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Extensive transcriptional variation poses a challenge to thermal stress biomarker development for endangered corals
As climate changes, sea surface temperature anomalies that negatively impact coral reef organisms continue to increase in frequency and intensity. Yet, despite widespread coral mortality, genetic diversity remains high even in those coral species listed as threatened. While this is good news in many...
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Published in: | Molecular ecology 2018-03, Vol.27 (5), p.1103-1119 |
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container_end_page | 1119 |
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container_title | Molecular ecology |
container_volume | 27 |
creator | Parkinson, John Everett Bartels, Erich Devlin‐Durante, Meghann K. Lustic, Caitlin Nedimyer, Ken Schopmeyer, Stephanie Lirman, Diego LaJeunesse, Todd C. Baums, Iliana B. |
description | As climate changes, sea surface temperature anomalies that negatively impact coral reef organisms continue to increase in frequency and intensity. Yet, despite widespread coral mortality, genetic diversity remains high even in those coral species listed as threatened. While this is good news in many ways, it presents a challenge for the development of biomarkers that can identify resilient or vulnerable genotypes. Taking advantage of three coral restoration nurseries in Florida that serve as long‐term common garden experiments, we exposed over 30 genetically distinct Acropora cervicornis colonies to hot and cold temperature shocks seasonally and measured pooled gene expression responses using RNAseq. Targeting a subset of 20 genes, we designed a high‐throughput qPCR array to quantify expression in all individuals separately under each treatment with the goal of identifying predictive and/or diagnostic thermal stress biomarkers. We observed extensive transcriptional variation in the population, suggesting abundant raw material is available for adaptation via natural selection. However, this high variation made it difficult to correlate gene expression changes with colony performance metrics such as growth, mortality and bleaching susceptibility. Nevertheless, we identified several promising diagnostic biomarkers for acute thermal stress that may improve coral restoration and climate change mitigation efforts in the future. |
doi_str_mv | 10.1111/mec.14517 |
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Yet, despite widespread coral mortality, genetic diversity remains high even in those coral species listed as threatened. While this is good news in many ways, it presents a challenge for the development of biomarkers that can identify resilient or vulnerable genotypes. Taking advantage of three coral restoration nurseries in Florida that serve as long‐term common garden experiments, we exposed over 30 genetically distinct Acropora cervicornis colonies to hot and cold temperature shocks seasonally and measured pooled gene expression responses using RNAseq. Targeting a subset of 20 genes, we designed a high‐throughput qPCR array to quantify expression in all individuals separately under each treatment with the goal of identifying predictive and/or diagnostic thermal stress biomarkers. We observed extensive transcriptional variation in the population, suggesting abundant raw material is available for adaptation via natural selection. However, this high variation made it difficult to correlate gene expression changes with colony performance metrics such as growth, mortality and bleaching susceptibility. Nevertheless, we identified several promising diagnostic biomarkers for acute thermal stress that may improve coral restoration and climate change mitigation efforts in the future.</description><identifier>ISSN: 0962-1083</identifier><identifier>EISSN: 1365-294X</identifier><identifier>DOI: 10.1111/mec.14517</identifier><identifier>PMID: 29412490</identifier><language>eng</language><publisher>England: Blackwell Publishing Ltd</publisher><subject>Animals ; Anthozoa - genetics ; Biodiversity ; Biomarkers ; Bleaching ; Climate Change ; Climate change mitigation ; Colonies ; conservation genetics ; Conservation of Natural Resources ; coral reef ; Coral reefs ; Corals ; Diagnostic systems ; Endangered Species ; Environmental impact ; Florida ; Gene expression ; Genetic diversity ; Genetic Markers ; Genetic Variation ; Genotypes ; Mortality ; Natural selection ; Performance measurement ; Restoration ; Sea surface temperature ; Species diversity ; Stress, Physiological ; Symbiodinium ; symbiosis ; Temperature ; Thermal stress ; Thermotolerance - genetics ; Transcription</subject><ispartof>Molecular ecology, 2018-03, Vol.27 (5), p.1103-1119</ispartof><rights>2018 John Wiley & Sons Ltd</rights><rights>2018 John Wiley & Sons Ltd.