Research Data

The transcriptomic response of the coral Acropora digitifera to a competent Symbiodinium strain: the symbiosome as an arrested early phagosome

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General
Title
The transcriptomic response of the coral Acropora digitifera to a competent Symbiodinium strain: the symbiosome as an arrested early phagosome
Type
Dataset
Date Record Created
2017-11-21
Date Record Modified
2018-01-05
Language
English
Coverage
Date Coverage
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Time Period
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Geospatial Location
Description
Descriptions
  1. Type: full

    Data from the National Center for Biolotechnology Information, Gene Expression Omnibus GEO accession: GSE76976

    Organism: Acropora digitifera
    Experiment type: Expression profiling by high throughput sequencing
    Summary: Despite the ecological significance of the relationship between reef-building corals and intracellular photosynthetic dinoflagellates of the genus Symbiodinium, very little is known about the molecular mechanisms involved in the establishment of the relationship. Indeed, microarray-based analyses point to the conclusion that host gene expression is largely or completely unresponsive during the establishment of symbiosis with a competent strain of Symbiodinium. In the present study, the use of Illumina RNAseq technology allowed detection of a transient period of differential expression involving a small number of genes (1073 transcripts; <3% of the transcriptome) 4h after the exposure of Acropora digitifera planulae to a competent strain of Symbiodinium (a clade B strain). This phenomenon has not previously been detected as a consequence of both the lower sensitivity of the microarray approaches used and the sampling times used. The results imply that complex changes occur, including transient suppression of mitochondrial metabolism and protein synthesis, but are also consistent with the hypothesis that the symbiosome is a phagosome that has undergone early arrest, raising the possibility of common mechanisms in the symbiotic interactions of corals and symbiotic sea anemones with their endosymbionts.
         
    Overall design: There were 2 conditions (Symbiodinium-infected and control). Samples were taken at 3 time points, there were 3 replicates per condition. 16 samples were analysed comparing the Symbiodinium-infected samples to the control ones.

Related Publications
  1. Mohamed, A.R., Cumbo, V., Harii, S., Shinzato, C., Chan, C.X., Ragan, M.A., Bourne, D.G., Willis, B.L., Ball, E.E., Satoh, N., and Miller, D.J. (2016) The transcriptomic response of the coral Acropora digitifera to a competent Symbiodinium strain: the symbiosome as an arrested early phagosome. Molecular Ecology, 25 (13). pp. 3127-3141.
  2. Chapter 2 of PhD thesis: Transcriptomics of coral-algal interactions: novel insights into the establishment of symbiosis
    Accepted Version of Molecular Ecology paper included in PhD thesis; Open Access
Related Websites
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Related Data
  1. Part of: >> Acropora digitifera BioProject PRJNA309168
    • ID: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA309168 (EXTERNAL)
    • Publish to RDA: This related object (and relationship) is NOT being published to RDA.
  2. Has association with: >> Acropora digitifera RNA sequences
    • ID: https://www.ncbi.nlm.nih.gov/sra?linkname=bioproject_sra_all&from_uid=309168 (EXTERNAL)
    • Note(s): SRA Experiments (16)
    • Publish to RDA: This related object (and relationship) is NOT being published to RDA.
  3. Has association with: >> Acropora digitifera biosamples
    • ID: {missing: 'dc:identifier'}
    • Note(s): BioSamples (16)
Related Services
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Technical metadata
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People
Creators
  1. Managed by: Mr Amin Mohamed Esmail , amin.mohamedesmail@my.jcu.edu.au , ARC Centre of Excellence for Coral Reef Studies
  2. Associated with: Dr Vivian Cumbo , vivian.cumbo@jcu.edu.au , ARC Centre of Excellence for Coral Reef Studies, Marine Biology & Aquaculture
  3. Associated with: Prof Bette Willis , bette.willis@jcu.edu.au , ARC Centre of Excellence for Coral Reef Studies, Marine Biology & Aquaculture
  4. Associated with: Dr Eldon Ball , ARC Centre of Excellence for Coral Reef Studies
  5. Prof David Miller , david.miller@jcu.edu.au , ARC Centre of Excellence for Coral Reef Studies, Tropical Water & Ecosystems (TropWater), Comparative Genomics Centre
Primary Contact
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Supervisors
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Collaborators
  1. S. Harrii, University of Ryukyus, Japan
  2. C. Shinzato, Okinawa Institute of Science and Technology Promotion Corporation, Japan
  3. C.X. Chan, University of Queensland, Australia
  4. M.A. Ragan, University of Queensland, Australia
  5. D.G. Bourne, Australian Institute of Marine Science, Townsville, Queensland, Australia
  6. N. Satoh, Okinawa Institute of Science and Technology Promotion Corporation, Japan
Subject
Fields of Research
  1. 060405 - Gene Expression (incl. Microarray and other genome-wide approaches) (060405)
  2. 060205 - Marine and Estuarine Ecology (incl. Marine Ichthyology) (060205)
Socio-Economic Objective
  1. 970106 - Expanding Knowledge in the Biological Sciences (970106)
Keywords
  1. Acropora
  2. Symbiodinium
  3. symbiosome
  4. transcriptomics
  5. RNA-Seq
  6. transcriptome
  7. gene expression
  8. coral-algal symbiosis
  9. ARC Centre of Excellence for Coral Reef Studies
Research Activity
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Research Themes
Tropical Ecosystems, Conservation and Climate Change
Rights
License
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License - Other
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Access Rights/Conditions
NCBI places no restrictions on the use or distribution of data.
Type
open
Rights
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Data
Data Location
Online Locations
  1. https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE76976
Stored At
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Citation
Cite:
Mohamed, A.; Cumbo, V.; Harii, S.; Shinzato, C.; Chan, C.; Ragan, M.; Bourne, D.; Willis, Bette.; Ball, Eldon.; Satoh, N.; Miller, David. (2016). The transcriptomic response of the coral Acropora digitifera to a competent Symbiodinium strain: the symbiosome as an arrested early phagosome. James Cook University. (dataset). ae3edf304d5639d1851e35a0f108e164