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Comparison of the diversity of cultured and total bacterial communities in marine sediment using culture-dependent and sequencing methods
Despite recent great advances in microbial culture, most microbes have not yet been cultured, and the impact of medium composition on the isolation of microbes from natural systems has not been elucidated. To optimize media for culturing marine microbes, microbial communities in three sediment sampl...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
PeerJ Inc.
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7585373/ https://www.ncbi.nlm.nih.gov/pubmed/33150062 http://dx.doi.org/10.7717/peerj.10060 |
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author | Wang, Meng Noor, Samina Huan, Ran Liu, Congling Li, JiaYi Shi, Qingxin Zhang, Yan-Jiao Wu, Cuiling He, Hailun |
author_facet | Wang, Meng Noor, Samina Huan, Ran Liu, Congling Li, JiaYi Shi, Qingxin Zhang, Yan-Jiao Wu, Cuiling He, Hailun |
author_sort | Wang, Meng |
collection | PubMed |
description | Despite recent great advances in microbial culture, most microbes have not yet been cultured, and the impact of medium composition on the isolation of microbes from natural systems has not been elucidated. To optimize media for culturing marine microbes, microbial communities in three sediment samples were described using high-throughput sequencing (HTS) and culture-dependent techniques. HTS revealed communities dominated by Gammaproteobacteria, and culture-based methods revealed communities dominated by Actinobacteria. Among the total operational taxonomic units (OTUs) from the HTS dataset, 6% were recovered in the culture collection. Four potentially novel bacterial strains belonging to Oceaniovalibus, Psychrobacter and Salegentibacter were isolated. The combination of media cultured more taxa than any single medium. Nutrient-rich and single-carbon/nitrogen-source media supported the growth of relatively few taxa, and the quality of nitrogen strongly influenced the types of bacteria isolated. |
format | Online Article Text |
id | pubmed-7585373 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | PeerJ Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-75853732020-11-03 Comparison of the diversity of cultured and total bacterial communities in marine sediment using culture-dependent and sequencing methods Wang, Meng Noor, Samina Huan, Ran Liu, Congling Li, JiaYi Shi, Qingxin Zhang, Yan-Jiao Wu, Cuiling He, Hailun PeerJ Biotechnology Despite recent great advances in microbial culture, most microbes have not yet been cultured, and the impact of medium composition on the isolation of microbes from natural systems has not been elucidated. To optimize media for culturing marine microbes, microbial communities in three sediment samples were described using high-throughput sequencing (HTS) and culture-dependent techniques. HTS revealed communities dominated by Gammaproteobacteria, and culture-based methods revealed communities dominated by Actinobacteria. Among the total operational taxonomic units (OTUs) from the HTS dataset, 6% were recovered in the culture collection. Four potentially novel bacterial strains belonging to Oceaniovalibus, Psychrobacter and Salegentibacter were isolated. The combination of media cultured more taxa than any single medium. Nutrient-rich and single-carbon/nitrogen-source media supported the growth of relatively few taxa, and the quality of nitrogen strongly influenced the types of bacteria isolated. PeerJ Inc. 2020-10-21 /pmc/articles/PMC7585373/ /pubmed/33150062 http://dx.doi.org/10.7717/peerj.10060 Text en ©2020 Wang et al. https://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ) and either DOI or URL of the article must be cited. |
spellingShingle | Biotechnology Wang, Meng Noor, Samina Huan, Ran Liu, Congling Li, JiaYi Shi, Qingxin Zhang, Yan-Jiao Wu, Cuiling He, Hailun Comparison of the diversity of cultured and total bacterial communities in marine sediment using culture-dependent and sequencing methods |
title | Comparison of the diversity of cultured and total bacterial communities in marine sediment using culture-dependent and sequencing methods |
title_full | Comparison of the diversity of cultured and total bacterial communities in marine sediment using culture-dependent and sequencing methods |
title_fullStr | Comparison of the diversity of cultured and total bacterial communities in marine sediment using culture-dependent and sequencing methods |
title_full_unstemmed | Comparison of the diversity of cultured and total bacterial communities in marine sediment using culture-dependent and sequencing methods |
title_short | Comparison of the diversity of cultured and total bacterial communities in marine sediment using culture-dependent and sequencing methods |
title_sort | comparison of the diversity of cultured and total bacterial communities in marine sediment using culture-dependent and sequencing methods |
topic | Biotechnology |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7585373/ https://www.ncbi.nlm.nih.gov/pubmed/33150062 http://dx.doi.org/10.7717/peerj.10060 |
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