Статья

SeqCode: a nomenclatural code for prokaryotes described from sequence data

Brian P. HedlundSchool of Life Sciences, University of Nevada, Las Vegas, Las Vegas, NV, USAMaria ChuvochinaThe University of Queensland, School of Chemistry and Molecular Biosciences, Australian Centre for Ecogenomics, Brisbane, Queensland, AustraliaPhilip HugenholtzThe University of Queensland, School of Chemistry and Molecular Biosciences, Australian Centre for Ecogenomics, Brisbane, Queensland, AustraliaKonstantinos T. KonstantinidisSchool of Civil and Environmental Engineering, Georgia Tech, Atlanta, GA, USAAlison E. MurrayDivision of Earth and Ecosystem Sciences, Desert Research Institute, Reno, NV, USAMarike PalmerSchool of Life Sciences, University of Nevada, Las Vegas, Las Vegas, NV, USADonovan H. ParksThe University of Queensland, School of Chemistry and Molecular Biosciences, Australian Centre for Ecogenomics, Brisbane, Queensland, AustraliaAlexander J. ProbstDepartment of Chemistry, Environmental Microbiology and Biotechnology (EMB), Group for Aquatic Microbial Ecology and Centre of Water and Environmental Research (ZWU), University of Duisburg-Essen, Essen, GermanyAnna‐Louise ReysenbachBiology Department, Portland State University, Portland, OR, USALuis M. Rodriguez‐RDepartment of Microbiology and Digital Science Center (DiSC), University of Innsbruck, Innsbruck, AustriaRamon Rosselló‐MóraMarine Microbiology Group, Department of Animal and Microbial Diversity, Mediterranean Institute of Advanced Studies (CSIC-UIB), Esporles, SpainIain C. SutcliffeFaculty of Health & Life Sciences, Northumbria University, Newcastle upon Tyne, UKStephanus N. VenterDepartment of Biochemistry, Genetics and Microbiology, University of Pretoria, Pretoria, South AfricaWilliam B. WhitmanDepartment of Microbiology, University of Georgia, Athens, GA, USA. [email protected]

2022en

ABI

Аннотация

Most prokaryotes are not available as pure cultures and therefore ineligible for naming under the rules and recommendations of the International Code of Nomenclature of Prokaryotes (ICNP). Here we summarize the development of the SeqCode, a code of nomenclature under which genome sequences serve as nomenclatural types. This code enables valid publication of names of prokaryotes based upon isolate genome, metagenome-assembled genome or single-amplified genome sequences. Otherwise, it is similar to the ICNP with regard to the formation of names and rules of priority. It operates through the SeqCode Registry ( https://seqco.de/ ), a registration portal through which names and nomenclatural types are registered, validated and linked to metadata. We describe the two paths currently available within SeqCode to register and validate names, including Candidatus names, and provide examples for both. Recommendations on minimal standards for DNA sequences are provided. Thus, the SeqCode provides a reproducible and objective framework for the nomenclature of all prokaryotes regardless of cultivability and facilitates communication across microbiological disciplines.

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Идентификаторы

DOI: 10.1038/s41564-022-01214-9

Цитирования и источники

Цитирований: 2Использованных источников: 0

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