命名法代码中的和谐命名——以哺乳动物肠道分离菌的描述为例。

Harmonious naming across nomenclature codes exemplified by the description of bacterial isolates from the mammalian gut.

机构信息

Functional Microbiome Research Group, Institute of Medical Microbiology, University Hospital of RWTH Aachen, Aachen, Germany.

Functional Microbiome Research Group, Institute of Medical Microbiology, University Hospital of RWTH Aachen, Aachen, Germany; Miltenyi Biotec B.V. & Co. KG, Bergisch Gladbach, Germany.

出版信息

Syst Appl Microbiol. 2024 Sep;47(5):126543. doi: 10.1016/j.syapm.2024.126543. Epub 2024 Aug 12.

DOI:10.1016/j.syapm.2024.126543

PMID:39163745

Abstract

A dual system for naming prokaryotes is currently in place based on the well-established International Code of Nomenclature of Prokaryotes (ICNP) and the newly created Code of Nomenclature of Prokaryotes Described from Sequence Data (SeqCode). Whilst recent creation of the SeqCode opened an avenue to accelerate the naming of uncultured taxa, the existence of two codes increases the risk of species being assigned multiple validly published names. In this work we present a workflow that aims to limit conflicts by firstly naming novel cultured taxa under the SeqCode, and secondly under the ICNP, enhancing the traceability of the taxa across the two codes. To exemplify this workflow, we describe four novel taxa isolated from the intestine of pigs: Intestinicryptomonas porci gen. nov., sp. nov. (strain CLA-KB-P66, genome accession GCA_033971905.1) within a novel family, Intestinicryptomonaceae; Grylomicrobium aquisgranensis gen. nov., sp. nov. (CLA-KB-P133, GCA_033971865.1); Absicoccus intestinalis sp. nov. (CLA-KB-P134, GCA_033971885.1); and Mesosutterella porci sp. nov. (oilRF-744- wt-GAM-9, GCF_022134585.1).

摘要

目前，基于成熟的《国际原核生物命名法规》（ICNP）和新创建的《基于序列数据的原核生物命名法规》（SeqCode），采用了一种双重原核生物命名系统。虽然 SeqCode 的最近创建为加速未培养分类单元的命名开辟了一条途径，但两个代码的存在增加了物种被赋予多个有效发表名称的风险。在这项工作中，我们提出了一种工作流程，旨在通过首先根据 SeqCode 为新培养的分类单元命名，然后根据 ICNP 进行命名，来限制冲突，从而增强两个代码中分类单元的可追溯性。为了举例说明这个工作流程，我们描述了从猪肠道中分离出的四个新分类单元：属于一个新科的新型内隐 Cryptomonas 属，porci 种（CLA-KB-P66 株，基因组序列 GCA_033971905.1）；Grylomicrobium aquisgranensis 属，nov. 种（CLA-KB-P133，GCA_033971865.1）；Absicoccus intestinalis 种，nov. （CLA-KB-P134，GCA_033971885.1）；以及 Mesosutterella porci 种，nov. （oilRF-744- wt-GAM-9，GCF_022134585.1）。