Gene expression variation resolves species and individual strains among coral-associated dinoflagellates within the genus Symbiodinium

Handle URI:
http://hdl.handle.net/10754/600687
Title:
Gene expression variation resolves species and individual strains among coral-associated dinoflagellates within the genus Symbiodinium
Authors:
Parkinson, John Everett; Baumgarten, Sebastian ( 0000-0003-2646-7699 ) ; Michell, Craig; Baums, Iliana B.; LaJeunesse, Todd C.; Voolstra, Christian R. ( 0000-0003-4555-3795 )
Abstract:
Reef-building corals depend on symbiotic mutualisms with photosynthetic dinoflagellates in the genus Symbiodinium. This large microalgal group comprises many highly divergent lineages (“Clades A-I”) and hundreds of undescribed species. Given their ecological importance, efforts have turned to genomic approaches to characterize the functional ecology of Symbiodinium. To date, investigators have only compared gene expression between representatives from separate clades—the equivalent of contrasting genera or families in other dinoflagellate groups—making it impossible to distinguish between clade-level and species-level functional differences. Here, we examined the transcriptomes of four species within one Symbiodinium clade (Clade B) at ~20,000 orthologous genes, as well as multiple isoclonal cell lines within species (i.e. cultured strains). These species span two major adaptive radiations within Clade B, each encompassing both host-specialized and ecologically cryptic taxa. Species-specific expression differences were consistently enriched for photosynthesis-related genes, likely reflecting selection pressures driving niche diversification. Transcriptional variation among strains involved fatty acid metabolism and biosynthesis pathways. Such differences among individuals are potentially a major source of physiological variation, contributing to the functional diversity of coral holobionts composed of unique host-symbiont genotype pairings. Our findings expand the genomic resources available for this important symbiont group and emphasize the power of comparative transcriptomics as a method for studying speciation processes and inter-individual variation in non-model organisms.
KAUST Department:
Red Sea Research Center (RSRC); Biological and Environmental Sciences and Engineering (BESE) Division
Citation:
Gene expression variation resolves species and individual strains among coral-associated dinoflagellates within the genus Symbiodinium 2016:evw019 Genome Biology and Evolution
Publisher:
Oxford University Press (OUP)
Journal:
Genome Biology and Evolution
Issue Date:
11-Feb-2016
DOI:
10.1093/gbe/evw019
Type:
Article
ISSN:
1759-6653
Additional Links:
http://gbe.oxfordjournals.org/lookup/doi/10.1093/gbe/evw019
Appears in Collections:
Articles; Red Sea Research Center (RSRC); Biological and Environmental Sciences and Engineering (BESE) Division

Full metadata record

DC FieldValue Language
dc.contributor.authorParkinson, John Everetten
dc.contributor.authorBaumgarten, Sebastianen
dc.contributor.authorMichell, Craigen
dc.contributor.authorBaums, Iliana B.en
dc.contributor.authorLaJeunesse, Todd C.en
dc.contributor.authorVoolstra, Christian R.en
dc.date.accessioned2016-03-07T07:58:41Zen
dc.date.available2016-03-07T07:58:41Zen
dc.date.issued2016-02-11en
dc.identifier.citationGene expression variation resolves species and individual strains among coral-associated dinoflagellates within the genus Symbiodinium 2016:evw019 Genome Biology and Evolutionen
dc.identifier.issn1759-6653en
dc.identifier.doi10.1093/gbe/evw019en
dc.identifier.urihttp://hdl.handle.net/10754/600687en
dc.description.abstractReef-building corals depend on symbiotic mutualisms with photosynthetic dinoflagellates in the genus Symbiodinium. This large microalgal group comprises many highly divergent lineages (“Clades A-I”) and hundreds of undescribed species. Given their ecological importance, efforts have turned to genomic approaches to characterize the functional ecology of Symbiodinium. To date, investigators have only compared gene expression between representatives from separate clades—the equivalent of contrasting genera or families in other dinoflagellate groups—making it impossible to distinguish between clade-level and species-level functional differences. Here, we examined the transcriptomes of four species within one Symbiodinium clade (Clade B) at ~20,000 orthologous genes, as well as multiple isoclonal cell lines within species (i.e. cultured strains). These species span two major adaptive radiations within Clade B, each encompassing both host-specialized and ecologically cryptic taxa. Species-specific expression differences were consistently enriched for photosynthesis-related genes, likely reflecting selection pressures driving niche diversification. Transcriptional variation among strains involved fatty acid metabolism and biosynthesis pathways. Such differences among individuals are potentially a major source of physiological variation, contributing to the functional diversity of coral holobionts composed of unique host-symbiont genotype pairings. Our findings expand the genomic resources available for this important symbiont group and emphasize the power of comparative transcriptomics as a method for studying speciation processes and inter-individual variation in non-model organisms.en
dc.language.isoenen
dc.publisherOxford University Press (OUP)en
dc.relation.urlhttp://gbe.oxfordjournals.org/lookup/doi/10.1093/gbe/evw019en
dc.rightsThis is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.comen
dc.subjectdinoflagellatesen
dc.subjectphylogeneticsen
dc.subjectRNAseqen
dc.subjectsymbiosisen
dc.subjecttranscriptomeen
dc.subjectzooxanthellaeen
dc.titleGene expression variation resolves species and individual strains among coral-associated dinoflagellates within the genus Symbiodiniumen
dc.typeArticleen
dc.contributor.departmentRed Sea Research Center (RSRC)en
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Divisionen
dc.identifier.journalGenome Biology and Evolutionen
dc.eprint.versionPublisher's Version/PDFen
dc.contributor.institutionDepartment of Biology, The Pennsylvania State University, University Park, PA, 16802, USAen
dc.contributor.affiliationKing Abdullah University of Science and Technology (KAUST)en
kaust.authorBaumgarten, Sebastianen
kaust.authorMichell, Craigen
kaust.authorVoolstra, Christian R.en
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