SALARECON connects the Atlantic salmon genome to growth and feed efficiency.
Atlantic salmon (Salmo salar) is the most valuable farmed fish globally and there is much interest in optimizing its genetics and rearing conditions for growth and feed efficiency. Marine feed ingredients must be replaced to meet global demand, with challenges for fish health and sustainability. Met...
| Main Authors: | , , , , , , , , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Public Library of Science (PLoS)
2022-06-01
|
| Series: | PLoS Computational Biology |
| Online Access: | https://doi.org/10.1371/journal.pcbi.1010194 |
| _version_ | 1811295016774008832 |
|---|---|
| author | Maksim Zakhartsev Filip Rotnes Marie Gulla Ove Øyås Jesse C J van Dam Maria Suarez-Diez Fabian Grammes Róbert Anton Hafþórsson Wout van Helvoirt Jasper J Koehorst Peter J Schaap Yang Jin Liv Torunn Mydland Arne B Gjuvsland Simen R Sandve Vitor A P Martins Dos Santos Jon Olav Vik |
| author_facet | Maksim Zakhartsev Filip Rotnes Marie Gulla Ove Øyås Jesse C J van Dam Maria Suarez-Diez Fabian Grammes Róbert Anton Hafþórsson Wout van Helvoirt Jasper J Koehorst Peter J Schaap Yang Jin Liv Torunn Mydland Arne B Gjuvsland Simen R Sandve Vitor A P Martins Dos Santos Jon Olav Vik |
| author_sort | Maksim Zakhartsev |
| collection | DOAJ |
| description | Atlantic salmon (Salmo salar) is the most valuable farmed fish globally and there is much interest in optimizing its genetics and rearing conditions for growth and feed efficiency. Marine feed ingredients must be replaced to meet global demand, with challenges for fish health and sustainability. Metabolic models can address this by connecting genomes to metabolism, which converts nutrients in the feed to energy and biomass, but such models are currently not available for major aquaculture species such as salmon. We present SALARECON, a model focusing on energy, amino acid, and nucleotide metabolism that links the Atlantic salmon genome to metabolic fluxes and growth. It performs well in standardized tests and captures expected metabolic (in)capabilities. We show that it can explain observed hypoxic growth in terms of metabolic fluxes and apply it to aquaculture by simulating growth with commercial feed ingredients. Predicted limiting amino acids and feed efficiencies agree with data, and the model suggests that marine feed efficiency can be achieved by supplementing a few amino acids to plant- and insect-based feeds. SALARECON is a high-quality model that makes it possible to simulate Atlantic salmon metabolism and growth. It can be used to explain Atlantic salmon physiology and address key challenges in aquaculture such as development of sustainable feeds. |
| first_indexed | 2024-04-13T05:27:04Z |
| format | Article |
| id | doaj.art-e6e49de5fa984287919c9065708d69b4 |
| institution | Directory Open Access Journal |
| issn | 1553-734X 1553-7358 |
| language | English |
| last_indexed | 2024-04-13T05:27:04Z |
| publishDate | 2022-06-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS Computational Biology |
| spelling | doaj.art-e6e49de5fa984287919c9065708d69b42022-12-22T03:00:34ZengPublic Library of Science (PLoS)PLoS Computational Biology1553-734X1553-73582022-06-01186e101019410.1371/journal.pcbi.1010194SALARECON connects the Atlantic salmon genome to growth and feed efficiency.Maksim ZakhartsevFilip RotnesMarie GullaOve ØyåsJesse C J van DamMaria Suarez-DiezFabian GrammesRóbert Anton HafþórssonWout van HelvoirtJasper J KoehorstPeter J SchaapYang JinLiv Torunn MydlandArne B GjuvslandSimen R SandveVitor A P Martins Dos SantosJon Olav VikAtlantic salmon (Salmo salar) is the most valuable farmed fish globally and there is much interest in optimizing its genetics and rearing conditions for growth and feed efficiency. Marine feed ingredients must be replaced to meet global demand, with challenges for fish health and sustainability. Metabolic models can address this by connecting genomes to metabolism, which converts nutrients in the feed to energy and biomass, but such models are currently not available for major aquaculture species such as salmon. We present SALARECON, a model focusing on energy, amino acid, and nucleotide metabolism that links the Atlantic salmon genome to metabolic fluxes and growth. It performs well in standardized tests and captures expected metabolic (in)capabilities. We show that it can explain observed hypoxic growth in terms of metabolic fluxes and apply it to aquaculture by simulating growth with commercial feed ingredients. Predicted limiting amino acids and feed efficiencies agree with data, and the model suggests that marine feed efficiency can be achieved by supplementing a few amino acids to plant- and insect-based feeds. SALARECON is a high-quality model that makes it possible to simulate Atlantic salmon metabolism and growth. It can be used to explain Atlantic salmon physiology and address key challenges in aquaculture such as development of sustainable feeds.https://doi.org/10.1371/journal.pcbi.1010194 |
| spellingShingle | Maksim Zakhartsev Filip Rotnes Marie Gulla Ove Øyås Jesse C J van Dam Maria Suarez-Diez Fabian Grammes Róbert Anton Hafþórsson Wout van Helvoirt Jasper J Koehorst Peter J Schaap Yang Jin Liv Torunn Mydland Arne B Gjuvsland Simen R Sandve Vitor A P Martins Dos Santos Jon Olav Vik SALARECON connects the Atlantic salmon genome to growth and feed efficiency. PLoS Computational Biology |
| title | SALARECON connects the Atlantic salmon genome to growth and feed efficiency. |
| title_full | SALARECON connects the Atlantic salmon genome to growth and feed efficiency. |
| title_fullStr | SALARECON connects the Atlantic salmon genome to growth and feed efficiency. |
| title_full_unstemmed | SALARECON connects the Atlantic salmon genome to growth and feed efficiency. |
| title_short | SALARECON connects the Atlantic salmon genome to growth and feed efficiency. |
| title_sort | salarecon connects the atlantic salmon genome to growth and feed efficiency |
| url | https://doi.org/10.1371/journal.pcbi.1010194 |
| work_keys_str_mv | AT maksimzakhartsev salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency AT filiprotnes salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency AT mariegulla salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency AT oveøyas salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency AT jessecjvandam salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency AT mariasuarezdiez salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency AT fabiangrammes salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency AT robertantonhafþorsson salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency AT woutvanhelvoirt salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency AT jasperjkoehorst salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency AT peterjschaap salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency AT yangjin salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency AT livtorunnmydland salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency AT arnebgjuvsland salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency AT simenrsandve salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency AT vitorapmartinsdossantos salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency AT jonolavvik salareconconnectstheatlanticsalmongenometogrowthandfeedefficiency |