• Login
    View Item 
    •   Home
    • Research
    • Datasets
    • View Item
    •   Home
    • Research
    • Datasets
    • View Item
    JavaScript is disabled for your browser. Some features of this site may not work without it.

    Browse

    All of KAUSTCommunitiesIssue DateSubmit DateThis CollectionIssue DateSubmit Date

    My Account

    Login

    Quick Links

    Open Access PolicyORCID LibguideTheses and Dissertations LibguideSubmit an Item

    Statistics

    Display statistics

    Seawater carbonate chemistry and gene expression of a reef fish Acanthochromis polyacanthus, supplement to: Schunter, Celia; Welch, Megan J; Nilsson, Göran E; Rummer, Jodie L; Munday, Philip L; Ravasi, Timothy (2018): An interplay between plasticity and parental phenotype determines impacts of ocean acidification on a reef fish. Nature Ecology & Evolution, 2(2), 334-342

    • CSV
    • RefMan
    • EndNote
    • BibTex
    • RefWorks
    Type
    Dataset
    Authors
    Schunter, Celia Marei cc
    Welch, Megan J.
    Nilsson, Göran E.
    Rummer, Jodie L.
    Munday, Philip L.
    Ravasi, Timothy cc
    KAUST Department
    Biological and Environmental Sciences and Engineering (BESE) Division
    Bioscience Program
    Integrative Systems Biology Lab
    Date
    2019
    Permanent link to this record
    http://hdl.handle.net/10754/663946
    
    Metadata
    Show full item record
    Abstract
    The impacts of ocean acidification will depend on the ability of marine organisms to tolerate, acclimate and eventually adapt to changes in ocean chemistry. Here, we use a unique transgenerational experiment to determine the molecular response of a coral reef fish to short-term, developmental and transgenerational exposure to elevated CO2, and to test how these responses are influenced by variations in tolerance to elevated CO2 exhibited by the parents. Within-generation responses in gene expression to end-of-century predicted CO2 levels indicate that a self-amplifying cycle in GABAergic neurotransmission is triggered, explaining previously reported neurological and behavioural impairments. Furthermore, epigenetic regulator genes exhibited a within-generation specific response, but with some divergence due to parental phenotype. Importantly, we find that altered gene expression for the majority of within-generation responses returns to baseline levels following parental exposure to elevated CO2 conditions. Our results show that both parental variation in tolerance and cross-generation exposure to elevated CO2 are crucial factors in determining the response of reef fish to changing ocean chemistry.
    Citation
    Schunter, C., Welch, M. J., Nilsson, G. E., Rummer, J. L., Munday, P. L., & Ravasi, T. (2019). Seawater carbonate chemistry and gene expression of a reef fish Acanthochromis polyacanthus, supplement to: Schunter, Celia; Welch, Megan J; Nilsson, Göran E; Rummer, Jodie L; Munday, Philip L; Ravasi, Timothy (2018): An interplay between plasticity and parental phenotype determines impacts of ocean acidification on a reef fish. Nature Ecology & Evolution, 2(2), 334-342 [Data set]. PANGAEA - Data Publisher for Earth & Environmental Science. https://doi.org/10.1594/PANGAEA.900202
    Publisher
    PANGAEA - Data Publisher for Earth & Environmental Science
    DOI
    10.1594/pangaea.900202
    Relations
    Is Supplement To:
    • [Article]
      Schunter C, Welch MJ, Nilsson GE, Rummer JL, Munday PL, et al. (2017) An interplay between plasticity and parental phenotype determines impacts of ocean acidification on a reef fish. Nature Ecology & Evolution. Available: http://dx.doi.org/10.1038/s41559-017-0428-8.. DOI: 10.1038/s41559-017-0428-8 HANDLE: 10754/626399
    ae974a485f413a2113503eed53cd6c53
    10.1594/pangaea.900202
    Scopus Count
    Collections
    Biological and Environmental Science and Engineering (BESE) Division; Bioscience Program; Integrative Systems Biology Lab; Datasets

    entitlement

     

    Related items

    Showing items related by title, author, creator and subject.

