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Coral microbiome dynamics, functions and design in a changing world.

van Oppen MJH, Blackall LL.

Nat Rev Microbiol. 2019 Jul 1. doi: 10.1038/s41579-019-0223-4. [Epub ahead of print] Review.


Scientists' warning to humanity: microorganisms and climate change.

Cavicchioli R, Ripple WJ, Timmis KN, Azam F, Bakken LR, Baylis M, Behrenfeld MJ, Boetius A, Boyd PW, Classen AT, Crowther TW, Danovaro R, Foreman CM, Huisman J, Hutchins DA, Jansson JK, Karl DM, Koskella B, Mark Welch DB, Martiny JBH, Moran MA, Orphan VJ, Reay DS, Remais JV, Rich VI, Singh BK, Stein LY, Stewart FJ, Sullivan MB, van Oppen MJH, Weaver SC, Webb EA, Webster NS.

Nat Rev Microbiol. 2019 Jun 18. doi: 10.1038/s41579-019-0222-5. [Epub ahead of print] Review.


Interspecific gamete compatibility and hybrid larval fitness in reef-building corals: Implications for coral reef restoration.

Chan WY, Peplow LM, van Oppen MJH.

Sci Rep. 2019 Mar 18;9(1):4757. doi: 10.1038/s41598-019-41190-5.


Thermal and Herbicide Tolerances of Chromerid Algae and Their Ability to Form a Symbiosis With Corals.

Chakravarti LJ, Negri AP, van Oppen MJH.

Front Microbiol. 2019 Feb 12;10:173. doi: 10.3389/fmicb.2019.00173. eCollection 2019.


Parental and early life stage environments drive establishment of bacterial and dinoflagellate communities in a common coral.

Epstein HE, Torda G, Munday PL, van Oppen MJH.

ISME J. 2019 Jun;13(6):1635-1638. doi: 10.1038/s41396-019-0358-3. Epub 2019 Jan 31.


Correction: Some Rare Indo-Pacific Coral Species Are Probable Hybrids.

Richards ZT, van Oppen MJH, Wallace CC, Willis BL, Miller DJ.

PLoS One. 2019 Jan 25;14(1):e0211527. doi: 10.1371/journal.pone.0211527. eCollection 2019.


Novel T4 bacteriophages associated with black band disease in corals.

Buerger P, Weynberg KD, Wood-Charlson EM, Sato Y, Willis BL, van Oppen MJH.

Environ Microbiol. 2019 Jun;21(6):1969-1979. doi: 10.1111/1462-2920.14432. Epub 2018 Nov 12.


Erratum: Publisher Correction: Symbiodinium genomes reveal adaptive evolution of functions related to coral-dinoflagellate symbiosis.

Liu H, Stephens TG, González-Pech RA, Beltran VH, Lapeyre B, Bongaerts P, Cooke I, Aranda M, Bourne DG, Forêt S, Miller DJ, van Oppen MJH, Voolstra CR, Ragan MA, Chan CX.

Commun Biol. 2018 Aug 23;1:126. doi: 10.1038/s42003-018-0117-4. eCollection 2018.


Symbiodinium genomes reveal adaptive evolution of functions related to coral-dinoflagellate symbiosis.

Liu H, Stephens TG, González-Pech RA, Beltran VH, Lapeyre B, Bongaerts P, Cooke I, Aranda M, Bourne DG, Forêt S, Miller DJ, van Oppen MJH, Voolstra CR, Ragan MA, Chan CX.

Commun Biol. 2018 Jul 17;1:95. doi: 10.1038/s42003-018-0098-3. eCollection 2018. Erratum in: Commun Biol. 2018 Aug 23;1:126.


Adaptation to reef habitats through selection on the coral animal and its associated microbiome.

van Oppen MJH, Bongaerts P, Frade P, Peplow LM, Boyd SE, Nim HT, Bay LK.

Mol Ecol. 2018 Jul;27(14):2956-2971. doi: 10.1111/mec.14763. Epub 2018 Jun 30.


Reef invertebrate viromics: diversity, host specificity and functional capacity.

Laffy PW, Wood-Charlson EM, Turaev D, Jutz S, Pascelli C, Botté ES, Bell SC, Peirce TE, Weynberg KD, van Oppen MJH, Rattei T, Webster NS.

Environ Microbiol. 2018 Jun;20(6):2125-2141. doi: 10.1111/1462-2920.14110. Epub 2018 Apr 30.


