David Miller
Projects
0
Publications
152
Awards
0
Teaching
Research Advisor Accreditation
Advisor Type
Mentor
Current JCU Research Students
Characterisation of host-specific bacterial symbionts of corals
Doctor of Philosophy (Medical, Molecular and Veterinary Sciences)
Characterization of the CpG methylation distribution and patterns in the mushroom coral Heliofungia actiniformis
Doctor of Philosophy (Medical, Molecular and Veterinary Sciences)
Host-microbial interaction during the coral Black Band Disease (BBD) progression
Doctor of Philosophy (Agriculture, Environmental and Related Studies)
Output
Mason, Benjamin M.; Koyanagi, Mitsumasa; Sugihara, Tomohiro; Iwasaki, Makoto; Slepak, Vladlen; Miller, David J.; Sakai, Yusuke; Terakita, Akihisa (2023) 'Multiple opsins in a reef-building coral, Acropora millepora'. Scientific Reports, 13 . [DOI]
Grinblat, Mila; Eyal-Shaham, Lee; Eyal, Gal; Ben-Zvi, Or; Harii, Saki; Morita, Masaya; Sakai, Kazuhiko; Hirose, Mamiko; Miller, David J.; Loya, Yossi (2023) 'Energy allocation trade-offs as a function of age in fungiid corals'. Frontiers in Marine Science, 10 . [DOI]
O'Brien, Paul A.; Tan, Shangjin; Frade, Pedro R.; Robbins, Steven J.; Engelberts, J. Pamela; Bell, Sara C.; Vanwonterghem, Inka; Miller, David J.; Webster, Nicole S.; Zhang, Guojie; Bourne, David G. (2023) 'Validation of key sponge symbiont pathways using genome-centric metatranscriptomics'. Environmental Microbiology, 25 (12):3207-3224. [DOI]
Cumming, Graeme S.; Adamska, Maja; Barnes, Michele L.; Barnett, Jon; Bellwood, David R.; Cinner, Joshua E.; Cohen, Philippa J.; Donelson, Jennifer M.; Fabricius, Katharina; Grafton, R. Quentin; Grech, Alana; Gurney, Georgina G.; Hoegh-Guldberg, Ove; Hoey, Andrew S.; Hoogenboom, Mia O.; Lau, Jacqueline; Lovelock, Catherine E.; Lowe, Ryan; Miller, David J.; Morrison, Tiffany H.; Mumby, Peter J.; Nakata, Martin; Pandolfi, John M.; Peterson, Garry D.; Pratchett, Morgan S.; Ravasi, Timothy; Riginos, Cynthia; Rummer, Jodie L.; Schaffelke, Britta; Wernberg, Thomas; Wilson, Shaun K. (2023) 'Research priorities for the sustainability of coral-rich western Pacific seascapes'. Regional Environmental Change, 23 (2). [DOI]
Horowitz, Jeremy; Quattrini, Andrea M.; Brugler, Mercer R.; Miller, David J.; Pahang, Kristina; Bridge, Tom C.L.; Cowman, Peter F. (2023) 'Bathymetric evolution of black corals through deep time'. Proceedings of the Royal Society of London Series B, Biological Sciences, 290 (2008). [DOI]
Xu, Jane; Mead, Oliver; Moya, Aurelie; Caglar, Cüneyt; Miller, David J.; Adamski, Marcin; Adamska, Maja (2023) 'Wound healing and regeneration in the reef building coral Acropora millepora'. Frontiers in Ecology and Evolution, 10 . [DOI]
Rosenberg, Yaeli; Simon-Blecher, Noa; Lalzar, Maya; Yam, Ruth; Shemesh, Aldo; Alon, Shahar; Perna, Gabriela; Cardenas, Anny; Voolstra, Christian R.; Miller, David J.; Levy, Oren (2022) 'Urbanization comprehensively impairs biological rhythms in coral holobionts'. Global Change Biology, 28 (10):3349-3364. [DOI]
Zhang, Jia; Richards, Zoe T.; Adam, Arne A.S.; Chan, Cheong Xin; Shinzato, Chuya; Gilmour, James; Thomas, Luke; Strugnell, Jan M.; Miller, David J.; Cooke, Ira (2022) 'Evolutionary Responses of a Reef-building Coral to Climate Change at the End of the Last Glacial Maximum'. Molecular Biology and Evolution, 39 (10). [DOI]
