Phylogenetic analysis of the caspase family in bivalves: implications for programmed cell death, immune response and development
BACKGROUND: Apoptosis is an important process for an organism’s innate immune system to respond to pathogens, while also allowing for cell differentiation and other essential life functions. Caspases are one of the key protease enzymes involved in the apoptotic process, however there is currently a...
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ftpubmed:oai:pubmedcentral.nih.gov:7836458 2023-05-15T15:59:03+02:00 Phylogenetic analysis of the caspase family in bivalves: implications for programmed cell death, immune response and development Vogeler, Susanne Carboni, Stefano Li, Xiaoxu Joyce, Alyssa 2021-01-25 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7836458/ http://www.ncbi.nlm.nih.gov/pubmed/33494703 https://doi.org/10.1186/s12864-021-07380-0 en eng BioMed Central http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7836458/ http://www.ncbi.nlm.nih.gov/pubmed/33494703 http://dx.doi.org/10.1186/s12864-021-07380-0 © The Author(s) 2021 Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data. CC0 PDM CC-BY BMC Genomics Research Article Text 2021 ftpubmed https://doi.org/10.1186/s12864-021-07380-0 2021-01-31T02:04:53Z BACKGROUND: Apoptosis is an important process for an organism’s innate immune system to respond to pathogens, while also allowing for cell differentiation and other essential life functions. Caspases are one of the key protease enzymes involved in the apoptotic process, however there is currently a very limited understanding of bivalve caspase diversity and function. RESULTS: In this work, we investigated the presence of caspase homologues using a combination of bioinformatics and phylogenetic analyses. We blasted the Crassostrea gigas genome for caspase homologues and identified 35 potential homologues in the addition to the already cloned 23 bivalve caspases. As such, we present information about the phylogenetic relationship of all identified bivalve caspases in relation to their homology to well-established vertebrate and invertebrate caspases. Our results reveal unexpected novelty and complexity in the bivalve caspase family. Notably, we were unable to identify direct homologues to the initiator caspase-9, a key-caspase in the vertebrate apoptotic pathway, inflammatory caspases (caspase-1, − 4 or − 5) or executioner caspases-3, − 6, − 7. We also explored the fact that bivalves appear to possess several unique homologues to the initiator caspase groups − 2 and − 8. Large expansions of caspase-3 like homologues (caspase-3A-C), caspase-3/7 group and caspase-3/7-like homologues were also identified, suggesting unusual roles of caspases with direct implications for our understanding of immune response in relation to common bivalve diseases. Furthermore, we assessed the gene expression of two initiator (Cg2A, Cg8B) and four executioner caspases (Cg3A, Cg3B, Cg3C, Cg3/7) in C. gigas late-larval development and during metamorphosis, indicating that caspase expression varies across the different developmental stages. CONCLUSION: Our analysis provides the first overview of caspases across different bivalve species with essential new insights into caspase diversity, knowledge that can be used for further ... Text Crassostrea gigas PubMed Central (PMC) BMC Genomics 22 1 |
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Research Article Vogeler, Susanne Carboni, Stefano Li, Xiaoxu Joyce, Alyssa Phylogenetic analysis of the caspase family in bivalves: implications for programmed cell death, immune response and development |
topic_facet |
Research Article |
description |
BACKGROUND: Apoptosis is an important process for an organism’s innate immune system to respond to pathogens, while also allowing for cell differentiation and other essential life functions. Caspases are one of the key protease enzymes involved in the apoptotic process, however there is currently a very limited understanding of bivalve caspase diversity and function. RESULTS: In this work, we investigated the presence of caspase homologues using a combination of bioinformatics and phylogenetic analyses. We blasted the Crassostrea gigas genome for caspase homologues and identified 35 potential homologues in the addition to the already cloned 23 bivalve caspases. As such, we present information about the phylogenetic relationship of all identified bivalve caspases in relation to their homology to well-established vertebrate and invertebrate caspases. Our results reveal unexpected novelty and complexity in the bivalve caspase family. Notably, we were unable to identify direct homologues to the initiator caspase-9, a key-caspase in the vertebrate apoptotic pathway, inflammatory caspases (caspase-1, − 4 or − 5) or executioner caspases-3, − 6, − 7. We also explored the fact that bivalves appear to possess several unique homologues to the initiator caspase groups − 2 and − 8. Large expansions of caspase-3 like homologues (caspase-3A-C), caspase-3/7 group and caspase-3/7-like homologues were also identified, suggesting unusual roles of caspases with direct implications for our understanding of immune response in relation to common bivalve diseases. Furthermore, we assessed the gene expression of two initiator (Cg2A, Cg8B) and four executioner caspases (Cg3A, Cg3B, Cg3C, Cg3/7) in C. gigas late-larval development and during metamorphosis, indicating that caspase expression varies across the different developmental stages. CONCLUSION: Our analysis provides the first overview of caspases across different bivalve species with essential new insights into caspase diversity, knowledge that can be used for further ... |
format |
Text |
author |
Vogeler, Susanne Carboni, Stefano Li, Xiaoxu Joyce, Alyssa |
author_facet |
Vogeler, Susanne Carboni, Stefano Li, Xiaoxu Joyce, Alyssa |
author_sort |
Vogeler, Susanne |
title |
Phylogenetic analysis of the caspase family in bivalves: implications for programmed cell death, immune response and development |
title_short |
Phylogenetic analysis of the caspase family in bivalves: implications for programmed cell death, immune response and development |
title_full |
Phylogenetic analysis of the caspase family in bivalves: implications for programmed cell death, immune response and development |
title_fullStr |
Phylogenetic analysis of the caspase family in bivalves: implications for programmed cell death, immune response and development |
title_full_unstemmed |
Phylogenetic analysis of the caspase family in bivalves: implications for programmed cell death, immune response and development |
title_sort |
phylogenetic analysis of the caspase family in bivalves: implications for programmed cell death, immune response and development |
publisher |
BioMed Central |
publishDate |
2021 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7836458/ http://www.ncbi.nlm.nih.gov/pubmed/33494703 https://doi.org/10.1186/s12864-021-07380-0 |
genre |
Crassostrea gigas |
genre_facet |
Crassostrea gigas |
op_source |
BMC Genomics |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7836458/ http://www.ncbi.nlm.nih.gov/pubmed/33494703 http://dx.doi.org/10.1186/s12864-021-07380-0 |
op_rights |
© The Author(s) 2021 Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data. |
op_rightsnorm |
CC0 PDM CC-BY |
op_doi |
https://doi.org/10.1186/s12864-021-07380-0 |
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BMC Genomics |
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22 |
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