网络警报:生物技术的宏基因组挖掘

IF 4.8 2区生物学 Q1 BIOTECHNOLOGY & APPLIED MICROBIOLOGY Microbial Biotechnology Pub Date : 2023-08-22 DOI:10.1111/1751-7915.14334

Lawrence P. Wackett

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引用次数: 0

摘要

开采萜烯合成酶https://biotechnologyforbiofuels.biomedcentral.com/articles/10.1186/s13068-022-02189-9萜烯是一种重要的工业和高度丰富的一类天然产物。本文综述了土壤微生物基因组中已知和新的萜类化合物编码基因的挖掘。新果胶酶的宏基因组分析https://biotechnologyforbiofuels.biomedcentral.com/articles/10.1186/s13068-017-0885-y本研究通过观察与苹果堆肥相关的特定微生物组来寻找新的果胶分解酶。重新利用CRISPRi进行宏基因组挖掘https://www.nature.com/articles/s41587-022-01563-0这项发表在《自然生物技术》上的研究描述了一种新的crispr干扰方法来快速挖掘宏基因组和基因组序列。这本杂志不需要订阅，但可以通过许多机构图书馆获得。天然产物的宏基因组挖掘https://www.biorxiv.org/content/10.1101/2021.01.20.427441v1.full这篇关于生物学研究预印本服务器的文章描述了一个快速挖掘微生物生物合成基因簇的工具。挖掘酶多样性https://link.springer.com/referenceworkentry/10.1007/978-3-319-31421-1_216-1本综述书的章节侧重于新酶多样性的宏基因组挖掘。微流控和宏基因组挖掘https://www.liebertpub.com/doi/10.1089/crispr.2022.0054本文描述了一种高通量的微流控方法来富集宏基因组混合物中的稀有序列。挖掘隐藏的生物合成潜力https://www.nature.com/articles/s41467-021-24133-5这是一篇发表在开放源代码期刊《自然通讯》上的综述文章，重点研究了次生代谢物的挖掘。海洋微生物的长读宏基因组学https://journals.asm.org/doi/10.1128/spectrum.01501-23长读测序对于发现生物合成基因簇非常重要，这些基因簇通常由数十个连续的基因组成。寻找酶https://elifesciences.org/digests/70021/hunting-down-enzymes这篇杂志风格的文章描述了分析基因组以发现修改DNA的新酶的工具。MGnify数据库https://www.ebi.ac.uk/metagenomics MGnify是一个数据库和平台，可用于组装，分析和存档微生物组衍生的核酸序列。MGnify基因组https://www.sciencedirect.com/science/article/pii/S0022283623000724这篇最近的论文描述了MGnify基因组，它是MGnify数据库的扩展。这一资源包括越来越多的生物群落特异性宏基因组组装基因组(MAGs)。宏基因组提交指南https://www.ncbi.nlm.nih.gov/genbank/metagenome/此页面提供了向国家生物技术信息中心(NCBI)提交宏基因组项目序列的信息。

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Web alert: Metagenomic mining for biotechnology

Mining terpene synthases

https://biotechnologyforbiofuels.biomedcentral.com/articles/10.1186/s13068-022-02189-9

Terpenes are an industrially important and highly abundant class of natural products. This review discussed mining of soil microbial genomes for genes encoding known and novel terpenoid compounds.

Metagenomic analysis for new pectinases

https://biotechnologyforbiofuels.biomedcentral.com/articles/10.1186/s13068-017-0885-y

This study looked a specific microbiome connected to apple compost to find new pectinolytic enzymes.

Repurposing CRISPRi for metagenomic mining

https://www.nature.com/articles/s41587-022-01563-0

This study in Nature Biotechnology describes a new CRISPR-interference method to rapidly mine metagenomic and genomic sequences. This journal is not available without subscription, but is available through many institutional libraries.

Metagenomic mining for natural products

https://www.biorxiv.org/content/10.1101/2021.01.20.427441v1.full

This article on a preprint server for biological studies describes a tool for rapid mining of microbial biosynthetic gene clusters.

Mining enzyme diversity

https://link.springer.com/referenceworkentry/10.1007/978-3-319-31421-1_216-1

This review book chapter focuses on metagenomic mining for new enzyme diversity.

Microfluidics and metagenome mining

https://www.liebertpub.com/doi/10.1089/crispr.2022.0054

This paper describes a high-throughput, microfluidic method to enrich rare sequences in a metagenomic mixture.

Mining hidden biosynthetic potential

https://www.nature.com/articles/s41467-021-24133-5

This is a review article in an open-source journal, Nature Communications, focused on mining for secondary metabolites.

Long-read metagenomics of marine microbes

https://journals.asm.org/doi/10.1128/spectrum.01501-23

Long-read sequencing is important for discovering biosynthetic gene clusters, which are often comprised of dozens of contiguous genes.

Hunting down enzymes

https://elifesciences.org/digests/70021/hunting-down-enzymes

This magazine style article describes tools for analysing genomes to find new enzymes that modify DNA.

MGnify database

https://www.ebi.ac.uk/metagenomics

MGnify is a database and platform that can be used to assemble, analyse and archive microbiome-derived nucleic acid sequences.

MGnify genomes

https://www.sciencedirect.com/science/article/pii/S0022283623000724

This recent paper describes MGnify Genomes, an extension of the MGnify database. This resource includes the increasing availability of biome-specific metagenome-assembled genomes (MAGs).

Metagenome submission guide

https://www.ncbi.nlm.nih.gov/genbank/metagenome/

This page offers information for submitting metagenome project sequences to the National Center for Biotechnology Information (NCBI).

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来源期刊

Microbial Biotechnology BIOTECHNOLOGY & APPLIED MICROBIOLOGY-MICROBIOLOGY

CiteScore

9.80

自引率

3.50%

发文量

162

审稿时长

6-12 weeks

期刊介绍： Microbial Biotechnology publishes papers of original research reporting significant advances in any aspect of microbial applications, including, but not limited to biotechnologies related to: Green chemistry; Primary metabolites; Food, beverages and supplements; Secondary metabolites and natural products; Pharmaceuticals; Diagnostics; Agriculture; Bioenergy; Biomining, including oil recovery and processing; Bioremediation; Biopolymers, biomaterials; Bionanotechnology; Biosurfactants and bioemulsifiers; Compatible solutes and bioprotectants; Biosensors, monitoring systems, quantitative microbial risk assessment; Technology development; Protein engineering; Functional genomics; Metabolic engineering; Metabolic design; Systems analysis, modelling; Process engineering; Biologically-based analytical methods; Microbially-based strategies in public health; Microbially-based strategies to influence global processes

期刊最新文献

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