Kuek, Felicity; Motti, Cherie; Zhang, Jia; Cooke, Ira R.; Todd, Jonathan D.; Miller, David J.; Bourne, David G.; Raina, Jean-Baptiste (2022) 'DMSP production by coral-associated bacteria'. Frontiers in Marine Science, 9 . [DOI]
Schmidt, Casey A.; Cooke, Ira; Wilson, David T.; Miller, David J.; Peigneur, Steve; Tytgat, Jan; Field, Matthew; Takjoo, Rozita; Smout, Michael J.; Loukas, Alex; Daly, Norelle L. (2022) 'Newly Discovered Peptides from the Coral Heliofungia actiniformis Show Structural and Functional Diversity'. Journal of Natural Products, 85 (7):1789-1798. [DOI]
Journal Publication
ResearchOnline@JCU
Ying, Hua; Hayward, David C.; Klimovich, Alexander; Bosch, Thomas C.U.; Baldassarre, Laura; Neeman, Teresa; Foret, Sylvain; Huttley, Gavin; Reitzel, Adam M.; Fraune, Sebastian; Ball, Eldon E.; Miller, David (2022) 'The Role of DNA Methylation in Genome Defense in Cnidaria and Other Invertebrates'. Molecular Biology and Evolution, 39 (2). [DOI]
Pereira Luz, Bruna Louise; Miller, David; Kitahara, Marcelo Visentini (2021) 'High regenerative capacity is a general feature within colonial dendrophylliid corals (Anthozoa, Scleractinia)'. Journal of Experimental Zoology. Part B: Molecular and Developmental Evolution, 336 (3):281-292. [DOI]
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ResearchOnline@JCU
Praher, Daniela; Zimmermann, Bob; Dnyansagar, Rohit; Miller, David J.; Moya, Aurelie; Modepalli, Vengamanaidu; Fridrich, Arie; Sher, Daniel; Friis-Møller, Lene; Sundberg, Per; Fôret, Sylvain; Ashby, Regan; Moran, Yehu; Technau, Ulrich (2021) 'Conservation and turnover of miRNAs and their highly complementary targets in early branching animals'. Proceedings of the Royal Society B: Biological Sciences, 288 (1945). [DOI]
Andrade Rodriguez, N.; Moya, A.; Jones, R.; Miller, D.J.; Cooke, I. (2021) 'The significance of genotypic diversity in coral competitive interaction: a transcriptomic perspective'. Frontiers in Ecology and Evolution, 9 . [DOI]
Testing cophylogeny between coral reef invertebrates and their bacterial and archaeal symbionts
2021
O'Brien, Paul A.; Andreakis, Nikolaos; Tan, Shangjin; Miller, David; Webster, Nicole S.; Zhang, Guojie; Bourne, David G. (2021) 'Testing cophylogeny between coral reef invertebrates and their bacterial and archaeal symbionts'. Molecular Ecology, 30 (15):3768-3782. [DOI]
Journal Publication
ResearchOnline@JCU
Broad scale proteomic analysis of heat-destabilised symbiosis in the hard coral acropora millepora
2021
Petrou, K.; Nunn, B. L.; Padula, M. P.; Miller, D. J.; Nielsen, D. A. (2021) 'Broad scale proteomic analysis of heat-destabilised symbiosis in the hard coral acropora millepora'. Scientific Reports, 11 :19061-19061. [DOI]
Grinblat, Mila; Cooke, Ira; Shlesinger, Tom; Ben-Zvi, Or; Loya, Yossi; Miller, David J.; Cowman, Peter F. (2021) 'Biogeography, reproductive biology and phylogenetic divergence within the Fungiidae (mushroom corals)'. Molecular Phylogenetics and Evolution, 164 . [DOI]
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ResearchOnline@JCU
