Metagenomics Comparison of Buruli and Non Buruli Ulcer Skin Wound

Abstract

Introduction: Buruli Ulcer (BU) is caused due to mycobacteria, namely Mycobacterium ulcerans. Buruli ulcer is caused by the mycolactones that are secreted by the Mycobacterium ulcerans which results into the tissue necrosis. Metagenomics is a branch of genomics that deals with the study of uncultured microbial genomes present in natural samples like human body parts, environmental samples, food and dairy, disease conditions. Metagenomics branch has enabled us to explore and elucidate the importance of microbial genomes in healthy and infected samples. Aim: To evaluate metagenomic and microbial analysis of buruli and non buruli ulcer skin wound samples along with structural and functional analysis of MUL_3720 protein. Materials and Methods: The present analytical study was conducted from May 2021 to January 2022 at Amity Institute of Biotechnology, Amity University Uttar Pradesh, Lucknow, India. European Nucleotide Archive (ENA) database was used to retrieve metagenome data of BU and non BU skin lesions with the project id PRJEB14948. Galaxy server was used for the metagenomics analysis from quality control to identification and classification of microbial community in the samples. Different tools from the Galaxy like FASTQC, Trim Galore, KRAKEN2, convert kraken, Krona pie chart tools were used for metagenomic analysis and for taxonomic classification of microbes. Finally, Krona pie chart was generated that gives an elaborate understanding of the different microbes and their percentage in the BU. Complete annotation like protein structure prediction, domain analysis of MUL_3720 protein of Mycobacterium ulcerans was also done as potential drug target against BU. Statistical analysis was done using Krona pie chart generation and prediction. Results: Metagenomic analysis shows that there is difference in microbiome of BU and non BU samples. Differential microbes identified were Mycobacteriacae 1-2%, Sporomusa species 18-22% and Desulfovibrio halophillus 24-25%. Bacteria which were present in both the samples are Actiniidae, Desulfovibrio halophillus, Sphingomonas, and Mycobacteriacae. Structural and functional annotation of MUL_3720 protein of Mycobacterium ulcerans shows that MUL_3720 protein can be potential drug target for drug discovery. Conclusion: This study highlights the metagenome of Buruli Ulcer skin wound and can be used to identify potential drug targets for Buruli Ulcer. Metagenomic analysis of BU and non BU skin wound shows that there is difference in microbial community hence this information can be used in proper diagnostic and medication to combat Buruli Ulcer disease.

Keywords

• european nucleotide archive database
• galaxy server
• krona pie chart
• microbiome