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RESEARCH ARTICLE (Open Access)
Contents Vol 75(1)

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

Eric N. Jellen https://orcid.org/0000-0002-7906-4845 A * , Charlene P. Wight https://orcid.org/0000-0003-1410-5631 B , Manuel Spannagl C , Victoria C. Blake D E , James Chong F , Matthias H. Herrmann G , Catherine J. Howarth H , Yung-Fen Huang I , Jia Juqing J , Andreas Katsiotis K , Tim Langdon H , Chengdao Li https://orcid.org/0000-0002-9653-2700 L , Robert Park M , Nicholas A. Tinker B and Taner Z. Sen https://orcid.org/0000-0002-5553-6190 D N
+ Author Affiliations
- Author Affiliations

A Department of Plant and Wildlife Sciences, Brigham Young University, 4105 LSB, Provo, UT 84602, USA.

B Ottawa Research and Development Centre, Agriculture and Agri-Food Canada, 960 Carling Avenue, Ottawa, ON K1A 0C6, Canada.

C PGSB – Plant Genome and Systems Biology, Helmholtz Center Munich – German Research Center for Environmental Health, Neuherberg 85764, Germany.

D Western Regional Research Center, Crop Improvement and Genetics Research Unit, United States Department of Agriculture—Agricultural Research Service, Albany, CA 94710, USA.

E Department of Plant Sciences and Plant Pathology, Montana State University, Bozeman, MT 59717, USA.

F Morden Research and Development Centre, Agriculture and Agri-Food Canada, Morden, MB R6M 1Y5, Canada.

G Institute for Breeding Research on Agricultural Crops, Julius Kuehn Institute (JKI), Federal Research Centre for Cultivated Plants, Rudolf-Schick-Platz 3a, OT Gross Lüsewitz, Sanitz D-18190, Germany.

H Institute of Biological, Environmental, and Rural Sciences (IBERS), Goggerdan, Aberystwyth University, Aberystwyth SY23 3EE, UK.

I Department of Agronomy, National Taiwan University, No. 1, Sec. 4, Roosevelt Rd, Da’an Dist., Taipei 10617, Taiwan.

J College of Agronomy, Shanxi Agricultural University, Taigu 030801, China.

K Cyprus University of Technology, Department of Agricultural Sciences, Biotechnology, and Food Science, Limassol, Cyprus.

L Western Crop Genetic Alliance/State Agricultural Biotechnology Centre, Murdoch University, 90 South Street, Murdoch, WA 6150, Australia.

M The University of Sydney, Plant Breeding Institute, Private Bag 4011, Narellan, NSW 2567, Australia.

N Department of Bioengineering, University of California, Berkeley, CA 94720, USA.

* Correspondence to: rick_jellen@byu.edu

Handling Editor: Rajeev Varshney

Crop & Pasture Science 75, CP23247 https://doi.org/10.1071/CP23247
Submitted: 31 August 2023  Accepted: 1 December 2023  Published: 2 January 2024

© 2024 The Author(s) (or their employer(s)). Published by CSIRO Publishing. This is an open access article distributed under the Creative Commons Attribution 4.0 International License (CC BY)

Abstract

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.

Keywords: Avena, chromosome nomenclature, data standardisation, gene nomenclature, genome nomenclature, oat, plant breeding, QTL nomenclature.

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