Mason, B.; Cooke, I.; Moya, A.; Augustin, R.; Lin, M.F.; Satoh, N.; Bosch, T.C.G.; Bourne, D.G.; Hayward, D.C.; Andrade, N.; Forêt, S.; Ying, H.; Ball, E.E.; Miller, D.J. (2021) 'AmAMP1 from Acropora millepora and damicornin define a family of coral-specific antimicrobial peptides related to the Shk toxins of sea anemones'. Developmental and Comparative Immunology, 114 . [DOI]
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ResearchOnline@JCU
Mohamed, Amin R.; Chan, Cheong Xin; Ragan, Mark A.; Zhang, Jia; Cooke, Ira; Ball, Eldon E.; Miller, David J. (2020) 'Comparative transcriptomic analyses of Chromera and Symbiodiniaceae'. Environmental Microbiology Reports, 12 (4):534-443. [DOI]
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ResearchOnline@JCU
Langlois, Tim; Goetze, Jordan; Bond, Todd; Monk, Jacquomo; Abesamis, Rene A.; Asher, Jacob; Barrett, Neville; Bernard, Anthony T. F.; Bouchet, Phil J.; Birt, Matthew J.; Cappo, Mike; Currey-Randall, Leanne M.; Driessen, Damon; Fairclough, David V.; Fullwood, Laura A.F.; Gibbons, Brooke A.; Harasti, David; Heupel, Michelle R.; Hicks, Jamie; Holmes, Thomas H.; Huveneers, Charlie; Ierodiaconou, Daniel; Jordan, Alan; Knott, Nathan A.; Lindfield, Steve; Malcolm, Hamish A.; McLean, Dianne; Meekan, Mark; Miller, David; Mitchell, Peter J.; Newman, Stephen J.; Radford, Ben; Rolim, Fernanda A.; Saunders, Benjamin J.; Stowar, Marcus; Smith, Adam N.H.; Travers, Michael J.; Wakefield, Corey B.; Whitmarsh, Sasha K.; Williams, Joel; Harvey, Euan S. (2020) 'A field and video annotation guide for baited remote underwater stereo-video surveys of demersal fish assemblages'. Methods in Ecology and Evolution, 11 (11):1401-1409. [DOI]
Cooke, Ira; Ying, Hua; Forêt, Sylvain; Bongaerts, Pim; Strugnell, Jan M.; Simakov, Oleg; Zhang, Jia; Field, Matt A.; Rodriguez-Lanetty, Mauricio; Bell, Sara C.; Bourne, David G.; van Oppen, Madeleine J.H.; Ragan, Mark A.; Miller, David J. (2020) 'Genomic signatures in the coral holobiont reveal host adaptations driven by Holocene climate change and reef specific symbionts'. Science Advances, 6 (48). [DOI]
Cowman, Peter F.; Quattrini, Andrea M.; Bridge, Tom C.L.; Watkins-Colwell, Gregory J.; Fadli, Nur; Grinblat, Mila; Roberts, T. Edward; McFadden, Catherine S.; Miller, David J.; Baird, Andrew H. (2020) 'An enhanced target-enrichment bait set for Hexacorallia provides phylogenomic resolution of the staghorn corals (Acroporidae) and close relatives'. Molecular Phylogenetics and Evolution, 153 . [DOI]
Journal Publication
ResearchOnline@JCU
Fingerhut, Legana C. H. W.; Miller, David J.; Strugnell, Jan M.; Daly, Norelle L.; Cooke, Ira R. (2020) 'ampir: an R package for fast genome-wide prediction of antimicrobial peptides'. Bioinformatics, 36 (21). [DOI]
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ResearchOnline@JCU
Mohamed, Amin R.; Andrade, Natalia; Moya, Aurelie; Chan, Cheong Xin; Negri, Andrew P.; Bourne, David G.; Ying, Hua; Ball, Eldon E.; Miller, David J. (2020) 'Dual RNA-sequencing analyses of a coral and its native symbiont during the establishment of symbiosis'. Molecular Ecology, 29 (20):3921-3937. [DOI]
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ResearchOnline@JCU
Hehenberger, Elisabeth; Eitel, Michael; Fortunato, Sofia A.V.; Miller, David J.; Keeling, Patrick J.; Cahill, Michael A. (2020) 'Early eukaryotic origins and metazoan elaboration of MAPR family proteins'. Molecular Phylogenetics and Evolution, 148 . [DOI]