    • Thumbnail

      Calcification Accretion Units (CAUS): A standardized approach for quantifying recruitment and calcium carbonate accretion in marine habitats

      Johnson, Maggie D.; Price, Nichole N; Smith, Jennifer E (Methods in Ecology and Evolution, Wiley, 2022-04-11) [Article]
      1. Standardized metrics that quantify a component of ecosystem functioning are essential for evaluating the current status of coastal marine habitats and for monitoring how ecologically important ecosystems are changing in response to global and local environmental change. Calcification Accretion Units (CAUs) are a standardized tool for quantifying net calcium carbonate accretion, early successional community structure, recruitment of algae and sessile invertebrates, and other response metrics that can be determined from image analyses in coastal marine habitats. 2. CAUs are comprised of paired settlement tiles that are separated by a spacer. This design mimics the presence of different representative habitats that are common in most marine systems such as exposed benthic surfaces, cryptic spaces inaccessible to grazers, and shaded overhangings. The protected space between the tiles facilitates recruitment and inclusion of cryptic taxa in community assemblage estimates. After a period of deployment, CAUs are photographed for image analysis and then decalcified to quantify calcium carbonate accretion rates. 3. The CAU methodology provides a cost-effective, standardized protocol for evaluating structure and function in marine benthic habitats. We show illustrate how CAU data can be used to compare accretion rates and the relative proportion of carbonate polymorphs in ecosystems across the globe. 4. Here we provide a comprehensive standard operating procedure for building, deploying, and processing CAUs, to ensure that a consistent protocol is used for accurate data collection and cross-system comparative studies.
    • Thumbnail

      Deviations from Vegard’s law in ternary III-V alloys

      Murphy, S. T.; Chroneos, Alexander; Grimes, R. W.; Jiang, C.; Schwingenschlögl, Udo (Physical Review B, American Physical Society (APS), 2010-08-03) [Article]
      Vegard’s law states that, at a constant temperature, the volume of an alloy can be determined from a linear interpolation of its constituent’s volumes. Deviations from this description occur such that volumes are both greater and smaller than the linear relationship would predict. Here we use special quasirandom structures and density functional theory to investigate such deviations for MxN1−xAs ternary alloys, where M and N are group III species (B, Al, Ga, and In). Our simulations predict a tendency, with the exception of AlxGa1−xAs, for the volume of the ternary alloys to be smaller than that determined from the linear interpolation of the volumes of the MAs and BAs binary alloys. Importantly, we establish a simple relationship linking the relative size of the group III atoms in the alloy and the predicted magnitude of the deviation from Vegard’s law.
    • Thumbnail

      Codon Deviation Coefficient: A novel measure for estimating codon usage bias and its statistical significance

      Zhang, Zhang; Li, Jun; Cui, Peng; Ding, Feng; Li, Ang; Townsend, Jeffrey P; Yu, Jun (BMC Bioinformatics, Springer Nature, 2012-03-23) [Article]
      Background: Genetic mutation, selective pressure for translational efficiency and accuracy, level of gene expression, and protein function through natural selection are all believed to lead to codon usage bias (CUB). Therefore, informative measurement of CUB is of fundamental importance to making inferences regarding gene function and genome evolution. However, extant measures of CUB have not fully accounted for the quantitative effect of background nucleotide composition and have not statistically evaluated the significance of CUB in sequence analysis.Results: Here we propose a novel measure--Codon Deviation Coefficient (CDC)--that provides an informative measurement of CUB and its statistical significance without requiring any prior knowledge. Unlike previous measures, CDC estimates CUB by accounting for background nucleotide compositions tailored to codon positions and adopts the bootstrapping to assess the statistical significance of CUB for any given sequence. We evaluate CDC by examining its effectiveness on simulated sequences and empirical data and show that CDC outperforms extant measures by achieving a more informative estimation of CUB and its statistical significance.Conclusions: As validated by both simulated and empirical data, CDC provides a highly informative quantification of CUB and its statistical significance, useful for determining comparative magnitudes and patterns of biased codon usage for genes or genomes with diverse sequence compositions. 2012 Zhang et al; licensee BioMed Central Ltd.
    DSpace software copyright © 2002-2023  DuraSpace
    Quick Guide | Contact Us | KAUST University Library
    Open Repository is a service hosted by 
    Atmire NV
     

    Export search results

    The export option will allow you to export the current search results of the entered query to a file. Different formats are available for download. To export the items, click on the button corresponding with the preferred download format.

    By default, clicking on the export buttons will result in a download of the allowed maximum amount of items. For anonymous users the allowed maximum amount is 50 search results.

    To select a subset of the search results, click "Selective Export" button and make a selection of the items you want to export. The amount of items that can be exported at once is similarly restricted as the full export.

    After making a selection, click one of the export format buttons. The amount of items that will be exported is indicated in the bubble next to export format.