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16S rRNA metagenomics data on the bacterial communities in integrated poultry-fish farm ponds
In an integrated poultry-fish (IPF) farming system, fish and bird are reared simultaneously. It is a common practice in Sub-Saharan Africa countries like Nigeria, Cameroon, Madagascar, and Benin, offering economic benefits to farmers and minimizing farm running costs. It seems like another way for f...
Autores principales: | , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Elsevier
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9130544/ https://www.ncbi.nlm.nih.gov/pubmed/35647232 http://dx.doi.org/10.1016/j.dib.2022.108269 |
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author | Akinde, Sunday B. Adeyemi, Folasade M. Oyedara, Omotayo O. Ajani, Temitope F. Sule, Waidi F. Olaitan, Janet O. Iwalokun, Bamidele A. Ojo, Olabisi O. |
author_facet | Akinde, Sunday B. Adeyemi, Folasade M. Oyedara, Omotayo O. Ajani, Temitope F. Sule, Waidi F. Olaitan, Janet O. Iwalokun, Bamidele A. Ojo, Olabisi O. |
author_sort | Akinde, Sunday B. |
collection | PubMed |
description | In an integrated poultry-fish (IPF) farming system, fish and bird are reared simultaneously. It is a common practice in Sub-Saharan Africa countries like Nigeria, Cameroon, Madagascar, and Benin, offering economic benefits to farmers and minimizing farm running costs. It seems like another way for farmers to manage poultry waste as it is a common practice in IPF farm settings to feed reared fishes with wastes emanating from the poultry. This work provides dataset on the bacterial taxonomic profile and abundance in IPF farm pond water samples using the 16S rRNA sequencing approach. Using ZymoBIOMICS®-96 MagBead DNA Kit, total DNA was extracted from pond water samples collected from IPF farm located at Ila-Orangun, Osun State, Southwest Nigeria (Long: 8° 1′ N; Lat: 4° 54′ E) during two sampling visits. The V3-V4 region of the rRNA gene was amplified and sequenced on the Miseq Illumina sequencing platform. Raw reads obtained after demultiplexing were analyzed using DADA2 pipeline to obtain distinctive or unique amplicon sequence variants which were grouped into Operational Taxonomic Units (OTUs) based on similarities. Taxonomy assignment was performed using UCLUST and Bayesian classifier from QIIME v.1.9.1 with the Zymo Research Database as reference. The phyla Proteobacteria (26.7%), Actinobacteria (26.0%), Firmicutes (13.1%), and Cyanobacteria (10.1%) dominated the 35 phyla obtained from the OTUs. Interestingly, the abundance of bacterial pathogens commonly associated with human infections was low. The sequence and sample data have been deposited in NCBI database under Sequence Read Archive (SRA) with Bioproject identification number PRJNA760919 (Accession number: SRX12020336 – SRX12020346). The dataset obtained can bridge the gap of limited information on the impact of IPF farming on pond bacterial diversity, a critical factor for considerations as regards food safety, fish, and public health. |
format | Online Article Text |
id | pubmed-9130544 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Elsevier |
record_format | MEDLINE/PubMed |
spelling | pubmed-91305442022-05-26 16S rRNA metagenomics data on the bacterial communities in integrated poultry-fish farm ponds Akinde, Sunday B. Adeyemi, Folasade M. Oyedara, Omotayo O. Ajani, Temitope F. Sule, Waidi F. Olaitan, Janet O. Iwalokun, Bamidele A. Ojo, Olabisi O. Data Brief Data Article In an integrated poultry-fish (IPF) farming system, fish and bird are reared simultaneously. It is a common practice in Sub-Saharan Africa countries like Nigeria, Cameroon, Madagascar, and Benin, offering economic benefits to farmers and minimizing farm running costs. It seems like another way for farmers to manage poultry waste as it is a common practice in IPF farm settings to feed reared fishes with wastes emanating from the poultry. This work provides dataset on the bacterial taxonomic profile and abundance in IPF farm pond water samples using the 16S rRNA sequencing approach. Using ZymoBIOMICS®-96 MagBead DNA Kit, total DNA was extracted from pond water samples collected from IPF farm located at Ila-Orangun, Osun State, Southwest Nigeria (Long: 8° 1′ N; Lat: 4° 54′ E) during two sampling visits. The V3-V4 region of the rRNA gene was amplified and sequenced on the Miseq Illumina sequencing platform. Raw reads obtained after demultiplexing were analyzed using DADA2 pipeline to obtain distinctive or unique amplicon sequence variants which were grouped into Operational Taxonomic Units (OTUs) based on similarities. Taxonomy assignment was performed using UCLUST and Bayesian classifier from QIIME v.1.9.1 with the Zymo Research Database as reference. The phyla Proteobacteria (26.7%), Actinobacteria (26.0%), Firmicutes (13.1%), and Cyanobacteria (10.1%) dominated the 35 phyla obtained from the OTUs. Interestingly, the abundance of bacterial pathogens commonly associated with human infections was low. The sequence and sample data have been deposited in NCBI database under Sequence Read Archive (SRA) with Bioproject identification number PRJNA760919 (Accession number: SRX12020336 – SRX12020346). The dataset obtained can bridge the gap of limited information on the impact of IPF farming on pond bacterial diversity, a critical factor for considerations as regards food safety, fish, and public health. Elsevier 2022-05-15 /pmc/articles/PMC9130544/ /pubmed/35647232 http://dx.doi.org/10.1016/j.dib.2022.108269 Text en © 2022 The Authors. Published by Elsevier Inc. https://creativecommons.org/licenses/by/4.0/This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Data Article Akinde, Sunday B. Adeyemi, Folasade M. Oyedara, Omotayo O. Ajani, Temitope F. Sule, Waidi F. Olaitan, Janet O. Iwalokun, Bamidele A. Ojo, Olabisi O. 16S rRNA metagenomics data on the bacterial communities in integrated poultry-fish farm ponds |
title | 16S rRNA metagenomics data on the bacterial communities in integrated poultry-fish farm ponds |
title_full | 16S rRNA metagenomics data on the bacterial communities in integrated poultry-fish farm ponds |
title_fullStr | 16S rRNA metagenomics data on the bacterial communities in integrated poultry-fish farm ponds |
title_full_unstemmed | 16S rRNA metagenomics data on the bacterial communities in integrated poultry-fish farm ponds |
title_short | 16S rRNA metagenomics data on the bacterial communities in integrated poultry-fish farm ponds |
title_sort | 16s rrna metagenomics data on the bacterial communities in integrated poultry-fish farm ponds |
topic | Data Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9130544/ https://www.ncbi.nlm.nih.gov/pubmed/35647232 http://dx.doi.org/10.1016/j.dib.2022.108269 |
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