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Deciphering the microbiota data from termite mound soil in South Africa using shotgun metagenomics.

ABSTRACT: We present the metagenomic dataset of the microbial DNA of a termite mound in the North West Province of South Africa. This is the foremost account revealing the microbial diversity of a termite mound soil using the shotgun metagenomics approach in the Province. Next-generation sequencing of the community DNA was carried out on an Illumina Miseq platform. The metagenome comprised of 7,270,818 sequences representing 1,172,099,467 bps with a mean length of 161 bps and 52% G + C content. The sequence data is accessible at the NCBI SRA under the bioproject number PRJNA526912. Metagenomic Rapid Annotations using Subsystems Technology (MG-RAST) was employed for community analysis and it was observed that 0.36% sequences were of archeal origin, 9.51% were eukaryotes and 90.01% were fit to bacteria. A total of 5 archeal, 27 bacterial, and 22 eukaryotic phyla were revealed. Abundant genera were Sphingomonas (6.00%), Streptomyces (5.00%), Sphingobium (4.00%), Sphingopyxis (3.00%), and Mycobacterium (3.00%), representing 19.23% in the metagenome. For functional examination, Cluster-of-Orthologous-Group (COG) based annotation showed that 46.44% sequences were metabolism associated and 17.45% grouped in the poorly characterized category. Subsystem based annotation method indicated that 14.00% sequences were carbohydrates, 13.00% were clustering-based subsystems, and 10.00% genes for amino acids and derivatives together with the presence of useful traits needed in the body of science.

SUBMITTER: Enagbonma BJ

PROVIDER: S-EPMC6889748 | biostudies-literature | 2020 Feb

REPOSITORIES: biostudies-literature

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Deciphering the microbiota data from termite mound soil in South Africa using shotgun metagenomics.

Enagbonma Ben Jesuorsemwen BJ Amoo Adenike Eunice AE Babalola Olubukola Oluranti OO

Data in brief 20191113

We present the metagenomic dataset of the microbial DNA of a termite mound in the North West Province of South Africa. This is the foremost account revealing the microbial diversity of a termite mound soil using the shotgun metagenomics approach in the Province. Next-generation sequencing of the community DNA was carried out on an Illumina Miseq platform. The metagenome comprised of 7,270,818 sequences representing 1,172,099,467 bps with a mean length of 161 bps and 52% G + C content. The sequen ...[more]

PMID: 31832528

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Project description:Changes in the microbial gene content and abundance can be analyzed to detect shifts in the microbiota composition due to the use of a starter culture in the food fermentation process, with the consequent shift of key metabolic pathways directly connected with product acceptance. Meat fermentation is a complex process involving microbes that metabolize the main components in meat. The breakdown of carbohydrates, proteins, and lipids can lead to the formation of volatile organic compounds (VOCs) that can drastically affect the organoleptic characteristics of the final products. The present meta-analysis, performed with the shotgun DNA metagenomic approach, focuses on studying the microbiota and its gene content in an Italian fermented sausage produced by using a commercial starter culture (a mix of Lactobacillus sakei and Staphylococcus xylosus), with the aim to discover the connections between the microbiota, microbiome, and the release of volatile metabolites during ripening. The inoculated fermentation with the starter culture limited the development of Enterobacteriaceae and reduced the microbial diversity compared to that from spontaneous fermentation. KEGG database genes associated with the reduction of acetaldehyde to ethanol (EC 1.1.1.1), acetyl phosphate to acetate (EC 2.7.2.1), and 2,3-butanediol to acetoin (EC 1.1.1.4) were most abundant in inoculated samples (I) compared to those in spontaneous fermentation samples (S). The volatilome profiles were highly consistent with the abundance of the genes; elevated acetic acid (1,173.85 μg/kg), ethyl acetate (251.58 μg/kg), and acetoin (1,100.19 μg/kg) were observed in the presence of the starters at the end of fermentation. Significant differences were found in the liking of samples based on flavor and odor, suggesting a higher preference by consumers for the spontaneous fermentation samples. Inoculated samples exhibited the lowest scores for the liking data, which were clearly associated with the highest concentration of acetic acid.IMPORTANCE We present an advance in the understanding of meat fermentation by coupling DNA sequencing metagenomics and metabolomics approaches to describe the microbial function during this process. Very few studies using this global approach have been dedicated to food, and none have examined sausage fermentation, underlying the originality of the study. The starter culture drastically affected the organoleptic properties of the products. This finding underlines the importance of starter culture selection that takes into consideration the functional characteristics of the microorganism to optimize production efficiency and product quality.

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Dataset Information

Deciphering the microbiota data from termite mound soil in South Africa using shotgun metagenomics.

Publications

Deciphering the microbiota data from termite mound soil in South Africa using shotgun metagenomics.

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