Multigene Expression Assay for Assessment of the Immune Status of Atlantic Salmon
We report the development of a multigene gene expression assay on the BioMark HD platform for the evaluation of immune competence (ImCom) in farmed Atlantic salmon. The first version of the assay included 92 genes selected on the basis of transcriptome analyses in 54 trials that challenged the immun...
Published in: | Genes |
---|---|
Main Authors: | , , , |
Format: | Text |
Language: | English |
Published: |
MDPI
2020
|
Subjects: | |
Online Access: | http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7690445/ http://www.ncbi.nlm.nih.gov/pubmed/33105610 https://doi.org/10.3390/genes11111236 |
id |
ftpubmed:oai:pubmedcentral.nih.gov:7690445 |
---|---|
record_format |
openpolar |
spelling |
ftpubmed:oai:pubmedcentral.nih.gov:7690445 2023-05-15T15:30:50+02:00 Multigene Expression Assay for Assessment of the Immune Status of Atlantic Salmon Krasnov, Aleksei Afanasyev, Sergey Nylund, Stian Rebl, Alexander 2020-10-22 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7690445/ http://www.ncbi.nlm.nih.gov/pubmed/33105610 https://doi.org/10.3390/genes11111236 en eng MDPI http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7690445/ http://www.ncbi.nlm.nih.gov/pubmed/33105610 http://dx.doi.org/10.3390/genes11111236 © 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/). CC-BY Genes (Basel) Article Text 2020 ftpubmed https://doi.org/10.3390/genes11111236 2020-11-29T01:36:28Z We report the development of a multigene gene expression assay on the BioMark HD platform for the evaluation of immune competence (ImCom) in farmed Atlantic salmon. The first version of the assay included 92 genes selected on the basis of transcriptome analyses in 54 trials that challenged the immune system; annotations were taken into account to represent the key pathways of innate and adaptive immunity. ImCom was tested on samples collected from seven independent projects. Fish were reared from the start feeding to eight months in the sea at eight units in different parts of Norway. Several tissues were analyzed. Linear discriminant analysis (LDA) showed that no more than 10 genes were required to separate groups, and a set of 46 immune genes was sufficient for any task. The second version of the assay was tested in the gills of two groups of high-performing healthy smolts and in groups with intermediate and high mortality rates (IM and HM, respectively). A set of 645 gill samples from clinically healthy Atlantic salmon was used as a reference. The IM group showed general suppression of immunity. All HM group salmon were above the threshold by the squared deviation from the reference. This group showed marked upregulation of genes involved in acute stress and inflammation: mmp-9, mmp-13, hsp70, il-1b, lect2, and cathelicidin. Further work will clarify the boundaries of the norm and explore various cases of impaired immunity. Text Atlantic salmon PubMed Central (PMC) Norway Genes 11 11 1236 |
institution |
Open Polar |
collection |
PubMed Central (PMC) |
op_collection_id |
ftpubmed |
language |
English |
topic |
Article |
spellingShingle |
Article Krasnov, Aleksei Afanasyev, Sergey Nylund, Stian Rebl, Alexander Multigene Expression Assay for Assessment of the Immune Status of Atlantic Salmon |
topic_facet |
Article |
description |
We report the development of a multigene gene expression assay on the BioMark HD platform for the evaluation of immune competence (ImCom) in farmed Atlantic salmon. The first version of the assay included 92 genes selected on the basis of transcriptome analyses in 54 trials that challenged the immune system; annotations were taken into account to represent the key pathways of innate and adaptive immunity. ImCom was tested on samples collected from seven independent projects. Fish were reared from the start feeding to eight months in the sea at eight units in different parts of Norway. Several tissues were analyzed. Linear discriminant analysis (LDA) showed that no more than 10 genes were required to separate groups, and a set of 46 immune genes was sufficient for any task. The second version of the assay was tested in the gills of two groups of high-performing healthy smolts and in groups with intermediate and high mortality rates (IM and HM, respectively). A set of 645 gill samples from clinically healthy Atlantic salmon was used as a reference. The IM group showed general suppression of immunity. All HM group salmon were above the threshold by the squared deviation from the reference. This group showed marked upregulation of genes involved in acute stress and inflammation: mmp-9, mmp-13, hsp70, il-1b, lect2, and cathelicidin. Further work will clarify the boundaries of the norm and explore various cases of impaired immunity. |
format |
Text |
author |
Krasnov, Aleksei Afanasyev, Sergey Nylund, Stian Rebl, Alexander |
author_facet |
Krasnov, Aleksei Afanasyev, Sergey Nylund, Stian Rebl, Alexander |
author_sort |
Krasnov, Aleksei |
title |
Multigene Expression Assay for Assessment of the Immune Status of Atlantic Salmon |
title_short |
Multigene Expression Assay for Assessment of the Immune Status of Atlantic Salmon |
title_full |
Multigene Expression Assay for Assessment of the Immune Status of Atlantic Salmon |
title_fullStr |
Multigene Expression Assay for Assessment of the Immune Status of Atlantic Salmon |
title_full_unstemmed |
Multigene Expression Assay for Assessment of the Immune Status of Atlantic Salmon |
title_sort |
multigene expression assay for assessment of the immune status of atlantic salmon |
publisher |
MDPI |
publishDate |
2020 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7690445/ http://www.ncbi.nlm.nih.gov/pubmed/33105610 https://doi.org/10.3390/genes11111236 |
geographic |
Norway |
geographic_facet |
Norway |
genre |
Atlantic salmon |
genre_facet |
Atlantic salmon |
op_source |
Genes (Basel) |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7690445/ http://www.ncbi.nlm.nih.gov/pubmed/33105610 http://dx.doi.org/10.3390/genes11111236 |
op_rights |
© 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/). |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.3390/genes11111236 |
container_title |
Genes |
container_volume |
11 |
container_issue |
11 |
container_start_page |
1236 |
_version_ |
1766361298773213184 |