Antimicrobial and stress responses to increased temperature and bacterial pathogen challenge in the holobiont of a reef-building coral.

van de Water JAJM, Chaib De Mares M, Dixon GB, Raina JB, Willis BL, Bourne DG, van Oppen MJH.

Mol Ecol. 2018 Feb;27(4):1065-1080. doi: 10.1111/mec.14489. Epub 2018 Feb 14.


New interventions are needed to save coral reefs.

Anthony K, Bay LK, Costanza R, Firn J, Gunn J, Harrison P, Heyward A, Lundgren P, Mead D, Moore T, Mumby PJ, van Oppen MJH, Robertson J, Runge MC, Suggett DJ, Schaffelke B, Wachenfeld D, Walshe T.

Nat Ecol Evol. 2017 Oct;1(10):1420-1422. doi: 10.1038/s41559-017-0313-5. No abstract available.


Coral-associated viral communities show high levels of diversity and host auxiliary functions.

Weynberg KD, Laffy PW, Wood-Charlson EM, Turaev D, Rattei T, Webster NS, van Oppen MJH.

PeerJ. 2017 Nov 17;5:e4054. doi: 10.7717/peerj.4054. eCollection 2017.


Producing Coral Offspring with Cryopreserved Sperm: A Tool for Coral Reef Restoration.

Hagedorn M, Carter VL, Henley EM, van Oppen MJH, Hobbs R, Spindler RE.

Sci Rep. 2017 Oct 31;7(1):14432. doi: 10.1038/s41598-017-14644-x.


Highly structured prokaryote communities exist within the skeleton of coral colonies.

Marcelino VR, van Oppen MJ, Verbruggen H.

ISME J. 2018 Jan;12(1):300-303. doi: 10.1038/ismej.2017.164. Epub 2017 Oct 20.


A PCR-Based Assay Targeting the Major Capsid Protein Gene of a Dinorna-Like ssRNA Virus That Infects Coral Photosymbionts.

Montalvo-Proaño J, Buerger P, Weynberg KD, van Oppen MJH.

Front Microbiol. 2017 Sep 1;8:1665. doi: 10.3389/fmicb.2017.01665. eCollection 2017.


Diversity and stability of coral endolithic microbial communities at a naturally high pCO2 reef.

Marcelino VR, Morrow KM, van Oppen MJH, Bourne DG, Verbruggen H.

Mol Ecol. 2017 Oct;26(19):5344-5357. doi: 10.1111/mec.14268. Epub 2017 Aug 24.


Engineering Strategies to Decode and Enhance the Genomes of Coral Symbionts.

Levin RA, Voolstra CR, Agrawal S, Steinberg PD, Suggett DJ, van Oppen MJH.

Front Microbiol. 2017 Jun 30;8:1220. doi: 10.3389/fmicb.2017.01220. eCollection 2017.


The contribution of microbial biotechnology to mitigating coral reef degradation.

Damjanovic K, Blackall LL, Webster NS, van Oppen MJH.

Microb Biotechnol. 2017 Sep;10(5):1236-1243. doi: 10.1111/1751-7915.12769. Epub 2017 Jul 11.


Rapid thermal adaptation in photosymbionts of reef-building corals.

Chakravarti LJ, Beltran VH, van Oppen MJH.

Glob Chang Biol. 2017 Nov;23(11):4675-4688. doi: 10.1111/gcb.13702. Epub 2017 Apr 27.


Shifting paradigms in restoration of the world's coral reefs.

van Oppen MJH, Gates RD, Blackall LL, Cantin N, Chakravarti LJ, Chan WY, Cormick C, Crean A, Damjanovic K, Epstein H, Harrison PL, Jones TA, Miller M, Pears RJ, Peplow LM, Raftos DA, Schaffelke B, Stewart K, Torda G, Wachenfeld D, Weeks AR, Putnam HM.

Glob Chang Biol. 2017 Sep;23(9):3437-3448. doi: 10.1111/gcb.13647. Epub 2017 Mar 1. Review.


Expanding the Symbiodinium (Dinophyceae, Suessiales) Toolkit Through Protoplast Technology.

Levin RA, Suggett DJ, Nitschke MR, van Oppen MJH, Steinberg PD.

J Eukaryot Microbiol. 2017 Sep;64(5):588-597. doi: 10.1111/jeu.12393. Epub 2017 Feb 21.


CRISPR-Cas Defense System and Potential Prophages in Cyanobacteria Associated with the Coral Black Band Disease.

