The genome sequence of the fish pathogen Aliivibrio salmonicida strain LFI1238 shows extensive evidence of gene decay
Background: The fish pathogen Aliivibrio salmonicida is the causative agent of cold-water vibriosis in marine aquaculture. The Gram-negative bacterium causes tissue degradation, hemolysis and sepsis in vivo. Results: In total, 4 286 protein coding sequences were identified, and the 4.6 Mb genome of...
Published in: | BMC Genomics |
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2008
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Online Access: | https://risweb.st-andrews.ac.uk/portal/en/researchoutput/the-genome-sequence-of-the-fish-pathogen-aliivibrio-salmonicida-strain-lfi1238-shows-extensive-evidence-of-gene-decay(7f4f4792-55c1-4581-8606-4da76c8c9c0c).html https://doi.org/10.1186/1471-2164-9-616 https://research-repository.st-andrews.ac.uk/bitstream/10023/4638/1/hjerde2008bmcgenomics616.pdf |
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ftunstandrewcris:oai:risweb.st-andrews.ac.uk:publications/7f4f4792-55c1-4581-8606-4da76c8c9c0c 2023-05-15T15:32:48+02:00 The genome sequence of the fish pathogen Aliivibrio salmonicida strain LFI1238 shows extensive evidence of gene decay Hjerde, Erik Lorentzen, Marit Sjo Holden, Matthew T. G. Seeger, Kathy Paulsen, Steinar Bason, Nathalie Churcher, Carol Harris, David Norbertczak, Halina Quail, Michael A. Sanders, Suzanne Thurston, Scott Parkhill, Julian Willassen, Nils Peder Thomson, Nicholas R. 2008-12-19 application/pdf https://risweb.st-andrews.ac.uk/portal/en/researchoutput/the-genome-sequence-of-the-fish-pathogen-aliivibrio-salmonicida-strain-lfi1238-shows-extensive-evidence-of-gene-decay(7f4f4792-55c1-4581-8606-4da76c8c9c0c).html https://doi.org/10.1186/1471-2164-9-616 https://research-repository.st-andrews.ac.uk/bitstream/10023/4638/1/hjerde2008bmcgenomics616.pdf eng eng info:eu-repo/semantics/openAccess Hjerde , E , Lorentzen , M S , Holden , M T G , Seeger , K , Paulsen , S , Bason , N , Churcher , C , Harris , D , Norbertczak , H , Quail , M A , Sanders , S , Thurston , S , Parkhill , J , Willassen , N P & Thomson , N R 2008 , ' The genome sequence of the fish pathogen Aliivibrio salmonicida strain LFI1238 shows extensive evidence of gene decay ' , BMC Genomics , vol. 9 , 616 . https://doi.org/10.1186/1471-2164-9-616 Widespread colonization island Bacterium vibrio-furnissii Chitin-binding proteins 2 tonb systems Salmo-salar l Atlantic-salmon Molecular-cloning Escherichia-coli Causative agent Cholerae article 2008 ftunstandrewcris https://doi.org/10.1186/1471-2164-9-616 2022-06-02T07:43:03Z Background: The fish pathogen Aliivibrio salmonicida is the causative agent of cold-water vibriosis in marine aquaculture. The Gram-negative bacterium causes tissue degradation, hemolysis and sepsis in vivo. Results: In total, 4 286 protein coding sequences were identified, and the 4.6 Mb genome of A. salmonicida has a six partite architecture with two chromosomes and four plasmids. Sequence analysis revealed a highly fragmented genome structure caused by the insertion of an extensive number of insertion sequence (IS) elements. The IS elements can be related to important evolutionary events such as gene acquisition, gene loss and chromosomal rearrangements. New A. salmonicida functional capabilities that may have been aquired through horizontal DNA transfer include genes involved in iron-acquisition, and protein secretion and play potential roles in pathogenicity. On the other hand, the degeneration of 370 genes and consequent loss of specific functions suggest that A. salmonicida has a reduced metabolic and physiological capacity in comparison to related Vibrionaceae species. Conclusion: Most prominent is the loss of several genes involved in the utilisation of the polysaccharide chitin. In particular, the disruption of three extracellular chitinases responsible for enzymatic breakdown of chitin makes A. salmonicida unable to grow on the polymer form of chitin. These, and other losses could restrict the variety of carrier organisms A. salmonicida can attach to, and associate with. Gene acquisition and gene loss may be related to the emergence of A. salmonicida as a fish pathogen. Article in Journal/Newspaper Atlantic salmon Salmo salar University of St Andrews: Research Portal BMC Genomics 9 1 |
institution |
Open Polar |
collection |
University of St Andrews: Research Portal |
op_collection_id |
ftunstandrewcris |
language |
English |
topic |
Widespread colonization island Bacterium vibrio-furnissii Chitin-binding proteins 2 tonb systems Salmo-salar l Atlantic-salmon Molecular-cloning Escherichia-coli Causative agent Cholerae |
spellingShingle |