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ResearchOnline@JCU
Schmidt, Casey A.; Wilson, David T.; Cooke, Ira; Potriquet, Jeremy; Tungatt, Katie; Muruganandah, Visai; Boote, Chloe; Kuek, Felicity; Miles, John J.; Kupz, Andreas; Ryan, Stephanie; Loukas, Alex; Bansal, Paramjit S.; Takjoo, Rozita; Miller, David J.; Peigneur, Steve; Tytgat, Jan; Daly, Norelle (2020) 'Identification and characterization of a peptide from the stony coral Heliofungia actiniformis'. Journal of Natural Products, 83 (11):3454-3463. [DOI]
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ResearchOnline@JCU
O'Brien, Paul A.; Tan, Shangjin; Yang, Chentao; Frade, Pedro R.; Andreakis, Nikolaos; Smith, Hillary A.; Miller, David J.; Webster, Nicole S.; Zhang, Guojie; Bourne, David G. (2020) 'Diverse coral reef invertebrates exhibit patterns of phylosymbiosis'. ISME Journal: multidisciplinary journal of microbial ecology, 14 :2211-2222. [DOI]
What lies beneath: Hydra provides cnidarian perspectives into the evolution of FGFR docking proteins
2020
Suryawanshi, Ashwini; Schaefer, Karolin; Holz, Oliver; Apel, David; Lange, Ellen; Hayward, David C.; Miller, David J.; Hassel, Monika (2020) 'What lies beneath: Hydra provides cnidarian perspectives into the evolution of FGFR docking proteins'. Development Genes and Evolution, 230 :227-238. [DOI]
Attenborough, Rosalind M.F.; Hayward, David C.; Wiedemann, Ursula; Foret, Sylvain; Miller, David J.; Ball, Eldon E. (2019) 'Expression of the neuropeptides RFamide and LWamide during development of the coral Acropora millepora in relation to settlement and metamorphosis'. Developmental Biology, 446 (1):56-67. [DOI]
Ying, Hua; Hayward, David C.; Cooke, Ira; Wang, Weiwen; Moya, Aurelie; Siemering, Kirby R.; Sprungala, Susanne; Ball, Eldon E.; Foret, Sylvain; Miller, David J. (2019) 'The whole-genome sequence of the coral Acropora millepora'. Genome Biology and Evolution, 11 (5):1374-1379. [DOI]
Jaspers, Cornelia; Fraune, Sebastian; Arnold, A. Elizabeth; Miller, David J.; Bosch, Thomas C.G.; Voolstra, Christian R.; Adamska, Maja; Ainsworth, Tracy; Ball, Eldon; Boote, Chlöe; Bourne, David; Butterfield, Nicholas J.; Chan, Cheong Xin; Cooke, Ira; Cowman, Peter F.; Darling, Aaron; Davy, Simon K.; Mohamed, Amin; Fabricius, Katharina; Valero Fortunato, Sofia V.; Hernandez Agreda, Alejandra; Hoogenboom, Mia; Moya, Aurelie; Pita, Lucia; Ragan, Mark A.; Robbins, Steven J.; Andrade Rodriguez, Natalia R.; Sakamaki, Kazuhiro; Schoepf, Verena; Seemann, Thorsten; Shinzato, Chuya; Stolarski, Jarosław; Strugnell, Jan; Takahashi, Shunichi; Tang, Sen-Lin; Webster, Nicole N; Whitelaw, Brooke; Ying, Hua (2019) 'Resolving structure and function of metaorganisms through a holistic framework combining reductionist and integrative approaches'. Zoology, 133 :81-87. [DOI]
Lin, Mei-Fang; Takahashi, Shunichi; Foret, Sylvain; Davy, Simon K.; Miller, David J. (2019) 'Transcriptomic analyses highlight the likely metabolic consequences of colonization of a cnidarian host by native or non-native Symbiodinium species'. Biology Open, 8 (3). [DOI]