Buerger P, Wood-Charlson EM, Weynberg KD, Willis BL, van Oppen MJ.

Front Microbiol. 2016 Dec 22;7:2077. doi: 10.3389/fmicb.2016.02077. eCollection 2016.


Evidence for a role of viruses in the thermal sensitivity of coral photosymbionts.

Levin RA, Voolstra CR, Weynberg KD, van Oppen MJ.

ISME J. 2017 Mar;11(3):808-812. doi: 10.1038/ismej.2016.154. Epub 2016 Dec 2.


Exploring the Symbiodinium rare biosphere provides evidence for symbiont switching in reef-building corals.

Boulotte NM, Dalton SJ, Carroll AG, Harrison PL, Putnam HM, Peplow LM, van Oppen MJ.

ISME J. 2016 Nov;10(11):2693-2701. doi: 10.1038/ismej.2016.54. Epub 2016 Apr 19.


Sex, Scavengers, and Chaperones: Transcriptome Secrets of Divergent Symbiodinium Thermal Tolerances.

Levin RA, Beltran VH, Hill R, Kjelleberg S, McDougald D, Steinberg PD, van Oppen MJ.

Mol Biol Evol. 2016 Nov;33(11):3032. No abstract available.


Genetic markers for antioxidant capacity in a reef-building coral.

Jin YK, Lundgren P, Lutz A, Raina JB, Howells EJ, Paley AS, Willis BL, van Oppen MJ.

Sci Adv. 2016 May 13;2(5):e1500842. doi: 10.1126/sciadv.1500842. eCollection 2016 May.


HoloVir: A Workflow for Investigating the Diversity and Function of Viruses in Invertebrate Holobionts.

Laffy PW, Wood-Charlson EM, Turaev D, Weynberg KD, Botté ES, van Oppen MJ, Webster NS, Rattei T.

Front Microbiol. 2016 Jun 9;7:822. doi: 10.3389/fmicb.2016.00822. eCollection 2016.


Genetic, morphological and growth characterisation of a new Roseofilum strain (Oscillatoriales, Cyanobacteria) associated with coral black band disease.

Buerger P, Alvarez-Roa C, Weynberg KD, Baekelandt S, van Oppen MJ.

PeerJ. 2016 Jun 9;4:e2110. doi: 10.7717/peerj.2110. eCollection 2016.


Sex, Scavengers, and Chaperones: Transcriptome Secrets of Divergent Symbiodinium Thermal Tolerances.

Levin RA, Beltran VH, Hill R, Kjelleberg S, McDougald D, Steinberg PD, van Oppen MJ.

Mol Biol Evol. 2016 Sep;33(9):2201-15. doi: 10.1093/molbev/msw119. Epub 2016 Jun 14. Erratum in: Mol Biol Evol. 2016 Nov;33(11):3032.


Microsatellite allele sizes alone are insufficient to delineate species boundaries in Symbiodinium.

Howells EJ, Willis BL, Bay LK, van Oppen MJ.

Mol Ecol. 2016 Jun;25(12):2719-23. doi: 10.1111/mec.13631. Epub 2016 May 18.


Congruent patterns of connectivity can inform management for broadcast spawning corals on the Great Barrier Reef.

Lukoschek V, Riginos C, van Oppen MJ.

Mol Ecol. 2016 Jul;25(13):3065-80. doi: 10.1111/mec.13649. Epub 2016 May 15.


Sperm dispersal distances estimated by parentage analysis in a brooding scleractinian coral.

Warner PA, Willis BL, van Oppen MJ.

Mol Ecol. 2016 Mar;25(6):1398-415. doi: 10.1111/mec.13553. Epub 2016 Mar 6.


From cholera to corals: Viruses as drivers of virulence in a major coral bacterial pathogen.

Weynberg KD, Voolstra CR, Neave MJ, Buerger P, van Oppen MJ.

Sci Rep. 2015 Dec 8;5:17889. doi: 10.1038/srep17889.


Host Coenzyme Q Redox State Is an Early Biomarker of Thermal Stress in the Coral Acropora millepora.

Lutz A, Raina JB, Motti CA, Miller DJ, van Oppen MJ.

PLoS One. 2015 Oct 1;10(10):e0139290. doi: 10.1371/journal.pone.0139290. eCollection 2015.


Coral-the world's most diverse symbiotic ecosystem.

Blackall LL, Wilson B, van Oppen MJ.

