Phenotypic and genotypic charcterization of Atlantic Salmon (Salmo salar) gut microbiota
Knowledge of the Atlantic Salmon (Salmo salar) gut microbiota falls behind the research done about the human gut microbiome. Creating greater understanding of the bacteria present and their capabilities helps to create a more sustainable aquaculture industry by increasing the possibilities of creati...
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Norwegian University of Life Sciences, Ås
2022
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Online Access: | https://hdl.handle.net/11250/3022591 |
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ftunivmob:oai:nmbu.brage.unit.no:11250/3022591 2023-05-15T15:31:25+02:00 Phenotypic and genotypic charcterization of Atlantic Salmon (Salmo salar) gut microbiota Johnsen, Sander Johan Mangseth Pope, Phillip Leanti La Rosa, Sabina 2022 application/pdf https://hdl.handle.net/11250/3022591 eng eng Norwegian University of Life Sciences, Ås https://hdl.handle.net/11250/3022591 Attribution-NonCommercial-NoDerivatives 4.0 Internasjonal http://creativecommons.org/licenses/by-nc-nd/4.0/deed.no CC-BY-NC-ND VDP::Mathematics and natural science: 400::Basic biosciences: 470::Molecular biology: 473 Master thesis 2022 ftunivmob 2022-10-05T22:43:06Z Knowledge of the Atlantic Salmon (Salmo salar) gut microbiota falls behind the research done about the human gut microbiome. Creating greater understanding of the bacteria present and their capabilities helps to create a more sustainable aquaculture industry by increasing the possibilities of creating better fish health and farming efficiency. This thesis aims to make a characterization of the gut bacteria using a culturomic based approach using 16S rRNA analysis with Sanger sequencing and Oxford Nanopore sequencing for whole genome analysis in the aim of building upon the Salmon Microbial Genome Atlas (SMGA). Samples was taken from the distal tract of the fish was plated onto different media and the best two media with the best growth was chosen for further work. 56 (34 BHI/22TSA) isolates were chosen for Sanger sequencing, while 45 isolates were processed further for ONT sequencing using the Promethion sequencer. The gut microbiota was dominated by the Pseudomonadota phylum, with smaller quantities of Bacillota and Actinomycetota, while Lelliotta showed the most frequent hits on Genus level. These isolates showed predicted functionality for basic polysaccharide degradation like chitin and acetate for SCFA synthesis, with multiple hits for beta-mannan degrading enzymes. M-BIOL Master Thesis Atlantic salmon Salmo salar Open archive Norwegian University of Life Sciences: Brage NMBU |
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Open archive Norwegian University of Life Sciences: Brage NMBU |
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ftunivmob |
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English |
topic |
VDP::Mathematics and natural science: 400::Basic biosciences: 470::Molecular biology: 473 |
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VDP::Mathematics and natural science: 400::Basic biosciences: 470::Molecular biology: 473 Johnsen, Sander Johan Mangseth Phenotypic and genotypic charcterization of Atlantic Salmon (Salmo salar) gut microbiota |
topic_facet |
VDP::Mathematics and natural science: 400::Basic biosciences: 470::Molecular biology: 473 |
description |
Knowledge of the Atlantic Salmon (Salmo salar) gut microbiota falls behind the research done about the human gut microbiome. Creating greater understanding of the bacteria present and their capabilities helps to create a more sustainable aquaculture industry by increasing the possibilities of creating better fish health and farming efficiency. This thesis aims to make a characterization of the gut bacteria using a culturomic based approach using 16S rRNA analysis with Sanger sequencing and Oxford Nanopore sequencing for whole genome analysis in the aim of building upon the Salmon Microbial Genome Atlas (SMGA). Samples was taken from the distal tract of the fish was plated onto different media and the best two media with the best growth was chosen for further work. 56 (34 BHI/22TSA) isolates were chosen for Sanger sequencing, while 45 isolates were processed further for ONT sequencing using the Promethion sequencer. The gut microbiota was dominated by the Pseudomonadota phylum, with smaller quantities of Bacillota and Actinomycetota, while Lelliotta showed the most frequent hits on Genus level. These isolates showed predicted functionality for basic polysaccharide degradation like chitin and acetate for SCFA synthesis, with multiple hits for beta-mannan degrading enzymes. M-BIOL |
author2 |
Pope, Phillip Leanti La Rosa, Sabina |
format |
Master Thesis |
author |
Johnsen, Sander Johan Mangseth |
author_facet |
Johnsen, Sander Johan Mangseth |
author_sort |
Johnsen, Sander Johan Mangseth |
title |
Phenotypic and genotypic charcterization of Atlantic Salmon (Salmo salar) gut microbiota |
title_short |
Phenotypic and genotypic charcterization of Atlantic Salmon (Salmo salar) gut microbiota |
title_full |
Phenotypic and genotypic charcterization of Atlantic Salmon (Salmo salar) gut microbiota |
title_fullStr |
Phenotypic and genotypic charcterization of Atlantic Salmon (Salmo salar) gut microbiota |
title_full_unstemmed |
Phenotypic and genotypic charcterization of Atlantic Salmon (Salmo salar) gut microbiota |
title_sort |
phenotypic and genotypic charcterization of atlantic salmon (salmo salar) gut microbiota |
publisher |
Norwegian University of Life Sciences, Ås |
publishDate |
2022 |
url |
https://hdl.handle.net/11250/3022591 |
genre |
Atlantic salmon Salmo salar |
genre_facet |
Atlantic salmon Salmo salar |
op_relation |
https://hdl.handle.net/11250/3022591 |
op_rights |
Attribution-NonCommercial-NoDerivatives 4.0 Internasjonal http://creativecommons.org/licenses/by-nc-nd/4.0/deed.no |
op_rightsnorm |
CC-BY-NC-ND |
_version_ |
1766361918999625728 |