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生物表面活性剂产生菌,解糖地芽孢杆菌的基因组分析。

Genome analysis of biosurfactant producing bacterium, Bacillus tequilensis.

机构信息

Computer Aided Drug Designing and Molecular Modeling Lab, Department of Bioinformatics, Alagappa University, Karaikudi, Tamil Nadu, India.

In silico Research Laboratory, Eminent Biosciences, Indore, Madhya Pradesh, India.

出版信息

PLoS One. 2023 Jun 2;18(6):e0285994. doi: 10.1371/journal.pone.0285994. eCollection 2023.

Abstract

Bioremediation is crucial for recuperating polluted water and soil. By expanding the surface area of substrates, biosurfactants play a vital role in bioremediation. Biosurfactant-producing microbes release certain biosurfactant compounds, which are promoted for oil spill remediation. In the present investigation, a biosurfactant-producing bacterium Bacillus tequilensis was isolated from Chilika Lake, Odisha, India (latitude and longitude: 19.8450 N 85.4788 E). Whole-Genome Sequencing (WGS) of Bacillus tequilensis was carried out using Illumina NextSeq 500. The size of the whole genome of Bacillus tequilensis was 4.47 MB consisting of 4,478,749 base pairs forming a circular chromosome with 528 scaffolds, 4492 protein-encoding genes (ORFs), 81 tRNA genes, and 114 ribosomal RNA transcription units. The total raw reads were 4209415, and the processed reads were 4058238 with 4492 genes. The whole genome obtained from the present investigation was used for genome annotation, variant calling, variant annotation, and comparative genome analysis with other existing Bacillus species. In this study, a pathway was constructed which describes the biosurfactant metabolism of Bacillus tequilensis. The study identified that genes such as SrfAD, SrfAC, SrfAA and SrfAB are involved in biosurfactant synthesis. The sequence of the genes SrfAD, SrfAC, SrfAA, SrfAB was deposited in GenBank database with accession MUG02427.1, MUG02428.1, MUG02429.1, MUG03515.1 respectively. The whole genome sequence was submitted to GenBank with an accession RMVO00000000 and the raw fastq reads were submitted to SRA, NCBI repository with an accession: SRX5023292.

摘要

生物修复对于受污染的水和土壤的恢复至关重要。通过扩大基质的表面积,生物表面活性剂在生物修复中起着至关重要的作用。产生生物表面活性剂的微生物释放某些生物表面活性剂化合物,这些化合物被促进用于溢油修复。在本研究中,从印度奥里萨邦奇利卡湖(纬度和经度:19.8450 N 85.4788 E)分离出一种产生生物表面活性剂的细菌 Bacillus tequilensis。使用 Illumina NextSeq 500 对 Bacillus tequilensis 进行全基因组测序(WGS)。 Bacillus tequilensis 的全基因组大小为 4.47 MB,由 4478749 个碱基对组成,形成一个具有 528 个支架的圆形染色体,包含 4492 个蛋白质编码基因(ORFs)、81 个 tRNA 基因和 114 个核糖体 RNA 转录单位。总原始读数为 4209415,处理后的读数为 4058238,其中包含 4492 个基因。本研究获得的全基因组用于基因组注释、变异调用、变异注释和与其他现有 Bacillus 物种的比较基因组分析。在这项研究中,构建了一个描述 Bacillus tequilensis 生物表面活性剂代谢的途径。研究表明,SrfAD、SrfAC、SrfAA 和 SrfAB 等基因参与了生物表面活性剂的合成。基因 SrfAD、SrfAC、SrfAA、SrfAB 的序列已分别在 GenBank 数据库中以 MUG02427.1、MUG02428.1、MUG02429.1、MUG03515.1 的登录号进行了注册。全基因组序列已提交给 GenBank,登录号为 RMVO00000000,原始快速读取序列已提交给 SRA、NCBI 存储库,登录号为 SRX5023292。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cefa/10237388/b788d2784ba5/pone.0285994.g001.jpg

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