</rights><rights>Copyright © 2018 John Wiley & Sons Ltd</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c4197-73bee5a8b5798f02a26bc9999bc13fc2289c6e40c2f7d53de48892b8c1f8f5873</citedby><cites>FETCH-LOGICAL-c4197-73bee5a8b5798f02a26bc9999bc13fc2289c6e40c2f7d53de48892b8c1f8f5873</cites><orcidid>0000-0001-8386-3044</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,780,784,27924,27925</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/29412490$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Parkinson, John Everett</creatorcontrib><creatorcontrib>Bartels, Erich</creatorcontrib><creatorcontrib>Devlin‐Durante, Meghann K.</creatorcontrib><creatorcontrib>Lustic, Caitlin</creatorcontrib><creatorcontrib>Nedimyer, Ken</creatorcontrib><creatorcontrib>Schopmeyer, Stephanie</creatorcontrib><creatorcontrib>Lirman, Diego</creatorcontrib><creatorcontrib>LaJeunesse, Todd C.</creatorcontrib><creatorcontrib>Baums, Iliana B.</creatorcontrib><title>Extensive transcriptional variation poses a challenge to thermal stress biomarker development for endangered corals</title><title>Molecular ecology</title><addtitle>Mol Ecol</addtitle><description>As climate changes, sea surface temperature anomalies that negatively impact coral reef organisms continue to increase in frequency and intensity. Yet, despite widespread coral mortality, genetic diversity remains high even in those coral species listed as threatened. While this is good news in many ways, it presents a challenge for the development of biomarkers that can identify resilient or vulnerable genotypes. Taking advantage of three coral restoration nurseries in Florida that serve as long‐term common garden experiments, we exposed over 30 genetically distinct Acropora cervicornis colonies to hot and cold temperature shocks seasonally and measured pooled gene expression responses using RNAseq. Targeting a subset of 20 genes, we designed a high‐throughput qPCR array to quantify expression in all individuals separately under each treatment with the goal of identifying predictive and/or diagnostic thermal stress biomarkers. We observed extensive transcriptional variation in the population, suggesting abundant raw material is available for adaptation via natural selection. However, this high variation made it difficult to correlate gene expression changes with colony performance metrics such as growth, mortality and bleaching susceptibility. Nevertheless, we identified several promising diagnostic biomarkers for acute thermal stress that may improve coral restoration and climate change mitigation efforts in the future.</description><subject>Animals</subject><subject>Anthozoa - genetics</subject><subject>Biodiversity</subject><subject>Biomarkers</subject><subject>Bleaching</subject><subject>Climate Change</subject><subject>Climate change mitigation</subject><subject>Colonies</subject><subject>conservation genetics</subject><subject>Conservation of Natural Resources</subject><subject>coral reef</subject><subject>Coral reefs</subject><subject>Corals</subject><subject>Diagnostic systems</subject><subject>Endangered Species</subject><subject>Environmental impact</subject><subject>Florida</subject><subject>Gene expression</subject><subject>Genetic diversity</subject><subject>Genetic Markers</subject><subject>Genetic Variation</subject><subject>Genotypes</subject><subject>Mortality</subject><subject>Natural selection</subject><subject>Performance measurement</subject><subject>Restoration</subject><subject>Sea surface temperature</subject><subject>Species diversity</subject><subject>Stress, Physiological</subject><subject>Symbiodinium</subject><subject>symbiosis</subject><subject>Temperature</subject><subject>Thermal stress</subject><subject>Thermotolerance - genetics</subject><subject>Transcription</subject><issn>0962-1083</issn><issn>1365-294X</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2018</creationdate><recordtype>article</recordtype><recordid>eNp1kU1P4zAQhq3VIloKh_0DK0t7gUOoP-LGPqKqfEggLqy0N8txJkvYJA6etMC_x9AuByTmMiP5mUfyvIT84OyUp5p34E95rnjxjUy5XKhMmPzPdzJlZiEyzrSckAPEB8a4FErtk0l65yI3bEpw9TxCj80G6Bhdjz42w9iE3rV042Lj3mY6BASkjvp717bQ_01soOM9xC5hOEZApGUTOhf_QaQVbKANQwf9SOsQKfSVSzsRKupDdC0ekr06NTja9Rn5fb66W15m17cXV8uz68zn3BRZIUsA5XSpCqNrJpxYlN6kKj2XtRdCG7-AnHlRF5WSFeRaG1Fqz2tdK13IGTneeocYHteAo-0a9NC2roewRsuTixtZGJXQX5_Qh7CO6QpoBRNSCs6ZTNTJlvIxIEao7RCb9OsXy5l9S8KmJOx7Eon9uTOuyw6qD_L_6RMw3wJPTQsvX5vszWq5Vb4CqlyUMg</recordid><startdate>201803</startdate><enddate>201803</enddate><creator>Parkinson, John Everett</creator><creator>Bartels, Erich</creator><creator>Devlin‐Durante, Meghann K.</creator><creator>Lustic, Caitlin</creator><creator>Nedimyer, Ken</creator><creator>Schopmeyer, Stephanie</creator><creator>Lirman, Diego</creator><creator>LaJeunesse, Todd C.</creator><creator>Baums, Iliana B.</creator><general>Blackwell Publishing Ltd</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7SN</scope><scope>7SS</scope><scope>8FD</scope><scope>C1K</scope><scope>FR3</scope><scope>M7N</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope><orcidid>https://orcid.org/0000-0001-8386-3044</orcidid></search><sort><creationdate>201803</creationdate><title>Extensive transcriptional variation poses a challenge to thermal stress biomarker development for endangered corals</title><author>Parkinson, John Everett ; Bartels, Erich ; Devlin‐Durante, Meghann K. ; Lustic, Caitlin ; Nedimyer, Ken ; Schopmeyer, Stephanie ; Lirman, Diego ; LaJeunesse, Todd C. ; Baums, Iliana B.