Widespread colonization island Bacterium vibrio-furnissii Chitin-binding proteins 2 tonb systems Salmo-salar l Atlantic-salmon Molecular-cloning Escherichia-coli Causative agent Cholerae Hjerde, Erik Lorentzen, Marit Sjo Holden, Matthew T. G. Seeger, Kathy Paulsen, Steinar Bason, Nathalie Churcher, Carol Harris, David Norbertczak, Halina Quail, Michael A. Sanders, Suzanne Thurston, Scott Parkhill, Julian Willassen, Nils Peder Thomson, Nicholas R. The genome sequence of the fish pathogen Aliivibrio salmonicida strain LFI1238 shows extensive evidence of gene decay |
topic_facet |
Widespread colonization island Bacterium vibrio-furnissii Chitin-binding proteins 2 tonb systems Salmo-salar l Atlantic-salmon Molecular-cloning Escherichia-coli Causative agent Cholerae |
description |
Background: The fish pathogen Aliivibrio salmonicida is the causative agent of cold-water vibriosis in marine aquaculture. The Gram-negative bacterium causes tissue degradation, hemolysis and sepsis in vivo. Results: In total, 4 286 protein coding sequences were identified, and the 4.6 Mb genome of A. salmonicida has a six partite architecture with two chromosomes and four plasmids. Sequence analysis revealed a highly fragmented genome structure caused by the insertion of an extensive number of insertion sequence (IS) elements. The IS elements can be related to important evolutionary events such as gene acquisition, gene loss and chromosomal rearrangements. New A. salmonicida functional capabilities that may have been aquired through horizontal DNA transfer include genes involved in iron-acquisition, and protein secretion and play potential roles in pathogenicity. On the other hand, the degeneration of 370 genes and consequent loss of specific functions suggest that A. salmonicida has a reduced metabolic and physiological capacity in comparison to related Vibrionaceae species. Conclusion: Most prominent is the loss of several genes involved in the utilisation of the polysaccharide chitin. In particular, the disruption of three extracellular chitinases responsible for enzymatic breakdown of chitin makes A. salmonicida unable to grow on the polymer form of chitin. These, and other losses could restrict the variety of carrier organisms A. salmonicida can attach to, and associate with. Gene acquisition and gene loss may be related to the emergence of A. salmonicida as a fish pathogen. |
format |
Article in Journal/Newspaper |
author |
Hjerde, Erik Lorentzen, Marit Sjo Holden, Matthew T. G. Seeger, Kathy Paulsen, Steinar Bason, Nathalie Churcher, Carol Harris, David Norbertczak, Halina Quail, Michael A. Sanders, Suzanne Thurston, Scott Parkhill, Julian Willassen, Nils Peder Thomson, Nicholas R. |
author_facet |
Hjerde, Erik Lorentzen, Marit Sjo Holden, Matthew T. G. Seeger, Kathy Paulsen, Steinar Bason, Nathalie Churcher, Carol Harris, David Norbertczak, Halina Quail, Michael A. Sanders, Suzanne Thurston, Scott Parkhill, Julian Willassen, Nils Peder Thomson, Nicholas R. |
author_sort |
Hjerde, Erik |
title |
The genome sequence of the fish pathogen Aliivibrio salmonicida strain LFI1238 shows extensive evidence of gene decay |
title_short |
The genome sequence of the fish pathogen Aliivibrio salmonicida strain LFI1238 shows extensive evidence of gene decay |
title_full |
The genome sequence of the fish pathogen Aliivibrio salmonicida strain LFI1238 shows extensive evidence of gene decay |
title_fullStr |
The genome sequence of the fish pathogen Aliivibrio salmonicida strain LFI1238 shows extensive evidence of gene decay |
title_full_unstemmed |
The genome sequence of the fish pathogen Aliivibrio salmonicida strain LFI1238 shows extensive evidence of gene decay |
title_sort |
genome sequence of the fish pathogen aliivibrio salmonicida strain lfi1238 shows extensive evidence of gene decay |
publishDate |
2008 |
url |
https://risweb.st-andrews.ac.uk/portal/en/researchoutput/the-genome-sequence-of-the-fish-pathogen-aliivibrio-salmonicida-strain-lfi1238-shows-extensive-evidence-of-gene-decay(7f4f4792-55c1-4581-8606-4da76c8c9c0c).html https://doi.org/10.1186/1471-2164-9-616 https://research-repository.st-andrews.ac.uk/bitstream/10023/4638/1/hjerde2008bmcgenomics616.pdf |
genre |
Atlantic salmon Salmo salar |
genre_facet |
Atlantic salmon Salmo salar |
op_source |
Hjerde , E , Lorentzen , M S , Holden , M T G , Seeger , K , Paulsen , S , Bason , N , Churcher , C , Harris , D , Norbertczak , H , Quail , M A , Sanders , S , Thurston , S , Parkhill , J , Willassen , N P & Thomson , N R 2008 , ' The genome sequence of the fish pathogen Aliivibrio salmonicida strain LFI1238 shows extensive evidence of gene decay ' , BMC Genomics , vol. 9 , 616 . https://doi.org/10.1186/1471-2164-9-616 |
op_rights |
info:eu-repo/semantics/openAccess |
op_doi |
https://doi.org/10.1186/1471-2164-9-616 |
container_title |
BMC Genomics |
container_volume |
9 |
container_issue |
1 |
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1766363283301859328 |