output: Contribution to journalArticle

Abstract

Tunicates are invertebrate members of the chordate phylum, and are considered to be the sister group of vertebrates. Tunicates are composed of ascidians, thaliaceans, and appendicularians. With the advent of inexpensive high-throughput sequencing, the number of sequenced tunicate genomes is expected to rise sharply within the coming years. To facilitate comparative genomics within the tunicates, and between tunicates and vertebrates, standardized rules for the nomenclature of tunicate genetic elements need to be established. Here we propose a set of nomenclature rules, consensual within the community, for predicted genes, pseudogenes, transcripts, operons, transcriptional cis-regulatory regions, transposable elements, and transgenic constructs. In addition, the document proposes guidelines for naming transgenic and mutant lines. genesis 53:65-78, 2015.

Original languageEnglish (US)
Pages (from-to)1-14
Number of pages14
JournalGenesis
Volume53
Issue number1
DOIs
StatePublished - Jan 1 2015

Fingerprint

Urochordata
Terminology
Genome
Guidelines
Vertebrates
Nonvertebrate Chordata
Pseudogenes
DNA Transposable Elements
Nucleic Acid Regulatory Sequences
Operon
Genomics
Genes

Keywords

  • cis-regulatory sequences
  • Gene
  • Genome annotation
  • Transposable element
  • Tunicates

ASJC Scopus subject areas

  • Endocrinology
  • Cell Biology
  • Genetics

Cite this

Stolfi, A., Sasakura, Y., Chalopin, D., Satou, Y., Christiaen, L., Dantec, C., ... Lemaire, P. (2015). Guidelines for the nomenclature of genetic elements in tunicate genomes. Genesis, 53(1), 1-14. https://doi.org/10.1002/dvg.22822

Guidelines for the nomenclature of genetic elements in tunicate genomes. / Stolfi, Alberto; Sasakura, Yasunori; Chalopin, Domitille; Satou, Yutaka; Christiaen, Lionel; Dantec, Christelle; Endo, Toshinori; Naville, Magali; Nishida, Hiroki; Swalla, Billie J.; Volff, Jean Nicolas; Voskoboynik, Ayelet; Dauga, Delphine; Lemaire, Patrick.

In: Genesis, Vol. 53, No. 1, 01.01.2015, p. 1-14.

Research output: Contribution to journalArticle

Stolfi, A, Sasakura, Y, Chalopin, D, Satou, Y, Christiaen, L, Dantec, C, Endo, T, Naville, M, Nishida, H, Swalla, BJ, Volff, JN, Voskoboynik, A, Dauga, D & Lemaire, P 2015, 'Guidelines for the nomenclature of genetic elements in tunicate genomes', Genesis, vol. 53, no. 1, pp. 1-14. https://doi.org/10.1002/dvg.22822
Stolfi A, Sasakura Y, Chalopin D, Satou Y, Christiaen L, Dantec C et al. Guidelines for the nomenclature of genetic elements in tunicate genomes. Genesis. 2015 Jan 1;53(1):1-14. https://doi.org/10.1002/dvg.22822
Stolfi, Alberto ; Sasakura, Yasunori ; Chalopin, Domitille ; Satou, Yutaka ; Christiaen, Lionel ; Dantec, Christelle ; Endo, Toshinori ; Naville, Magali ; Nishida, Hiroki ; Swalla, Billie J. ; Volff, Jean Nicolas ; Voskoboynik, Ayelet ; Dauga, Delphine ; Lemaire, Patrick. / Guidelines for the nomenclature of genetic elements in tunicate genomes. In: Genesis. 2015 ; Vol. 53, No. 1. pp. 1-14.
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