Cooke, Ira; Mead, Oliver; Whalen, Casey; Boote, Chloe; Moya, Aurelie; Ying, Hua; Robbins, Steven; Strugnell, Jan M.; Darling, Aaron; Miller, David; Voolstra, Christian; Adamska, Maya (2019) 'Molecular techniques and their limitations shape our view of the holobiont'. Zoology, 137 . [DOI]
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ResearchOnline@JCU
Lehmann, Robert; Lightfoot, Damien; Schunter, Celia; Michell, Craig T.; Ohyanagi, Hajime; Mineta, Katsuhiko; Foret, Sylvain; Berumen, Michael L.; Miller, David J.; Aranda, Manuel; Gojobori, Takashi; Munday, Philip L.; Ravasi, Timothy (2019) 'Finding Nemo's genes: a chromosome-scale reference assembly of the genome of the orange clownfish Amphiprion percula'. Molecular Ecology Resources, 19 (3):570-585. [DOI]
Robbins, Steven J.; Singleton, Caitlin M.; Chan, Cheong Xin; Messer, Lauren F.; Geers, Aileen U.; Ying, Hua; Baker, Alexander; Bell, Sara C.; Morrow, Kathleen M.; Ragan, Mark A.; Miller, David J.; Forêt, Sylvain; Voolstra, Christian R.; Tyson, Gene W.; Bourne, David G.; Ball, Eldon; Beeden, Roger; Berumen, Michael; Aranda, Manuel; Ravasi, Timothy; Bongaerts, Pim; Hoegh-Guldberg, Ove; Cooke, Ira; Leggat, Bill; Sprungala, Susanne; Fitzgerald, Anna; Shang, Catherine; Lundgren, Petra; Fyffe, Theresa; Rubino, Francesco; van Oppen, Madeleine; Weynberg, Karen; Bells, Sara C. (2019) 'A genomic view of the reef-building coral Porites lutea and its microbial symbionts'. Nature Microbiology, 4 (12):2090-2100. [DOI]
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ResearchOnline@JCU
O'Brien, Paul; Webster, Nicole S.; Miller, David J.; Bourne, David G. (2019) 'Host-microbe coevolution: applying evidence from model systems to complex marine invertebrate holobionts'. mBio, 10 (1). [DOI]
Aguilar, Catalina; Raina, Jean-Baptiste; Fôret, Sylvain; Hayward, David C.; Lapeyre, Bruno; Bourne, David G.; Miller, David J. (2019) 'Transcriptomic analysis reveals protein homeostasis breakdown in the coral Acropora millepora during hypo-saline stress'. BMC Genomics, 20 . [DOI]
Quattrini, Andrea M.; Faircloth, Brant C.; Dueñas, Luisa F.; Bridge, Tom C.L.; Brugler, Mercer R.; Calixto-Botía, Iván F.; DeLeo, Danielle M.; Forêt, Sylvain; Herrera, Santiago; Lee, Simon M.Y.; Miller, David J.; Prada, Carlos; Rádis-Baptista, Gandhi; Ramírez-Portilla, Catalina; Sánchez, Juan A.; Rodríguez, Estefanía; McFadden, Catherine S. (2018) 'Universal target-enrichment baits for anthozoan (Cnidaria) phylogenomics: new approaches to long-standing problems'. Molecular Ecology Resources, 18 (2):281-295. [DOI]
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ResearchOnline@JCU
Sorek, Michal; Schnytzer, Yisrael; Ben-Asher, Hiba Waldman; Caspi, Vered Chalifa; Chen, Chii-Shiarng; Miller, David J.; Levy, Oren (2018) 'Setting the pace: host rhythmic behaviour and gene expression patterns in the facultatively symbiotic cnidarian Aiptasia are determined largely by Symbiodinium'. Microbiome, 6 . [DOI]
Mohamed, Amin R.; Cumbo, Vivian R.; Harii, Saki; Shinzato, Chuya; Chan, Cheong Xin; Ragan, Mark A.; Satoh, Nori; Ball, Eldon E.; Miller, David J. (2018) 'Deciphering the nature of the coral-Chromera association'. ISME Journal: multidisciplinary journal of microbial ecology, 12 (3):776-790. [DOI]
