CAMPER: curated annotations for profiling microbial polyphenol metabolic potential.
CAMPER: curated annotations for profiling microbial polyphenol metabolic potential.
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CAMPER：用于分析微生物多酚代谢潜力的精选注释。
DOI：
10.1101/2023.09.24.559193
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发表时间：
2024
期刊：
影响因子：
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通讯作者：
Wrighton,KellyC
中科院分区：
文献类型：
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作者：
McGivern,BridgetB;Woyda,Reed;Flynn,RoryM;Wrighton,KellyC
多酚是生态系统中丰富多样的碳源，在寄主相关系统和陆地系统中都具有重要作用。然而，编码多酚代谢酶的微生物基因在常用的注释数据库中的代表性很差，限制了对这种代谢的广泛调查。在这里，我们介绍CAMPER，这是一个工具，它结合了定制的注释搜索和数据库派生的搜索，为广大受众注释和总结多酚代谢基因。有了CAMPER，用户将识别潜在的多酚活性基因和基因组，以更广泛地了解他们数据集中的微生物碳循环。可用性和实现：Camper是用Python语言实现的，并根据GNU通用公共许可证版本3发布。它既可以作为独立工具使用，也可以作为DRAM v.1.5+中的数据库使用。源代码和完整文档可在GitHub上获得，网址为https://github.com/WrightonLabCSU/CAMPER.
Polyphenols are diverse and abundant carbon sources across ecosystems-having important roles in host-associated and terrestrial systems alike. However, the microbial genes encoding polyphenol metabolic enzymes are poorly represented in commonly used annotation databases, limiting widespread surveying of this metabolism. Here we present CAMPER, a tool that combines custom annotation searches with database-derived searches to both annotate and summarize polyphenol metabolism genes for a wide audience. With CAMPER, users will identify potential polyphenol-active genes and genomes to more broadly understand microbial carbon cycling in their datasets. Availability and Implementation: CAMPER is implemented in Python and is published under the GNU General Public License Version 3. It is available as both a standalone tool and as a database in DRAM v.1.5+. The source code and full documentation is available on GitHub at https://github.com/WrightonLabCSU/CAMPER.