title: Guidelines for the nomenclature of genetic elements in tunicate genomes.
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.
authors.affiliation: New York University, Center for Developmental Genetics, Department of Biology, 1009 Silver Center, 100 Washington Square East, New York City, New York.
authors.forename: Alberto
authors.initials: A
authors.lastname: Stolfi
authors.forename: Yasunori
authors.initials: Y
authors.lastname: Sasakura
authors.forename: Domitille
authors.initials: D
authors.lastname: Chalopin
authors.forename: Yutaka
authors.initials: Y
authors.lastname: Satou
authors.forename: Lionel
authors.initials: L
authors.lastname: Christiaen
authors.forename: Christelle
authors.initials: C
authors.lastname: Dantec
authors.forename: Toshinori
authors.initials: T
authors.lastname: Endo
authors.forename: Magali
authors.initials: M
authors.lastname: Naville
authors.forename: Hiroki
authors.initials: H
authors.lastname: Nishida
authors.forename: Billie J
authors.initials: BJ
authors.lastname: Swalla
authors.forename: Jean-Nicolas
authors.initials: JN
authors.lastname: Volff
authors.forename: Ayelet
authors.initials: A
authors.lastname: Voskoboynik
authors.forename: Delphine
authors.initials: D
authors.lastname: Dauga
authors.forename: Patrick
authors.initials: P
authors.lastname: Lemaire
mesh_terms: D000818:Animals; D016375:Antisense Elements (Genetics); D002874:Chromosome Mapping; D005807:Genes, Overlapping; D056426:Genetic Loci; D016678:Genome; D023281:Genomics; D017408:Guidelines as Topic; D010802:Phylogeny; D009626:Terminology as Topic; D014158:Transcription, Genetic; D014561:Urochordata / Q000145:classification* / Q000235:genetics*
chemical_list: D016375:Antisense Elements (Genetics)
keywords: cis-regulatory sequences; gene; genome annotation; transposable element; tunicates