Flavobacterium salmonis sp. nov. isolated from Atlantic salmon (Salmo salar) and formal proposal to reclassify Flavobacterium spartansii as a later heterotypic synonym of Flavobacterium tructae
International audience A Gram-staining-negative non endospore-forming strain, T13(2019)T was isolated from water samples from Atlantic salmon (Salmo salar) fry culture in Chile and studied in detail for its taxonomic position. The isolate shared highest 16S rRNA gene sequence similarities with the t...
Published in: | International Journal of Systematic and Evolutionary Microbiology |
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Main Authors: | , , , , , , |
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Format: | Article in Journal/Newspaper |
Language: | English |
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HAL CCSD
2020
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Online Access: | https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458 https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458/document https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458/file/ijsem004510.pdf https://doi.org/10.1099/ijsem.0.004510 |
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ftunivnantes:oai:HAL:pasteur-02975458v1 |
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openpolar |
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Open Polar |
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Université de Nantes: HAL-UNIV-NANTES |
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ftunivnantes |
language |
English |
topic |
Flavobacterium salmonis taxonomy taxonomy Abbreviations: ANI Average Nucleotide Identity isDDH in silico DNA-DNA hybridization oNP ortho-nitrophenyl pNP para-nitrophenyl [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology |
spellingShingle |
Flavobacterium salmonis taxonomy taxonomy Abbreviations: ANI Average Nucleotide Identity isDDH in silico DNA-DNA hybridization oNP ortho-nitrophenyl pNP para-nitrophenyl [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology Kämpfer, Peter Irgang, Rute Glaeser, Stefanie, Busse, Hans-Jürgen Criscuolo, Alexis Clermont, Dominique Avendaño-Herrera, Ruben Flavobacterium salmonis sp. nov. isolated from Atlantic salmon (Salmo salar) and formal proposal to reclassify Flavobacterium spartansii as a later heterotypic synonym of Flavobacterium tructae |
topic_facet |
Flavobacterium salmonis taxonomy taxonomy Abbreviations: ANI Average Nucleotide Identity isDDH in silico DNA-DNA hybridization oNP ortho-nitrophenyl pNP para-nitrophenyl [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology |
description |
International audience A Gram-staining-negative non endospore-forming strain, T13(2019)T was isolated from water samples from Atlantic salmon (Salmo salar) fry culture in Chile and studied in detail for its taxonomic position. The isolate shared highest 16S rRNA gene sequence similarities with the type strains of Flavobacterium chungangense (98.44 %) followed by Flavobacterium tructae and Flavobacterium spartansii (both 98.22 %). Menaquinone MK-6 was the predominant respiratory quinone in T13(2019)T. Major polar lipids were phosphatidylethanolamine, an ornithine lipid and the unidentified polar lipids L1, L3 and L4 lacking a functional group. The major polyamine was sym-homospermidine. The fatty acid profile contained major amounts of iso-C15 : 0, iso-C15 : 0 3-OH, iso-C17 : 0 3-OH, C15 : 0, summed feature 3 (C16 : 1 ω7c and/or iso-C15 : 0 2-OH) and various hydroxylated fatty acids in smaller amounts, among them iso-C16 : 0 3-OH, and C15 : 0 3-OH, which supported the grouping of the isolate into the genus Flavobacterium. Physiological/biochemical characterisation and ANI calculations with the type strains of the most closely related species allowed a clear phenotypic and genotypic differentiation. In addition it became obvious, that the type strains of F. tructae and F. spartansii showed 100 % 16S rRNA gene sequence similarities and ANI values of 97.21%/ 97.59 % and DDH values of 80.40 % [77.5 and 83%]. These data indicate that F. tructae and F. spartansii belong to the same species and it is proposed that F. spartansii is a later heterotypic synonym of F. tructae. For strain T13(2019)T (=CIP 111411T=LMG 30298T=CCM 8798T) a new species with the name Flavobacterium salmonis sp. nov. is proposed. |
