Metatranscriptomes reveal functional variation in diatom communities from the Antarctic Peninsula

Handle URI:
http://hdl.handle.net/10754/594118
Title:
Metatranscriptomes reveal functional variation in diatom communities from the Antarctic Peninsula
Authors:
Pearson, Gareth A ( 0000-0002-0768-464X ) ; Lago-Leston, Asuncion; Cánovas, Fernando; Cox, Cymon J; Verret, Frederic; Lasternas, Sebastian; Duarte, Carlos M. ( 0000-0002-1213-1361 ) ; Agusti, Susana ( 0000-0003-0536-7293 ) ; Serrão, Ester A
Abstract:
Functional genomics of diatom-dominated communities fromthe Antarctic Peninsula was studied using comparative metatranscriptomics. Samples obtained from diatom-rich communities in the Bransfield Strait, the western Weddell Sea and sea ice in the Bellingshausen Sea/Wilkins Ice Shelf yielded more than 500K pyrosequencing reads that were combined to produce a global metatranscriptome assembly. Multi-gene phylogenies recovered three distinct communities, and diatom-assigned contigs further indicated little read-sharing between communities, validating an assembly-based annotation and analysis approach. Although functional analysis recovered a core of abundant shared annotations that were expressed across the three diatom communities, over 40% of annotations (but accounting for <10% of sequences) were community-specific. The two pelagic communities differed in their expression of N-metabolism and acquisition genes, which was almost absent in post-bloom conditions in the Weddell Sea community, while enrichment of transporters for ammonia and urea in Bransfield Strait diatoms suggests a physiological stance towards acquisition of reduced N-sources. The depletion of carbohydrate and energy metabolism pathways in sea ice relative to pelagic communities, together with increased light energy dissipation (via LHCSR proteins), photorespiration, and NO3 - uptake and utilization all pointed to irradiance stress and/or inorganic carbon limitation within sea ice. Ice-binding proteins and cold-shock transcription factors were also enriched in sea ice diatoms. Surprisingly, the abundance of gene transcripts for the translational machinery tracked decreasing environmental temperature across only a 4 °C range, possibly reflecting constraints on translational efficiency and protein production in cold environments. © 2015 International Society for Microbial Ecology All rights reserved.
KAUST Department:
Red Sea Research Center (RSRC)
Citation:
Pearson GA, Lago-Leston A, Cánovas F, Cox CJ, Verret F, et al. (2015) Metatranscriptomes reveal functional variation in diatom communities from the Antarctic Peninsula. ISME J 9: 2275–2289. Available: http://dx.doi.org/10.1038/ismej.2015.40.
Publisher:
Nature Publishing Group
Journal:
The ISME Journal
Issue Date:
14-Apr-2015
DOI:
10.1038/ismej.2015.40
PubMed ID:
25871931
PubMed Central ID:
PMC4579479
Type:
Article
ISSN:
1751-7362; 1751-7370
Appears in Collections:
Articles; Red Sea Research Center (RSRC)

Full metadata record

DC FieldValue Language
dc.contributor.authorPearson, Gareth Aen
dc.contributor.authorLago-Leston, Asuncionen
dc.contributor.authorCánovas, Fernandoen
dc.contributor.authorCox, Cymon Jen
dc.contributor.authorVerret, Fredericen
dc.contributor.authorLasternas, Sebastianen
dc.contributor.authorDuarte, Carlos M.en
dc.contributor.authorAgusti, Susanaen
dc.contributor.authorSerrão, Ester Aen
dc.date.accessioned2016-01-19T13:22:01Zen
dc.date.available2016-01-19T13:22:01Zen
dc.date.issued2015-04-14en
dc.identifier.citationPearson GA, Lago-Leston A, Cánovas F, Cox CJ, Verret F, et al. (2015) Metatranscriptomes reveal functional variation in diatom communities from the Antarctic Peninsula. ISME J 9: 2275–2289. Available: http://dx.doi.org/10.1038/ismej.2015.40.en
dc.identifier.issn1751-7362en
dc.identifier.issn1751-7370en
dc.identifier.pmid25871931en
dc.identifier.doi10.1038/ismej.2015.40en
dc.identifier.urihttp://hdl.handle.net/10754/594118en
dc.description.abstractFunctional genomics of diatom-dominated communities fromthe Antarctic Peninsula was studied using comparative metatranscriptomics. Samples obtained from diatom-rich communities in the Bransfield Strait, the western Weddell Sea and sea ice in the Bellingshausen Sea/Wilkins Ice Shelf yielded more than 500K pyrosequencing reads that were combined to produce a global metatranscriptome assembly. Multi-gene phylogenies recovered three distinct communities, and diatom-assigned contigs further indicated little read-sharing between communities, validating an assembly-based annotation and analysis approach. Although functional analysis recovered a core of abundant shared annotations that were expressed across the three diatom communities, over 40% of annotations (but accounting for <10% of sequences) were community-specific. The two pelagic communities differed in their expression of N-metabolism and acquisition genes, which was almost absent in post-bloom conditions in the Weddell Sea community, while enrichment of transporters for ammonia and urea in Bransfield Strait diatoms suggests a physiological stance towards acquisition of reduced N-sources. The depletion of carbohydrate and energy metabolism pathways in sea ice relative to pelagic communities, together with increased light energy dissipation (via LHCSR proteins), photorespiration, and NO3 - uptake and utilization all pointed to irradiance stress and/or inorganic carbon limitation within sea ice. Ice-binding proteins and cold-shock transcription factors were also enriched in sea ice diatoms. Surprisingly, the abundance of gene transcripts for the translational machinery tracked decreasing environmental temperature across only a 4 °C range, possibly reflecting constraints on translational efficiency and protein production in cold environments. © 2015 International Society for Microbial Ecology All rights reserved.en
dc.publisherNature Publishing Groupen
dc.titleMetatranscriptomes reveal functional variation in diatom communities from the Antarctic Peninsulaen
dc.typeArticleen
dc.contributor.departmentRed Sea Research Center (RSRC)en
dc.identifier.journalThe ISME Journalen
dc.identifier.pmcidPMC4579479en
dc.contributor.institutionCentre of Marine Sciences, University of the Algarve, Faro, Portugalen
dc.contributor.institutionInstitute of Molecular Biology and Biotechnology, Foundation for Research and Technology-Hellas, Crete, Greeceen
dc.contributor.institutionGlobal Change Department, IMEDEA (CSIC-UIB), Instituto Mediterráneo de Estudios Avanzados, Esporles, Mallorca, Spainen
kaust.authorDuarte, Carlos M.en
kaust.authorAgusti, Susanaen

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