EzBioCloud 16S rRNA Gene Sequence Formatter: a Python-based sequence formatting tool for systematic microbiology.

IF 2 3区生物学 Q4 MICROBIOLOGY

International journal of systematic and evolutionary microbiology Pub Date : 2025-09-01 DOI:10.1099/ijsem.0.006890

Rashidin Abdugheni, Wen-Jun Li

引用次数: 0

Abstract

EzBioCloud is one of the practical reference databases and analytical platforms for systematic microbiology research. The EzBioCloud database provides convenient services in this regard, especially for performing sequence analysis using the 16S rRNA genes. However, '.fasta' files of 16S rRNA sequences obtained after the alignment in EzBioCloud need manual formatting for further analysis and phylogenetic tree construction, which is labourious and time-consuming. To address this issue, we have developed a Python-based tool, EzBioCloud 16S rRNA Gene Sequence Formatter (version 1.0), designed to assist in sequence formatting. Here, we report the development and application of the tool and present this tool publicly to support the researchers in the relevant field.

查看原文本刊更多论文

EzBioCloud 16S rRNA基因序列格式化器：基于python的系统微生物学序列格式化工具。

EzBioCloud是系统微生物学研究的实用参考数据库和分析平台之一。EzBioCloud数据库在这方面提供了便利的服务，特别是使用16S rRNA基因进行序列分析。然而,”。在EzBioCloud中比对得到的16S rRNA序列fasta’文件需要手工格式化，以便进一步分析和构建系统发育树，这是一项费力且耗时的工作。为了解决这个问题，我们开发了一个基于python的工具，EzBioCloud 16S rRNA基因序列格式化器（版本1.0），旨在协助序列格式化。在这里，我们报告了该工具的开发和应用，并公开展示该工具，以支持相关领域的研究人员。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

求助全文

约1分钟内获得全文求助全文

来源期刊

International journal of systematic and evolutionary microbiology 生物-微生物学

CiteScore

5.20

自引率

21.40%

发文量

426

审稿时长

1 months

期刊介绍： Published by the Microbiology Society and owned by the International Committee on Systematics of Prokaryotes (ICSP), a committee of the Bacteriology and Applied Microbiology Division of the International Union of Microbiological Societies, International Journal of Systematic and Evolutionary Microbiology is the leading forum for the publication of novel microbial taxa and the ICSP’s official journal of record for prokaryotic names. The journal welcomes high-quality research on all aspects of microbial evolution, phylogenetics and systematics, encouraging submissions on all prokaryotes, yeasts, microfungi, protozoa and microalgae across the full breadth of systematics including: Identification, characterisation and culture preservation Microbial evolution and biodiversity Molecular environmental work with strong taxonomic or evolutionary content Nomenclature Taxonomy and phylogenetics.