A uniform gene and chromosome nomenclature system for oat (Avena spp.)

Eric N Jellen; Charlene P Wight; Manuel Spannagl; Victoria C Blake; James Chong; Matthias H Herrmann; Catherine J Howarth; Yung-Fen Huang; Jia Juqing; Andreas Katsiotis; Tim Langdon; Chengdao Li; Robert Park; Nicholas A Tinker; Taner Z Sen

doi:10.1071/CP23247

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A uniform gene and chromosome nomenclature system for oat (Avena spp.)

Journal article

Open access

Peer reviewed

A uniform gene and chromosome nomenclature system for oat (Avena spp.)

Eric N Jellen, Charlene P Wight, Manuel Spannagl, Victoria C Blake, James Chong, Matthias H Herrmann, Catherine J Howarth, Yung-Fen Huang, Jia Juqing, Andreas Katsiotis, …

Crop & pasture science, Vol.75(1), CP23247

2024

DOI: https://doi.org/10.1071/CP23247

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Abstract

Agricultural

Agricultural and Veterinary Sciences

Agronomy & Agriculture

Environmental Sciences

Genetics

Human Genome

Veterinary and Food Sciences

Context Several high-quality reference genomes for oat (Avena sativa L. and relatives) have been published, with the prospect of many additional whole-genome assemblies emerging in the near future. Aims This has necessitated an effort by the International Oat Nomenclature Committee (IONC; all co-authors on this paper) to devise a universal system for naming oat genomes and subgenomes, chromosomes, genes, gene models and quantitative trait loci. Methods We evaluated existing naming practices, recent data from oat whole-genome sequencing, and the newly published convention for wheat nomenclature. Key results A framework for these rules has been posted on the GrainGenes database website (https://wheat.pw.usda.gov/GG3/oatnomenclature). The gene naming convention requires adoption of a numerical identifier for each genotype; we propose that these identifiers be assigned by contacting the GrainGenes curators, the curator of the Oat Newsletter, or a member of the IONC (as listed at the GrainGenes link above). Conclusions We encourage oat researchers to refer to these resources, policies, procedures and conventions, adopting them as an international nomenclature standard. Implications Adoption of these standards will facilitate communication and dissemination of oat research and allow programmatic access and data sharing across platforms, and will contribute to oat breeding and research worldwide.

Details

Title: A uniform gene and chromosome nomenclature system for oat (Avena spp.)
Authors/Creators: Eric N Jellen
Charlene P Wight
Manuel Spannagl
Victoria C Blake
James Chong
Matthias H Herrmann
Catherine J Howarth
Yung-Fen Huang
Jia Juqing
Andreas Katsiotis
Tim Langdon
Chengdao Li
Robert Park
Nicholas A Tinker
Taner Z Sen
Contributors: Rajeev K Varshney FRS (Editor) - Murdoch University, Food Futures Institute
Publication Details: Crop & pasture science, Vol.75(1), CP23247
Publisher: CSIRO Publishing
Identifiers: 991005632869507891
Murdoch Affiliation: Centre for Crop and Food Innovation; Food Futures Institute
Language: English
Resource Type: Journal article

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Collaboration types: Domestic collaboration; International collaboration
Citation topics: 3 Agriculture, Environment & Ecology; 3.4 Crop Science; 3.4.96 QTL
Web Of Science research areas: Agriculture, Multidisciplinary
ESI research areas: Agricultural Sciences