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c4197-73bee5a8b5798f02a26bc9999bc13fc2289c6e40c2f7d53de48892b8c1f8f5873</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2018</creationdate><topic>Animals</topic><topic>Anthozoa - genetics</topic><topic>Biodiversity</topic><topic>Biomarkers</topic><topic>Bleaching</topic><topic>Climate Change</topic><topic>Climate change mitigation</topic><topic>Colonies</topic><topic>conservation genetics</topic><topic>Conservation of Natural Resources</topic><topic>coral reef</topic><topic>Coral reefs</topic><topic>Corals</topic><topic>Diagnostic systems</topic><topic>Endangered Species</topic><topic>Environmental impact</topic><topic>Florida</topic><topic>Gene expression</topic><topic>Genetic diversity</topic><topic>Genetic Markers</topic><topic>Genetic Variation</topic><topic>Genotypes</topic><topic>Mortality</topic><topic>Natural selection</topic><topic>Performance measurement</topic><topic>Restoration</topic><topic>Sea surface temperature</topic><topic>Species diversity</topic><topic>Stress, Physiological</topic><topic>Symbiodinium</topic><topic>symbiosis</topic><topic>Temperature</topic><topic>Thermal stress</topic><topic>Thermotolerance - genetics</topic><topic>Transcription</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Parkinson, John Everett</creatorcontrib><creatorcontrib>Bartels, Erich</creatorcontrib><creatorcontrib>Devlin‐Durante, Meghann K.</creatorcontrib><creatorcontrib>Lustic, Caitlin</creatorcontrib><creatorcontrib>Nedimyer, Ken</creatorcontrib><creatorcontrib>Schopmeyer, Stephanie</creatorcontrib><creatorcontrib>Lirman, Diego</creatorcontrib><creatorcontrib>LaJeunesse, Todd C.</creatorcontrib><creatorcontrib>Baums, Iliana B.</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Ecology Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>Engineering Research Database</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Molecular ecology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Parkinson, John Everett</au><au>Bartels, Erich</au><au>Devlin‐Durante, Meghann K.</au><au>Lustic, Caitlin</au><au>Nedimyer, Ken</au><au>Schopmeyer, Stephanie</au><au>Lirman, Diego</au><au>LaJeunesse, Todd C.</au><au>Baums, Iliana B.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Extensive transcriptional variation poses a challenge to thermal stress biomarker development for endangered corals</atitle><jtitle>Molecular ecology</jtitle><addtitle>Mol Ecol</addtitle><date>2018-03</date><risdate>2018</risdate><volume>27</volume><issue>5</issue><spage>1103</spage><epage>1119</epage><pages>1103-1119</pages><issn>0962-1083</issn><eissn>1365-294X</eissn><abstract>As climate changes, sea surface temperature anomalies that negatively impact coral reef organisms continue to increase in frequency and intensity. Yet, despite widespread coral mortality, genetic diversity remains high even in those coral species listed as threatened. While this is good news in many ways, it presents a challenge for the development of biomarkers that can identify resilient or vulnerable genotypes. Taking advantage of three coral restoration nurseries in Florida that serve as long‐term common garden experiments, we exposed over 30 genetically distinct Acropora cervicornis colonies to hot and cold temperature shocks seasonally and measured pooled gene expression responses using RNAseq. Targeting a subset of 20 genes, we designed a high‐throughput qPCR array to quantify expression in all individuals separately under each treatment with the goal of identifying predictive and/or diagnostic thermal stress biomarkers. We observed extensive transcriptional variation in the population, suggesting abundant raw material is available for adaptation via natural selection. However, this high variation made it difficult to correlate gene expression changes with colony performance metrics such as growth, mortality and bleaching susceptibility. Nevertheless, we identified several promising diagnostic biomarkers for acute thermal stress that may improve coral restoration and climate change mitigation efforts in the future.</abstract><cop>England</cop><pub>Blackwell Publishing Ltd</pub><pmid>29412490</pmid><doi>10.1111/mec.14517</doi><tpages>17</tpages><orcidid>https://orcid.org/0000-0001-8386-3044</orcidid></addata></record> |
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subjects | Animals Anthozoa - genetics Biodiversity Biomarkers Bleaching Climate Change Climate change mitigation Colonies conservation genetics Conservation of Natural Resources coral reef Coral reefs Corals Diagnostic systems Endangered Species Environmental impact Florida Gene expression Genetic diversity Genetic Markers Genetic Variation Genotypes Mortality Natural selection Performance measurement Restoration Sea surface temperature Species diversity Stress, Physiological Symbiodinium symbiosis Temperature Thermal stress Thermotolerance - genetics Transcription |
title | Extensive transcriptional variation poses a challenge to thermal stress biomarker development for endangered corals |
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