DataSheet_3_Tetraploid Ancestry Provided Atlantic Salmon With Two Paralogue Functional T Cell Receptor Beta Regions Whereof One Is Completely Novel.zip
Protective cellular immune responses have been difficult to study in fish, due to lack of basic understanding of their T cell populations, and tools to study them. Cellular immunity is thus mostly ignored in vaccination and infection studies compared to humoral responses. High throughput sequencing,...
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Online Access: | https://doi.org/10.3389/fimmu.2022.930312.s003 https://figshare.com/articles/dataset/DataSheet_3_Tetraploid_Ancestry_Provided_Atlantic_Salmon_With_Two_Paralogue_Functional_T_Cell_Receptor_Beta_Regions_Whereof_One_Is_Completely_Novel_zip/20086712 |
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ftfrontimediafig:oai:figshare.com:article/20086712 2023-05-15T15:30:15+02:00 DataSheet_3_Tetraploid Ancestry Provided Atlantic Salmon With Two Paralogue Functional T Cell Receptor Beta Regions Whereof One Is Completely Novel.zip Unni Grimholt Arvind Y. M. Sundaram Cathrine Arnason Bøe Maria K. Dahle Morten Lukacs 2022-06-17T04:25:10Z https://doi.org/10.3389/fimmu.2022.930312.s003 https://figshare.com/articles/dataset/DataSheet_3_Tetraploid_Ancestry_Provided_Atlantic_Salmon_With_Two_Paralogue_Functional_T_Cell_Receptor_Beta_Regions_Whereof_One_Is_Completely_Novel_zip/20086712 unknown doi:10.3389/fimmu.2022.930312.s003 https://figshare.com/articles/dataset/DataSheet_3_Tetraploid_Ancestry_Provided_Atlantic_Salmon_With_Two_Paralogue_Functional_T_Cell_Receptor_Beta_Regions_Whereof_One_Is_Completely_Novel_zip/20086712 CC BY 4.0 CC-BY Immunology Applied Immunology (incl. Antibody Engineering Xenotransplantation and T-cell Therapies) Autoimmunity Cellular Immunology Humoural Immunology and Immunochemistry Immunogenetics (incl. Genetic Immunology) Innate Immunity Transplantation Immunology Tumour Immunology Immunology not elsewhere classified Genetic Immunology Animal Immunology Veterinary Immunology adaptive immunity T cell receptor beta genes Atlantic salmon TRB whole genome duplication Dataset 2022 ftfrontimediafig https://doi.org/10.3389/fimmu.2022.930312.s003 2022-06-22T23:08:39Z Protective cellular immune responses have been difficult to study in fish, due to lack of basic understanding of their T cell populations, and tools to study them. Cellular immunity is thus mostly ignored in vaccination and infection studies compared to humoral responses. High throughput sequencing, as well as access to well assembled genomes, now advances studies of cellular responses. Here we have used such resources to describe organization of T cell receptor beta genes in Atlantic salmon. Salmonids experienced a unique whole genome duplication approximately 94 million years ago, which provided these species with many functional duplicate genes, where some duplicates have evolved new functions or sub-functions of the original gene copy. This is also the case for T cell receptor beta, where Atlantic salmon has retained two paralogue T cell receptor beta regions on chromosomes 01 and 09. Compared to catfish and zebrafish, the genomic organization in both regions is unique, each chromosomal region organized with dual variable- diversity- joining- constant genes in a head to head orientation. Sequence identity of the chromosomal constant sequences between TRB01 and TRB09 is suggestive of rapid diversification, with only 67 percent as opposed to the average 82-90 percent for other duplicated genes. Using virus challenged samples we find both regions expressing bona fide functional T cell receptor beta molecules. Adding the 292 variable T cell receptor alpha genes to the 100 variable TRB genes from 14 subgroups, Atlantic salmon has one of the most diverse T cell receptor alpha beta repertoire of any vertebrate studied so far. Perhaps salmonid cellular immunity is more advanced than we have imagined. Dataset Atlantic salmon Frontiers: Figshare |
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Open Polar |
collection |
Frontiers: Figshare |
op_collection_id |
ftfrontimediafig |
language |
unknown |
topic |
Immunology Applied Immunology (incl. Antibody Engineering Xenotransplantation and T-cell Therapies) Autoimmunity Cellular Immunology Humoural Immunology and Immunochemistry Immunogenetics (incl. Genetic Immunology) Innate Immunity Transplantation Immunology Tumour Immunology Immunology not elsewhere classified Genetic Immunology Animal Immunology Veterinary Immunology adaptive immunity T cell receptor beta genes Atlantic salmon TRB whole genome duplication |
spellingShingle |
