Comparative genomic analysis of innate immunity reveals novel and conserved components in crustacean food crop species
Abstract Background Growing global demands for crustacean food crop species have driven large investments in aquaculture research worldwide. However, large-scale production is susceptible to pathogen-mediated destruction particularly in developing economies. Thus, a thorough understanding of the imm...
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| Format: | Article |
| Language: | English |
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BMC
2017-05-01
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| Series: | BMC Genomics |
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| Online Access: | http://link.springer.com/article/10.1186/s12864-017-3769-4 |
| _version_ | 1818953466757775360 |
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| author | Alvina G. Lai A. Aziz Aboobaker |
| author_facet | Alvina G. Lai A. Aziz Aboobaker |
| author_sort | Alvina G. Lai |
| collection | DOAJ |
| description | Abstract Background Growing global demands for crustacean food crop species have driven large investments in aquaculture research worldwide. However, large-scale production is susceptible to pathogen-mediated destruction particularly in developing economies. Thus, a thorough understanding of the immune system components of food crop species is imperative for research to combat pathogens. Results Through a comparative genomics approach utilising extant data from 55 species, we describe the innate immune system of the class Malacostraca, which includes all food crop species. We identify 7407 malacostracan genes from 39 gene families implicated in different aspects of host defence and demonstrate dynamic evolution of innate immunity components within this group. Malacostracans have achieved flexibility in recognising infectious agents through divergent evolution and expansion of pathogen recognition receptors genes. Antiviral RNAi, Toll and JAK-STAT signal transduction pathways have remained conserved within Malacostraca, although the Imd pathway appears to lack several key components. Immune effectors such as the antimicrobial peptides (AMPs) have unique evolutionary profiles, with many malacostracan AMPs not found in other arthropods. Lastly, we describe four putative novel immune gene families, potentially representing important evolutionary novelties of the malacostracan immune system. Conclusion Our analyses across the broader Malacostraca have allowed us to not only draw analogies with other arthropods but also to identify evolutionary novelties in immune modulation components and form strong hypotheses as to when key pathways have evolved or diverged. This will serve as a key resource for future immunology research in crustacean food crops. |
| first_indexed | 2024-12-20T10:06:43Z |
| format | Article |
| id | doaj.art-6dffba37b32f4847ab639308b169b933 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-20T10:06:43Z |
| publishDate | 2017-05-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-6dffba37b32f4847ab639308b169b9332022-12-21T19:44:13ZengBMCBMC Genomics1471-21642017-05-0118112610.1186/s12864-017-3769-4Comparative genomic analysis of innate immunity reveals novel and conserved components in crustacean food crop speciesAlvina G. Lai0A. Aziz Aboobaker1Department of Zoology, University of OxfordDepartment of Zoology, University of OxfordAbstract Background Growing global demands for crustacean food crop species have driven large investments in aquaculture research worldwide. However, large-scale production is susceptible to pathogen-mediated destruction particularly in developing economies. Thus, a thorough understanding of the immune system components of food crop species is imperative for research to combat pathogens. Results Through a comparative genomics approach utilising extant data from 55 species, we describe the innate immune system of the class Malacostraca, which includes all food crop species. We identify 7407 malacostracan genes from 39 gene families implicated in different aspects of host defence and demonstrate dynamic evolution of innate immunity components within this group. Malacostracans have achieved flexibility in recognising infectious agents through divergent evolution and expansion of pathogen recognition receptors genes. Antiviral RNAi, Toll and JAK-STAT signal transduction pathways have remained conserved within Malacostraca, although the Imd pathway appears to lack several key components. Immune effectors such as the antimicrobial peptides (AMPs) have unique evolutionary profiles, with many malacostracan AMPs not found in other arthropods. Lastly, we describe four putative novel immune gene families, potentially representing important evolutionary novelties of the malacostracan immune system. Conclusion Our analyses across the broader Malacostraca have allowed us to not only draw analogies with other arthropods but also to identify evolutionary novelties in immune modulation components and form strong hypotheses as to when key pathways have evolved or diverged. This will serve as a key resource for future immunology research in crustacean food crops.http://link.springer.com/article/10.1186/s12864-017-3769-4MalacostracaInnate immunityEvolutionCrustaceanComparative genomicsArthropoda |
| spellingShingle | Alvina G. Lai A. Aziz Aboobaker Comparative genomic analysis of innate immunity reveals novel and conserved components in crustacean food crop species BMC Genomics Malacostraca Innate immunity Evolution Crustacean Comparative genomics Arthropoda |
| title | Comparative genomic analysis of innate immunity reveals novel and conserved components in crustacean food crop species |
| title_full | Comparative genomic analysis of innate immunity reveals novel and conserved components in crustacean food crop species |
| title_fullStr | Comparative genomic analysis of innate immunity reveals novel and conserved components in crustacean food crop species |
| title_full_unstemmed | Comparative genomic analysis of innate immunity reveals novel and conserved components in crustacean food crop species |
| title_short | Comparative genomic analysis of innate immunity reveals novel and conserved components in crustacean food crop species |
| title_sort | comparative genomic analysis of innate immunity reveals novel and conserved components in crustacean food crop species |
| topic | Malacostraca Innate immunity Evolution Crustacean Comparative genomics Arthropoda |
| url | http://link.springer.com/article/10.1186/s12864-017-3769-4 |
| work_keys_str_mv | AT alvinaglai comparativegenomicanalysisofinnateimmunityrevealsnovelandconservedcomponentsincrustaceanfoodcropspecies AT aazizaboobaker comparativegenomicanalysisofinnateimmunityrevealsnovelandconservedcomponentsincrustaceanfoodcropspecies |