author2 |
Justus-Liebig-Universität Gießen = Justus Liebig University (JLU) Interdisciplinary Center for Aquaculture Research = Centro Interdisciplinario de Investigación en Acuicultura Sustentable Concepción, Chile (INCAR) Veterinärmedizinische Universität Wien Hub Bioinformatique et Biostatistique - Bioinformatics and Biostatistics HUB Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS) Collection de l'Institut Pasteur (CIP) Institut Pasteur Paris (IP) Universidad Andrés Bello Santiago (UNAB) We are grateful to Katja Grebing, Gundula Will, and Maria Sowinsky for excellent technical assistance and Professor Aharon Oren for his nomenclatural advice. |
format |
Article in Journal/Newspaper |
author |
Kämpfer, Peter Irgang, Rute Glaeser, Stefanie, Busse, Hans-Jürgen Criscuolo, Alexis Clermont, Dominique Avendaño-Herrera, Ruben |
author_facet |
Kämpfer, Peter Irgang, Rute Glaeser, Stefanie, Busse, Hans-Jürgen Criscuolo, Alexis Clermont, Dominique Avendaño-Herrera, Ruben |
author_sort |
Kämpfer, Peter |
title |
Flavobacterium salmonis sp. nov. isolated from Atlantic salmon (Salmo salar) and formal proposal to reclassify Flavobacterium spartansii as a later heterotypic synonym of Flavobacterium tructae |
title_short |
Flavobacterium salmonis sp. nov. isolated from Atlantic salmon (Salmo salar) and formal proposal to reclassify Flavobacterium spartansii as a later heterotypic synonym of Flavobacterium tructae |
title_full |
Flavobacterium salmonis sp. nov. isolated from Atlantic salmon (Salmo salar) and formal proposal to reclassify Flavobacterium spartansii as a later heterotypic synonym of Flavobacterium tructae |
title_fullStr |
Flavobacterium salmonis sp. nov. isolated from Atlantic salmon (Salmo salar) and formal proposal to reclassify Flavobacterium spartansii as a later heterotypic synonym of Flavobacterium tructae |
title_full_unstemmed |
Flavobacterium salmonis sp. nov. isolated from Atlantic salmon (Salmo salar) and formal proposal to reclassify Flavobacterium spartansii as a later heterotypic synonym of Flavobacterium tructae |
title_sort |
flavobacterium salmonis sp. nov. isolated from atlantic salmon (salmo salar) and formal proposal to reclassify flavobacterium spartansii as a later heterotypic synonym of flavobacterium tructae |
publisher |
HAL CCSD |
publishDate |
2020 |
url |
https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458 https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458/document https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458/file/ijsem004510.pdf https://doi.org/10.1099/ijsem.0.004510 |
genre |
Atlantic salmon Salmo salar |
genre_facet |
Atlantic salmon Salmo salar |
op_source |
ISSN: 1466-5026 EISSN: 1466-5034 International Journal of Systematic and Evolutionary Microbiology https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458 International Journal of Systematic and Evolutionary Microbiology, 2020, ⟨10.1099/ijsem.0.004510⟩ |
op_relation |
info:eu-repo/semantics/altIdentifier/doi/10.1099/ijsem.0.004510 info:eu-repo/semantics/altIdentifier/pmid/33052804 pasteur-02975458 https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458 https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458/document https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458/file/ijsem004510.pdf doi:10.1099/ijsem.0.004510 PUBMED: 33052804 |
op_rights |
http://creativecommons.org/licenses/by/ info:eu-repo/semantics/OpenAccess |
op_doi |
https://doi.org/10.1099/ijsem.0.004510 |
container_title |
International Journal of Systematic and Evolutionary Microbiology |
container_volume |
70 |
container_issue |
12 |
container_start_page |
6147 |
op_container_end_page |
6154 |
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1766362469737955328 |
spelling |
