Genomics of Tenacibaculum Species in British Columbia, Canada
Tenacibaculum is a genus of Gram-negative filamentous bacteria with a cosmopolitan distribution. The research describing Tenacibaculum genomes stems primarily from Norway and Chile due to their impacts on salmon aquaculture. Canadian salmon aquaculture also experiences mortality events related to th...
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ftmdpi:oai:mdpi.com:/2076-0817/12/1/101/ 2023-08-20T04:05:18+02:00 Genomics of Tenacibaculum Species in British Columbia, Canada Joseph P. Nowlan Ashton N. Sies Scott R. Britney Andrew D. S. Cameron Ahmed Siah John S. Lumsden Spencer Russell agris 2023-01-06 application/pdf https://doi.org/10.3390/pathogens12010101 EN eng Multidisciplinary Digital Publishing Institute Emerging Pathogens https://dx.doi.org/10.3390/pathogens12010101 https://creativecommons.org/licenses/by/4.0/ Pathogens; Volume 12; Issue 1; Pages: 101 phylogenetics de novo assembly virulence antimicrobial resistance diversity Tenacibaculum mouthrot Atlantic salmon Text 2023 ftmdpi https://doi.org/10.3390/pathogens12010101 2023-08-01T08:10:13Z Tenacibaculum is a genus of Gram-negative filamentous bacteria with a cosmopolitan distribution. The research describing Tenacibaculum genomes stems primarily from Norway and Chile due to their impacts on salmon aquaculture. Canadian salmon aquaculture also experiences mortality events related to the presence of Tenacibaculum spp., yet no Canadian Tenacibaculum genomes are publicly available. Ribosomal DNA sequencing of 16S and four species-specific 16S quantitative-PCR assays were used to select isolates cultured from Atlantic salmon with mouthrot in British Columbia (BC), Canada. Ten isolates representing four known and two unknown species of Tenacibaculum were selected for shotgun whole genome sequencing using the Oxford Nanopore’s MinION platform. The genome assemblies achieved closed circular chromosomes for seven isolates and long contigs for the remaining three isolates. Average nucleotide identity analysis identified T. ovolyticum, T. maritimum, T. dicentrarchi, two genomovars of T. finnmarkense, and two proposed novel species T. pacificus sp. nov. type strain 18-2881-AT and T. retecalamus sp. nov. type strain 18-3228-7BT. Annotation in most of the isolates predicted putative virulence and antimicrobial resistance genes, most-notably toxins (i.e., hemolysins), type-IX secretion systems, and oxytetracycline resistance. Comparative analysis with the T. maritimum type-strain predicted additional toxins and numerous C-terminal secretion proteins, including an M12B family metalloprotease in the T. maritimum isolates from BC. The genomic prediction of virulence-associated genes provides important targets for studies of mouthrot disease, and the annotation of the antimicrobial resistance genes provides targets for surveillance and diagnosis in veterinary medicine. Text Atlantic salmon MDPI Open Access Publishing Canada Norway British Columbia ENVELOPE(-125.003,-125.003,54.000,54.000) Pathogens 12 1 101 |
institution |
Open Polar |
collection |
MDPI Open Access Publishing |
op_collection_id |
ftmdpi |
language |
English |
topic |
phylogenetics de novo assembly virulence antimicrobial resistance diversity Tenacibaculum mouthrot Atlantic salmon |
spellingShingle |
phylogenetics de novo assembly virulence antimicrobial resistance diversity Tenacibaculum mouthrot Atlantic salmon Joseph P. Nowlan Ashton N. Sies Scott R. Britney Andrew D. S. Cameron Ahmed Siah John S. Lumsden Spencer Russell Genomics of Tenacibaculum Species in British Columbia, Canada |
topic_facet |
phylogenetics de novo assembly virulence antimicrobial resistance diversity Tenacibaculum mouthrot Atlantic salmon |
description |
Tenacibaculum is a genus of Gram-negative filamentous bacteria with a cosmopolitan distribution. The research describing Tenacibaculum genomes stems primarily from Norway and Chile due to their impacts on salmon aquaculture. Canadian salmon aquaculture also experiences mortality events related to the presence of Tenacibaculum spp., yet no Canadian Tenacibaculum genomes are publicly available. Ribosomal DNA sequencing of 16S and four species-specific 16S quantitative-PCR assays were used to select isolates cultured from Atlantic salmon with mouthrot in British Columbia (BC), Canada. Ten isolates representing four known and two unknown species of Tenacibaculum were selected for shotgun whole genome sequencing using the Oxford Nanopore’s MinION platform. The genome assemblies achieved closed circular chromosomes for seven isolates and long contigs for the remaining three isolates. Average nucleotide identity analysis identified T. ovolyticum, T. maritimum, T. dicentrarchi, two genomovars of T. finnmarkense, and two proposed novel species T. pacificus sp. nov. type strain 18-2881-AT and T. retecalamus sp. nov. type strain 18-3228-7BT. Annotation in most of the isolates predicted putative virulence and antimicrobial resistance genes, most-notably toxins (i.e., hemolysins), type-IX secretion systems, and oxytetracycline resistance. Comparative analysis with the T. maritimum type-strain predicted additional toxins and numerous C-terminal secretion proteins, including an M12B family metalloprotease in the T. maritimum isolates from BC. The genomic prediction of virulence-associated genes provides important targets for studies of mouthrot disease, and the annotation of the antimicrobial resistance genes provides targets for surveillance and diagnosis in veterinary medicine. |
format |
Text |
author |
Joseph P. Nowlan Ashton N. Sies Scott R. Britney Andrew D. S. Cameron Ahmed Siah John S. Lumsden Spencer Russell |
author_facet |
Joseph P. Nowlan Ashton N. Sies Scott R. Britney Andrew D. S. Cameron Ahmed Siah John S. Lumsden Spencer Russell |
author_sort |
Joseph P. Nowlan |
title |
Genomics of Tenacibaculum Species in British Columbia, Canada |
title_short |
Genomics of Tenacibaculum Species in British Columbia, Canada |
title_full |
Genomics of Tenacibaculum Species in British Columbia, Canada |
title_fullStr |
Genomics of Tenacibaculum Species in British Columbia, Canada |
title_full_unstemmed |
Genomics of Tenacibaculum Species in British Columbia, Canada |
title_sort |
genomics of tenacibaculum species in british columbia, canada |
publisher |
Multidisciplinary Digital Publishing Institute |
publishDate |
2023 |
url |
https://doi.org/10.3390/pathogens12010101 |
op_coverage |
agris |
long_lat |
ENVELOPE(-125.003,-125.003,54.000,54.000) |
geographic |
Canada Norway British Columbia |
geographic_facet |
Canada Norway British Columbia |
genre |
Atlantic salmon |
genre_facet |
Atlantic salmon |
op_source |
Pathogens; Volume 12; Issue 1; Pages: 101 |
op_relation |
Emerging Pathogens https://dx.doi.org/10.3390/pathogens12010101 |
op_rights |
https://creativecommons.org/licenses/by/4.0/ |
op_doi |
https://doi.org/10.3390/pathogens12010101 |
container_title |
Pathogens |
container_volume |
12 |
container_issue |
1 |
container_start_page |
101 |
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1774715797558525952 |