Data

Genome-wide SNP analysis reveals an increase in adaptive genetic variation through selective breeding of coral

Australian Institute of Marine Science
Australian Institute of Marine Science (AIMS)
Viewed: [[ro.stat.viewed]] Cited: [[ro.stat.cited]] Accessed: [[ro.stat.accessed]]
ctx_ver=Z39.88-2004&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Adc&rfr_id=info%3Asid%2FANDS&rft_id=https://apps.aims.gov.au/metadata/view/88c8f62f-9e4b-432d-a719-af3d52c18ce2&rft.title=Genome-wide SNP analysis reveals an increase in adaptive genetic variation through selective breeding of coral&rft.identifier=https://apps.aims.gov.au/metadata/view/88c8f62f-9e4b-432d-a719-af3d52c18ce2&rft.publisher=Australian Institute of Marine Science (AIMS)&rft.description=This study combined phenotypic, pedigree, and genomic marker data from colonies sourced from a warm reef on the Great Barrier Reef reproductively crossed with conspecific colonies from a cooler reef to produce combinations of warm purebreds and warm-cool hybrid larvae and juveniles.Corals of the species Acropora spathulata were collected from one reef in the far north of the Great Barrier Reef (Tijou) and one reef in the central GBR (Backnumbers). During spawning, the eggs and sperm were separated and then mixed, resulting in larvae from 30 distinct familial crosses. These crosses include three produced from two parents sourced from the warm far northern reef (WW1, WW2, WW3), one cross with a warm dam and cool sire (WC) and one with a cool dam and warm sire (CW).This study focused on the five familial crosses sequenced at both the larval stage (27.5°C) and the juvenile stage (27.5°C and 31°C). Aposymbiotic juveniles were infected with Symbiodinium tridacnidorum, Cladocopium goreaui, and Durusdinium trenchii with cultured material obtained from the AIMS Symbiont Culture Facility. Full details of the collection, environmental parameters of each location, permits, spawning, larval and juvenile rearing, and symbiosis establishment can be found in Quigley et al. (2020)Individual larvae were genotyped (total n = 68) across five families representing three population crosses (n = WW: 34, WC: 15, CW: 19).Statistical analysis of SNP metrics were conducted in R, along with modelling SNP frequency distributions. Full details are in the linked paper, Quigley, Bay and van Oppen (2020).Maintenance and Update Frequency: notPlannedStatement: For details of the collection, environmental parameters of each location, permits, spawning, larval and juvenile rearing, and symbiosis establishment can be found in: Quigley, K. M., Randall, C. J., van Oppen, M. J. H., & Bay, L. K. (2020). Assessing the role of historical temperature regime and algal symbionts on the heat tolerance of coral juveniles. Biology Open, 9(1), bio047316. https://doi.org/10.1242/bio.047316&rft.creator=Australian Institute of Marine Science (AIMS) &rft.date=2026&rft.coverage=westlimit=143.93639576083868; southlimit=-13.09565865779968; eastlimit=143.93639576083868; northlimit=-13.09565865779968&rft.coverage=westlimit=143.93639576083868; southlimit=-13.09565865779968; eastlimit=143.93639576083868; northlimit=-13.09565865779968&rft.coverage=westlimit=147.1639254542382; southlimit=-18.480915578641124; eastlimit=147.1639254542382; northlimit=-18.480915578641124&rft.coverage=westlimit=147.1639254542382; southlimit=-18.480915578641124; eastlimit=147.1639254542382; northlimit=-18.480915578641124&rft_rights=Creative Commons Attribution 3.0 Australia License http://creativecommons.org/licenses/by/3.0/au/&rft_rights=Use Limitation: All AIMS data, products and services are provided as is and AIMS does not warrant their fitness for a particular purpose or non-infringement. While AIMS has made every reasonable effort to ensure high quality of the data, products and services, to the extent permitted by law the data, products and services are provided without any warranties of any kind, either expressed or implied, including without limitation any implied warranties of title, merchantability, and fitness for a particular purpose or non-infringement. AIMS make no representation or warranty that the data, products and services are accurate, complete, reliable or current. To the extent permitted by law, AIMS exclude all liability to any person arising directly or indirectly from the use of the data, products and services.&rft_rights=Attribution: Format for citation of metadata sourced from Australian Institute of Marine Science (AIMS) in a list of reference is as follows: Australian Institute of Marine Science (AIMS). (2022). Genome-wide SNP analysis reveals an increase in adaptive genetic variation through selective breeding of coral. https://apps.aims.gov.au/metadata/view/88c8f62f-9e4b-432d-a719-af3d52c18ce2, accessed[date-of-access].&rft_subject=oceans&rft.type=dataset&rft.language=English Access the data
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Creative Commons Attribution 3.0 Australia License
http://creativecommons.org/licenses/by/3.0/au/

