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The complete genome sequence of Hafnia alvei A23BA; a potential antibiotic-producing rhizobacterium
OBJECTIVES: The urgent need for novel antibiotics cannot be overemphasized. Hafnia alvei A23BA was isolated from plant rhizosphere as part of an effort to recover novel antibiotic-producing bacterial strains from soil samples. The genome of the isolate was sequenced to facilitate mining for potentia...
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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BioMed Central
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7789536/ https://www.ncbi.nlm.nih.gov/pubmed/33407900 http://dx.doi.org/10.1186/s13104-020-05418-2 |
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author | Awolope, Opeyemi K. O’Driscoll, Noelle H. Di Salvo, Alberto Lamb, Andrew J. |
author_facet | Awolope, Opeyemi K. O’Driscoll, Noelle H. Di Salvo, Alberto Lamb, Andrew J. |
author_sort | Awolope, Opeyemi K. |
collection | PubMed |
description | OBJECTIVES: The urgent need for novel antibiotics cannot be overemphasized. Hafnia alvei A23BA was isolated from plant rhizosphere as part of an effort to recover novel antibiotic-producing bacterial strains from soil samples. The genome of the isolate was sequenced to facilitate mining for potential antibiotic-encoding biosynthetic gene clusters and to gain insights into how these gene clusters could be activated. DATA DESCRIPTION: Here, we report the complete genome sequence of H. alvei A23BA obtained from the hybrid assembly of Illumina HiSeq and GridION reads. The genome, consisting of a circular chromosome and a circular plasmid, is 4.77 Mb in size with a GC content of 48.77%. The assembly is 99.5% complete with genomic features including 4,217 CDSs, 125 RNAs, and 30 pseudogenes. Thiopeptide, beta-lactone, siderophore, and homoserine lactone biosynthetic gene clusters were also identified. Other gene clusters of interest include those associated with bioremediation, biocontrol, and plant growth promotion- all of which are reported for H. alvei for the first time. This dataset serves to expedite the exploration of the biosynthetic and metabolic potentials of the species. Furthermore, being the first published genome sequence of a soil isolate, this dataset enriches the comparative genomics study of H. alvei strains. |
format | Online Article Text |
id | pubmed-7789536 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-77895362021-01-07 The complete genome sequence of Hafnia alvei A23BA; a potential antibiotic-producing rhizobacterium Awolope, Opeyemi K. O’Driscoll, Noelle H. Di Salvo, Alberto Lamb, Andrew J. BMC Res Notes Data Note OBJECTIVES: The urgent need for novel antibiotics cannot be overemphasized. Hafnia alvei A23BA was isolated from plant rhizosphere as part of an effort to recover novel antibiotic-producing bacterial strains from soil samples. The genome of the isolate was sequenced to facilitate mining for potential antibiotic-encoding biosynthetic gene clusters and to gain insights into how these gene clusters could be activated. DATA DESCRIPTION: Here, we report the complete genome sequence of H. alvei A23BA obtained from the hybrid assembly of Illumina HiSeq and GridION reads. The genome, consisting of a circular chromosome and a circular plasmid, is 4.77 Mb in size with a GC content of 48.77%. The assembly is 99.5% complete with genomic features including 4,217 CDSs, 125 RNAs, and 30 pseudogenes. Thiopeptide, beta-lactone, siderophore, and homoserine lactone biosynthetic gene clusters were also identified. Other gene clusters of interest include those associated with bioremediation, biocontrol, and plant growth promotion- all of which are reported for H. alvei for the first time. This dataset serves to expedite the exploration of the biosynthetic and metabolic potentials of the species. Furthermore, being the first published genome sequence of a soil isolate, this dataset enriches the comparative genomics study of H. alvei strains. BioMed Central 2021-01-06 /pmc/articles/PMC7789536/ /pubmed/33407900 http://dx.doi.org/10.1186/s13104-020-05418-2 Text en © The Author(s) 2021 Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data. |
spellingShingle | Data Note Awolope, Opeyemi K. O’Driscoll, Noelle H. Di Salvo, Alberto Lamb, Andrew J. The complete genome sequence of Hafnia alvei A23BA; a potential antibiotic-producing rhizobacterium |
title | The complete genome sequence of Hafnia alvei A23BA; a potential antibiotic-producing rhizobacterium |
title_full | The complete genome sequence of Hafnia alvei A23BA; a potential antibiotic-producing rhizobacterium |
title_fullStr | The complete genome sequence of Hafnia alvei A23BA; a potential antibiotic-producing rhizobacterium |
title_full_unstemmed | The complete genome sequence of Hafnia alvei A23BA; a potential antibiotic-producing rhizobacterium |
title_short | The complete genome sequence of Hafnia alvei A23BA; a potential antibiotic-producing rhizobacterium |
title_sort | complete genome sequence of hafnia alvei a23ba; a potential antibiotic-producing rhizobacterium |
topic | Data Note |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7789536/ https://www.ncbi.nlm.nih.gov/pubmed/33407900 http://dx.doi.org/10.1186/s13104-020-05418-2 |
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