Scientific article
Open access

Revised fission yeast gene and allele nomenclature guidelines for machine readability

Published inGenetics, vol. 225, no. 3, iyad143
Publication date2023-11
First online date2023-09-27

Standardized nomenclature for genes, gene products, and isoforms is crucial to prevent ambiguity and enable clear communication of scientific data, facilitating efficient biocuration and data sharing. Standardized genotype nomenclature, which describes alleles present in a specific strain that differ from those in the wild-type reference strain, is equally essential to maximize research impact and ensure that results linking genotypes to phenotypes are Findable, Accessible, Interoperable, and Reusable (FAIR). In this publication, we extend the fission yeast clade gene nomenclature guidelines to support the curation efforts at PomBase (www.pombase.org), the Schizosaccharomyces pombe Model Organism Database. This update introduces nomenclature guidelines for noncoding RNA genes, following those set forth by the Human Genome Organisation Gene Nomenclature Committee. Additionally, we provide a significant update to the allele and genotype nomenclature guidelines originally published in 1987, to standardize the diverse range of genetic modifications enabled by the fission yeast genetic toolbox. These updated guidelines reflect a community consensus between numerous fission yeast researchers. Adoption of these rules will improve consistency in gene and genotype nomenclature, and facilitate machine-readability and automated entity recognition of fission yeast genes and alleles in publications or datasets. In conclusion, our updated guidelines provide a valuable resource for the fission yeast research community, promoting consistency, clarity, and FAIRness in genetic data sharing and interpretation.

  • FAIR
  • Allele
  • Database
  • Fission yeast
  • Gene variant
  • Genotype
  • Knowledge base
  • Model organism
  • Nomenclature
  • Standardization
  • Wellcome Trust - [218236/Z/19/Z]
  • NIGMS NIH HHS - [R35 GM131799]
Citation (ISO format)
LERA-RAMÍREZ, Manuel et al. Revised fission yeast gene and allele nomenclature guidelines for machine readability. In: Genetics, 2023, vol. 225, n° 3, p. iyad143. doi: 10.1093/genetics/iyad143
Main files (1)
Article (Published version)
ISSN of the journal0016-6731

Technical informations

Creation01/30/2024 3:32:03 PM
First validation02/06/2024 12:14:33 PM
Update time02/06/2024 12:14:33 PM
Status update02/06/2024 12:14:33 PM
Last indexation02/06/2024 12:14:34 PM
All rights reserved by Archive ouverte UNIGE and the University of GenevaunigeBlack