ftunivnantes:oai:HAL:pasteur-02975458v1 2023-05-15T15:31:58+02:00 Flavobacterium salmonis sp. nov. isolated from Atlantic salmon (Salmo salar) and formal proposal to reclassify Flavobacterium spartansii as a later heterotypic synonym of Flavobacterium tructae Kämpfer, Peter Irgang, Rute Glaeser, Stefanie, Busse, Hans-Jürgen Criscuolo, Alexis Clermont, Dominique Avendaño-Herrera, Ruben Justus-Liebig-Universität Gießen = Justus Liebig University (JLU) Interdisciplinary Center for Aquaculture Research = Centro Interdisciplinario de Investigación en Acuicultura Sustentable Concepción, Chile (INCAR) Veterinärmedizinische Universität Wien Hub Bioinformatique et Biostatistique - Bioinformatics and Biostatistics HUB Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS) Collection de l'Institut Pasteur (CIP) Institut Pasteur Paris (IP) Universidad Andrés Bello Santiago (UNAB) We are grateful to Katja Grebing, Gundula Will, and Maria Sowinsky for excellent technical assistance and Professor Aharon Oren for his nomenclatural advice. 2020-10-14 https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458 https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458/document https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458/file/ijsem004510.pdf https://doi.org/10.1099/ijsem.0.004510 en eng HAL CCSD Microbiology Society info:eu-repo/semantics/altIdentifier/doi/10.1099/ijsem.0.004510 info:eu-repo/semantics/altIdentifier/pmid/33052804 pasteur-02975458 https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458 https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458/document https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458/file/ijsem004510.pdf doi:10.1099/ijsem.0.004510 PUBMED: 33052804 http://creativecommons.org/licenses/by/ info:eu-repo/semantics/OpenAccess ISSN: 1466-5026 EISSN: 1466-5034 International Journal of Systematic and Evolutionary Microbiology https://hal-pasteur.archives-ouvertes.fr/pasteur-02975458 International Journal of Systematic and Evolutionary Microbiology, 2020, ⟨10.1099/ijsem.0.004510⟩ Flavobacterium salmonis taxonomy taxonomy Abbreviations: ANI Average Nucleotide Identity isDDH in silico DNA-DNA hybridization oNP ortho-nitrophenyl pNP para-nitrophenyl [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology info:eu-repo/semantics/article Journal articles 2020 ftunivnantes https://doi.org/10.1099/ijsem.0.004510 2023-02-22T04:37:19Z International audience A Gram-staining-negative non endospore-forming strain, T13(2019)T was isolated from water samples from Atlantic salmon (Salmo salar) fry culture in Chile and studied in detail for its taxonomic position. The isolate shared highest 16S rRNA gene sequence similarities with the type strains of Flavobacterium chungangense (98.44 %) followed by Flavobacterium tructae and Flavobacterium spartansii (both 98.22 %). Menaquinone MK-6 was the predominant respiratory quinone in T13(2019)T. Major polar lipids were phosphatidylethanolamine, an ornithine lipid and the unidentified polar lipids L1, L3 and L4 lacking a functional group. The major polyamine was sym-homospermidine. The fatty acid profile contained major amounts of iso-C15 : 0, iso-C15 : 0 3-OH, iso-C17 : 0 3-OH, C15 : 0, summed feature 3 (C16 : 1 ω7c and/or iso-C15 : 0 2-OH) and various hydroxylated fatty acids in smaller amounts, among them iso-C16 : 0 3-OH, and C15 : 0 3-OH, which supported the grouping of the isolate into the genus Flavobacterium. Physiological/biochemical characterisation and ANI calculations with the type strains of the most closely related species allowed a clear phenotypic and genotypic differentiation. In addition it became obvious, that the type strains of F. tructae and F. spartansii showed 100 % 16S rRNA gene sequence similarities and ANI values of 97.21%/ 97.59 % and DDH values of 80.40 % [77.5 and 83%]. These data indicate that F. tructae and F. spartansii belong to the same species and it is proposed that F. spartansii is a later heterotypic synonym of F. tructae. For strain T13(2019)T (=CIP 111411T=LMG 30298T=CCM 8798T) a new species with the name Flavobacterium salmonis sp. nov. is proposed. Article in Journal/Newspaper Atlantic salmon Salmo salar Université de Nantes: HAL-UNIV-NANTES International Journal of Systematic and Evolutionary Microbiology 70 12 6147 6154 |