Use Limitation: All AIMS data, products and services are provided "as is" and AIMS does not warrant their fitness for a particular purpose or non-infringement. While AIMS has made every reasonable effort to ensure high quality of the data, products and services, to the extent permitted by law the data, products and services are provided without any warranties of any kind, either expressed or implied, including without limitation any implied warranties of title, merchantability, and fitness for a particular purpose or non-infringement. AIMS make no representation or warranty that the data, products and services are accurate, complete, reliable or current. To the extent permitted by law, AIMS exclude all liability to any person arising directly or indirectly from the use of the data, products and services.

Attribution: Format for citation of metadata sourced from Australian Institute of Marine Science (AIMS) in a list of reference is as follows: "Australian Institute of Marine Science (AIMS). (2022). Genome-wide SNP analysis reveals an increase in adaptive genetic variation through selective breeding of coral. https://apps.aims.gov.au/metadata/view/88c8f62f-9e4b-432d-a719-af3d52c18ce2, accessed[date-of-access]".

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This study combined phenotypic, pedigree, and genomic marker data from colonies sourced from a warm reef on the Great Barrier Reef reproductively crossed with conspecific colonies from a cooler reef to produce combinations of warm purebreds and warm-cool hybrid larvae and juveniles.


Corals of the species Acropora spathulata were collected from one reef in the far north of the Great Barrier Reef (Tijou) and one reef in the central GBR (Backnumbers). During spawning, the eggs and sperm were separated and then mixed, resulting in larvae from 30 distinct familial crosses. These crosses include three produced from two parents sourced from the warm far northern reef (WW1, WW2, WW3), one cross with a warm dam and cool sire (WC) and one with a cool dam and warm sire (CW).


This study focused on the five familial crosses sequenced at both the larval stage (27.5°C) and the juvenile stage (27.5°C and 31°C). Aposymbiotic juveniles were infected with Symbiodinium tridacnidorum, Cladocopium goreaui, and Durusdinium trenchii with cultured material obtained from the AIMS Symbiont Culture Facility. Full details of the collection, environmental parameters of each location, permits, spawning, larval and juvenile rearing, and symbiosis establishment can be found in Quigley et al. (2020)


Individual larvae were genotyped (total n = 68) across five families representing three population crosses (n = WW: 34, WC: 15, CW: 19).


Statistical analysis of SNP metrics were conducted in R, along with modelling SNP frequency distributions. Full details are in the linked paper, Quigley, Bay and van Oppen (2020).

Lineage

Maintenance and Update Frequency: notPlanned
Statement: For details of the collection, environmental parameters of each location, permits, spawning, larval and juvenile rearing, and symbiosis establishment can be found in: Quigley, K. M., Randall, C. J., van Oppen, M. J. H., & Bay, L. K. (2020). Assessing the role of historical temperature regime and algal symbionts on the heat tolerance of coral juveniles. Biology Open, 9(1), bio047316. https://doi.org/10.1242/bio.047316

Notes

Credit
van Oppen, M j h. (AIMS) & University of Melbourne, Vic.
Credit
Bay, L. (AIMS)
Credit
Quigley, K. Australian Institute of Marine Science (AIMS)

Modified: 18 09 2026

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143.9364,-13.09566

143.93639576084,-13.0956586578

147.16393,-18.48092

147.16392545424,-18.480915578641

text: westlimit=143.93639576083868; southlimit=-13.09565865779968; eastlimit=143.93639576083868; northlimit=-13.09565865779968

text: westlimit=147.1639254542382; southlimit=-18.480915578641124; eastlimit=147.1639254542382; northlimit=-18.480915578641124

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Other Information
GitHub Repository - Genome-wide-SNP-analysis

url : https://github.com/LaserKate/Genome-wide-SNP-analysis-reveals-an-increase-in-adaptive-genetic-variation-through-selective-breedin

Quigley, K. M., Bay, L. K., & van Oppen, M. J. H. (2020). Genome-wide SNP analysis reveals an increase in adaptive genetic variation through selective breeding of coral. Molecular Ecology, 29(12), 2176–2188. https://doi.org/10.1111/mec.15482

doi : https://doi.org/10.1111/mec.15482

Identifiers
  • global : 88c8f62f-9e4b-432d-a719-af3d52c18ce2
ACN 633 798 857