Immunology Applied Immunology (incl. Antibody Engineering Xenotransplantation and T-cell Therapies) Autoimmunity Cellular Immunology Humoural Immunology and Immunochemistry Immunogenetics (incl. Genetic Immunology) Innate Immunity Transplantation Immunology Tumour Immunology Immunology not elsewhere classified Genetic Immunology Animal Immunology Veterinary Immunology adaptive immunity T cell receptor beta genes Atlantic salmon TRB whole genome duplication Unni Grimholt Arvind Y. M. Sundaram Cathrine Arnason Bøe Maria K. Dahle Morten Lukacs DataSheet_3_Tetraploid Ancestry Provided Atlantic Salmon With Two Paralogue Functional T Cell Receptor Beta Regions Whereof One Is Completely Novel.zip |
topic_facet |
Immunology Applied Immunology (incl. Antibody Engineering Xenotransplantation and T-cell Therapies) Autoimmunity Cellular Immunology Humoural Immunology and Immunochemistry Immunogenetics (incl. Genetic Immunology) Innate Immunity Transplantation Immunology Tumour Immunology Immunology not elsewhere classified Genetic Immunology Animal Immunology Veterinary Immunology adaptive immunity T cell receptor beta genes Atlantic salmon TRB whole genome duplication |
description |
Protective cellular immune responses have been difficult to study in fish, due to lack of basic understanding of their T cell populations, and tools to study them. Cellular immunity is thus mostly ignored in vaccination and infection studies compared to humoral responses. High throughput sequencing, as well as access to well assembled genomes, now advances studies of cellular responses. Here we have used such resources to describe organization of T cell receptor beta genes in Atlantic salmon. Salmonids experienced a unique whole genome duplication approximately 94 million years ago, which provided these species with many functional duplicate genes, where some duplicates have evolved new functions or sub-functions of the original gene copy. This is also the case for T cell receptor beta, where Atlantic salmon has retained two paralogue T cell receptor beta regions on chromosomes 01 and 09. Compared to catfish and zebrafish, the genomic organization in both regions is unique, each chromosomal region organized with dual variable- diversity- joining- constant genes in a head to head orientation. Sequence identity of the chromosomal constant sequences between TRB01 and TRB09 is suggestive of rapid diversification, with only 67 percent as opposed to the average 82-90 percent for other duplicated genes. Using virus challenged samples we find both regions expressing bona fide functional T cell receptor beta molecules. Adding the 292 variable T cell receptor alpha genes to the 100 variable TRB genes from 14 subgroups, Atlantic salmon has one of the most diverse T cell receptor alpha beta repertoire of any vertebrate studied so far. Perhaps salmonid cellular immunity is more advanced than we have imagined. |
format |
Dataset |
author |
Unni Grimholt Arvind Y. M. Sundaram Cathrine Arnason Bøe Maria K. Dahle Morten Lukacs |
author_facet |
Unni Grimholt Arvind Y. M. Sundaram Cathrine Arnason Bøe Maria K. Dahle Morten Lukacs |
author_sort |
Unni Grimholt |
title |
DataSheet_3_Tetraploid Ancestry Provided Atlantic Salmon With Two Paralogue Functional T Cell Receptor Beta Regions Whereof One Is Completely Novel.zip |
title_short |
DataSheet_3_Tetraploid Ancestry Provided Atlantic Salmon With Two Paralogue Functional T Cell Receptor Beta Regions Whereof One Is Completely Novel.zip |
title_full |
DataSheet_3_Tetraploid Ancestry Provided Atlantic Salmon With Two Paralogue Functional T Cell Receptor Beta Regions Whereof One Is Completely Novel.zip |
title_fullStr |
DataSheet_3_Tetraploid Ancestry Provided Atlantic Salmon With Two Paralogue Functional T Cell Receptor Beta Regions Whereof One Is Completely Novel.zip |
title_full_unstemmed |
DataSheet_3_Tetraploid Ancestry Provided Atlantic Salmon With Two Paralogue Functional T Cell Receptor Beta Regions Whereof One Is Completely Novel.zip |
title_sort |
datasheet_3_tetraploid ancestry provided atlantic salmon with two paralogue functional t cell receptor beta regions whereof one is completely novel.zip |
publishDate |
2022 |
url |
https://doi.org/10.3389/fimmu.2022.930312.s003 https://figshare.com/articles/dataset/DataSheet_3_Tetraploid_Ancestry_Provided_Atlantic_Salmon_With_Two_Paralogue_Functional_T_Cell_Receptor_Beta_Regions_Whereof_One_Is_Completely_Novel_zip/20086712 |
genre |
Atlantic salmon |
genre_facet |
Atlantic salmon |
op_relation |
doi:10.3389/fimmu.2022.930312.s003 https://figshare.com/articles/dataset/DataSheet_3_Tetraploid_Ancestry_Provided_Atlantic_Salmon_With_Two_Paralogue_Functional_T_Cell_Receptor_Beta_Regions_Whereof_One_Is_Completely_Novel_zip/20086712 |
op_rights |
CC BY 4.0 |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.3389/fimmu.2022.930312.s003 |
_version_ |
1766360690784731136 |