A comparison between egg trancriptomes of cod and salmon reveals species-specific traits in eggs for each species
Fish in use in aquaculture display large variation in gamete biology. To reach better understanding around this issue, this study aims at identifying if species specific "egg life history traits" can be hidden in the unfertilized egg. This was done by investigating egg transcriptome differ...
Published in: | Molecular Reproduction and Development |
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Online Access: | https://hal.archives-ouvertes.fr/hal-01205122 https://doi.org/10.1002/mrd.22487 |
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ftccsdartic:oai:HAL:hal-01205122v1 2023-05-15T15:27:42+02:00 A comparison between egg trancriptomes of cod and salmon reveals species-specific traits in eggs for each species Wargelius, Anna Furmanek, Tomasz Montfort, Jérôme Le Cam, Aurélie Kleppe, Lene Juanchich, Amélie Edvardsen, Rolf B. Taranger, Geir Lasse Bobe, Julien Institute of Marine Research Laboratoire de Physiologie et Génomique des Poissons (LPGP) Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA) European Project: 222719,EC:FP7:KBBE,FP7-KBBE-2007-2A,LIFECYCLE(2009) 2015 https://hal.archives-ouvertes.fr/hal-01205122 https://doi.org/10.1002/mrd.22487 en eng HAL CCSD Wiley info:eu-repo/semantics/altIdentifier/doi/10.1002/mrd.22487 info:eu-repo/semantics/altIdentifier/pmid/25908546 info:eu-repo/grantAgreement/EC/FP7/222719/EU/Building a biological knowledge-base on fish lifecycles for competitive, sustainable European aquaculture/LIFECYCLE hal-01205122 https://hal.archives-ouvertes.fr/hal-01205122 doi:10.1002/mrd.22487 PRODINRA: 295255 PUBMED: 25908546 WOS: 000354627600009 ISSN: 1040-452X EISSN: 1098-2795 Molecular Reproduction and Development https://hal.archives-ouvertes.fr/hal-01205122 Molecular Reproduction and Development, Wiley, 2015, 82, pp.397-404. ⟨10.1002/mrd.22487⟩ [SDV]Life Sciences [q-bio] info:eu-repo/semantics/article Journal articles 2015 ftccsdartic https://doi.org/10.1002/mrd.22487 2021-12-19T02:52:09Z Fish in use in aquaculture display large variation in gamete biology. To reach better understanding around this issue, this study aims at identifying if species specific "egg life history traits" can be hidden in the unfertilized egg. This was done by investigating egg transcriptome differences between Atlantic salmon and Atlantic cod. Salmon and cod eggs were selected due to their largely differencing phenotypes. An oligo microarray analysis was performed on ovulated eggs from cod (n = 8) and salmon (n = 7). The arrays were normalized to a similar spectrum for both arrays. Both arrays were re-annotated with SWISS-Prot and KEGG genes to retrieve an official gene symbol and an orthologous KEGG annotation, in salmon and cod arrays this represented 14,009 and 7,437 genes respectively. The probe linked to the highest gene expression for that particular KEGG annotation was used to compare expression between species. Differential expression was calculated for genes that had an annotation with score >300, resulting in a total of 2,457 KEGG annotations (genes) being differently expressed between the species (FD > 2). This analysis revealed that immune, signal transduction and excretory related pathways were overrepresented in salmon compared to cod. The most overrepresented pathways in cod were related to regulation of genetic information processing and metabolism. To conclude this analysis clearly point at some distinct transcriptome repertoires for cod and salmon and that these differences may explain some of the species-specific biological features for salmon and cod eggs. Mol. Reprod. Dev. 2015. © 2015 Wiley Periodicals, Inc. Article in Journal/Newspaper atlantic cod Atlantic salmon Archive ouverte HAL (Hyper Article en Ligne, CCSD - Centre pour la Communication Scientifique Directe) Molecular Reproduction and Development 82 5 397 404 |
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Open Polar |
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Archive ouverte HAL (Hyper Article en Ligne, CCSD - Centre pour la Communication Scientifique Directe) |
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ftccsdartic |
language |
English |
topic |
[SDV]Life Sciences [q-bio] |
spellingShingle |
[SDV]Life Sciences [q-bio] Wargelius, Anna Furmanek, Tomasz Montfort, Jérôme Le Cam, Aurélie Kleppe, Lene Juanchich, Amélie Edvardsen, Rolf B. Taranger, Geir Lasse Bobe, Julien A comparison between egg trancriptomes of cod and salmon reveals species-specific traits in eggs for each species |