Mol Ecol. 2015 Nov;24(21):5330-47. doi: 10.1111/mec.13400. Epub 2015 Oct 21. Review.


A population genetic assessment of coral recovery on highly disturbed reefs of the Keppel Island archipelago in the southern Great Barrier Reef.

van Oppen MJ, Lukoschek V, Berkelmans R, Peplow LM, Jones AM.

PeerJ. 2015 Jul 23;3:e1092. doi: 10.7717/peerj.1092. eCollection 2015.


The coral immune response facilitates protection against microbes during tissue regeneration.

van de Water JA, Ainsworth TD, Leggat W, Bourne DG, Willis BL, van Oppen MJ.

Mol Ecol. 2015 Jul;24(13):3390-404. doi: 10.1111/mec.13257. Epub 2015 Jun 19.


Quantitative high resolution melting: two methods to determine SNP allele frequencies from pooled samples.

Capper RL, Jin YK, Lundgren PB, Peplow LM, Matz MV, van Oppen MJ.

BMC Genet. 2015 Jun 13;16:62. doi: 10.1186/s12863-015-0222-z.


Unexpected cryptic species diversity in the widespread coral Seriatopora hystrix masks spatial-genetic patterns of connectivity.

Warner PA, van Oppen MJ, Willis BL.

Mol Ecol. 2015 Jun;24(12):2993-3008. doi: 10.1111/mec.13225.


Intra-genomic variation in symbiotic dinoflagellates: recent divergence or recombination between lineages?

Wilkinson SP, Fisher PL, van Oppen MJ, Davy SK.

BMC Evol Biol. 2015 Mar 14;15:46. doi: 10.1186/s12862-015-0325-1.


Metagenomic characterization of viral communities in corals: mining biological signal from methodological noise.

Wood-Charlson EM, Weynberg KD, Suttle CA, Roux S, van Oppen MJ.

Environ Microbiol. 2015 Oct;17(10):3440-9. doi: 10.1111/1462-2920.12803. Epub 2015 Mar 27. Review.


Building coral reef resilience through assisted evolution.

van Oppen MJ, Oliver JK, Putnam HM, Gates RD.

Proc Natl Acad Sci U S A. 2015 Feb 24;112(8):2307-13. doi: 10.1073/pnas.1422301112. Epub 2015 Feb 2.


Comparative immune responses of corals to stressors associated with offshore reef-based tourist platforms.

van de Water JA, Lamb JB, van Oppen MJ, Willis BL, Bourne DG.

Conserv Physiol. 2015 Jul 24;3(1):cov032. doi: 10.1093/conphys/cov032. eCollection 2015.


Persistence and change in community composition of reef corals through present, past, and future climates.

Edmunds PJ, Adjeroud M, Baskett ML, Baums IB, Budd AF, Carpenter RC, Fabina NS, Fan TY, Franklin EC, Gross K, Han X, Jacobson L, Klaus JS, McClanahan TR, O'Leary JK, van Oppen MJ, Pochon X, Putnam HM, Smith TB, Stat M, Sweatman H, van Woesik R, Gates RD.

PLoS One. 2014 Oct 1;9(10):e107525. doi: 10.1371/journal.pone.0107525. eCollection 2014.


Generating viral metagenomes from the coral holobiont.

Weynberg KD, Wood-Charlson EM, Suttle CA, van Oppen MJ.

Front Microbiol. 2014 May 7;5:206. doi: 10.3389/fmicb.2014.00206. eCollection 2014.


Revisiting the connectivity puzzle of the common coral Pocillopora damicornis.

Torda G, Lundgren P, Willis BL, van Oppen MJ.

Mol Ecol. 2013 Dec;22(23):5805-20. doi: 10.1111/mec.12540. Epub 2013 Nov 7.


Genetic assignment of recruits reveals short- and long-distance larval dispersal in Pocillopora damicornis on the Great Barrier Reef.

Torda G, Lundgren P, Willis BL, van Oppen MJ.

Mol Ecol. 2013 Dec;22(23):5821-34. doi: 10.1111/mec.12539. Epub 2013 Nov 8.


KEGG orthology-based annotation of the predicted proteome of Acropora digitifera: ZoophyteBase - an open access and searchable database of a coral genome.

Dunlap WC, Starcevic A, Baranasic D, Diminic J, Zucko J, Gacesa R, van Oppen MJ, Hranueli D, Cullum J, Long PF.

BMC Genomics. 2013 Jul 26;14:509. doi: 10.1186/1471-2164-14-509.

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