topic_facet |
[SDV]Life Sciences [q-bio] |
description |
Fish in use in aquaculture display large variation in gamete biology. To reach better understanding around this issue, this study aims at identifying if species specific "egg life history traits" can be hidden in the unfertilized egg. This was done by investigating egg transcriptome differences between Atlantic salmon and Atlantic cod. Salmon and cod eggs were selected due to their largely differencing phenotypes. An oligo microarray analysis was performed on ovulated eggs from cod (n = 8) and salmon (n = 7). The arrays were normalized to a similar spectrum for both arrays. Both arrays were re-annotated with SWISS-Prot and KEGG genes to retrieve an official gene symbol and an orthologous KEGG annotation, in salmon and cod arrays this represented 14,009 and 7,437 genes respectively. The probe linked to the highest gene expression for that particular KEGG annotation was used to compare expression between species. Differential expression was calculated for genes that had an annotation with score >300, resulting in a total of 2,457 KEGG annotations (genes) being differently expressed between the species (FD > 2). This analysis revealed that immune, signal transduction and excretory related pathways were overrepresented in salmon compared to cod. The most overrepresented pathways in cod were related to regulation of genetic information processing and metabolism. To conclude this analysis clearly point at some distinct transcriptome repertoires for cod and salmon and that these differences may explain some of the species-specific biological features for salmon and cod eggs. Mol. Reprod. Dev. 2015. © 2015 Wiley Periodicals, Inc. |
author2 |
Institute of Marine Research Laboratoire de Physiologie et Génomique des Poissons (LPGP) Structure Fédérative de Recherche en Biologie et Santé de Rennes ( Biosit : Biologie - Santé - Innovation Technologique )-Institut National de la Recherche Agronomique (INRA) European Project: 222719,EC:FP7:KBBE,FP7-KBBE-2007-2A,LIFECYCLE(2009) |
format |
Article in Journal/Newspaper |
author |
Wargelius, Anna Furmanek, Tomasz Montfort, Jérôme Le Cam, Aurélie Kleppe, Lene Juanchich, Amélie Edvardsen, Rolf B. Taranger, Geir Lasse Bobe, Julien |
author_facet |
Wargelius, Anna Furmanek, Tomasz Montfort, Jérôme Le Cam, Aurélie Kleppe, Lene Juanchich, Amélie Edvardsen, Rolf B. Taranger, Geir Lasse Bobe, Julien |
author_sort |
Wargelius, Anna |
title |
A comparison between egg trancriptomes of cod and salmon reveals species-specific traits in eggs for each species |
title_short |
A comparison between egg trancriptomes of cod and salmon reveals species-specific traits in eggs for each species |
title_full |
A comparison between egg trancriptomes of cod and salmon reveals species-specific traits in eggs for each species |
title_fullStr |
A comparison between egg trancriptomes of cod and salmon reveals species-specific traits in eggs for each species |
title_full_unstemmed |
A comparison between egg trancriptomes of cod and salmon reveals species-specific traits in eggs for each species |
title_sort |
comparison between egg trancriptomes of cod and salmon reveals species-specific traits in eggs for each species |
publisher |
HAL CCSD |
publishDate |
2015 |
url |
https://hal.archives-ouvertes.fr/hal-01205122 https://doi.org/10.1002/mrd.22487 |
genre |
atlantic cod Atlantic salmon |
genre_facet |
atlantic cod Atlantic salmon |
op_source |
ISSN: 1040-452X EISSN: 1098-2795 Molecular Reproduction and Development https://hal.archives-ouvertes.fr/hal-01205122 Molecular Reproduction and Development, Wiley, 2015, 82, pp.397-404. ⟨10.1002/mrd.22487⟩ |
op_relation |
info:eu-repo/semantics/altIdentifier/doi/10.1002/mrd.22487 info:eu-repo/semantics/altIdentifier/pmid/25908546 info:eu-repo/grantAgreement/EC/FP7/222719/EU/Building a biological knowledge-base on fish lifecycles for competitive, sustainable European aquaculture/LIFECYCLE hal-01205122 https://hal.archives-ouvertes.fr/hal-01205122 doi:10.1002/mrd.22487 PRODINRA: 295255 PUBMED: 25908546 WOS: 000354627600009 |
op_doi |
https://doi.org/10.1002/mrd.22487 |
container_title |
Molecular Reproduction and Development |
container_volume |
82 |
container_issue |
5 |
container_start_page |
397 |
op_container_end_page |
404 |
_version_ |
1766358120588640256 |