Ying, Hua; Cooke, Ira; Sprungala, Susanne; Wang, Weiwen; Hayward, David C.; Tang, Yurong; Huttley, Gavin; Ball, Eldon E.; Forêt, Sylvain; Miller, David J. (2018) 'Comparative genomics reveals the distinct evolutionary trajectories of the robust and complex coral lineages'. Genome Biology, 19 . [DOI]
Liu, Huanle; Stephens, Timothy G.; González-Pech, Raúl A.; Beltran, Victor H.; Lapeyre, Bruno; Bongaerts, Pim; Cooke, Ira; Aranda, Manuel; Bourne, David G.; Forêt, Sylvain; Miller, David J.; van Oppen, Madeleine J.H.; Voolstra, Christian R.; Ragan, Mark A.; Chan, Cheong Xin (2018) 'Symbiodinium genomes reveal adaptive evolution of functions related to coral-dinoflagellate symbiosis'. Communications Biology, 1 . [DOI]
Wessels, Wiebke; Sprungala, Susanne; Watson, Sue-Ann; Miller, David J.; Bourne, David G. (2017) 'The microbiome of the octocoral Lobophytum pauciflorum: minor differences between sexes and resilience to short-term stress'. FEMS Microbiology Ecology, 93 (5):1-13. [DOI]
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ResearchOnline@JCU
Chuang, Yaoyang; Kitahara, Marcelo; Fukami, Hironobu; Tracey, Dianne; Miller, David J.; Chen, Chaolun Allen (2017) 'Loss and gain of group I introns in the mitochondrial cox1 gene of the scleractinia (cnidaria; anthozoa)'. Zoological Studies, 56 (9). [DOI]
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ResearchOnline@JCU
Torda, Gergely; Donelson, Jennifer M.; Aranda, Manuel; Barshis, Daniel J.; Bay, Line; Berumen, Michael L.; Bourne, David G.; Cantin, Neal; Foret, Sylvain; Matz, Mikhail; Miller, David J.; Moya, Aurelie; Putnam, Hollie M.; Ravasi, Timothy; van Oppen, Madeleine J.H.; Vega Thurber, Rebecca; Vidal-Dupiol, Jeremie; Voolstra, Christian R.; Watson, Sue-Ann; Whitelaw, Emma; Willis, Bette L.; Munday, Philip L. (2017) 'Rapid adaptive responses to climate change in corals'. Nature Climate Change, 7 :627-636. [DOI]
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ResearchOnline@JCU
Aguilar, Catalina; Raina, Jean-Baptiste; Motti, Cherie A.; Foret, Sylvain; Hayward, David C.; Lapeyre, Bruno; Bourne, David G.; Miller, David J. (2017) 'Transcriptomic analysis of the response of Acropora millepora to hypo-osmotic stress provides insights into DMSP biosynthesis by corals'. BMC Genomics, 18 . [DOI]
Lin, Mei-Fang; Moya, Aurelie; Ying, Hua; Chen, Chaolun Allen; Cooke, Ira; Ball, Eldon E.; Forȇt, Sylvain; Miller, David J. (2017) 'Analyses of corallimorpharian transcriptomes provide new perspectives on the evolution of calcification in the Scleractinia (corals)'. Genome Biology and Evolution, 9 (1):150-160. [DOI]
Moya, Aurelie; Howes, Ella L.; Lacoue-Labarthe, Thomas; Foret, Sylvain; Hanna, Bishoy; Medina, Mónica; Munday, Philip L.; Ong, Jue-Sheng; Teyssié, Jean-Louis; Torda, Gergely; Watson, Sue-Ann; Miller, David J.; Bijma, Jelle; Gattuso, Jean-Pierre (2016) 'Near-future pH conditions severely impact calcification, metabolism and the nervous system in the pteropod Heliconoides inflatus'. Global Change Biology, 22 (12):3888-3900. [DOI]
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.; 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):3127-3141. [DOI]
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Moya, Aurelie; Sakamaki, Kazuhiro; Mason, Benjamin M.; Huisman, Lotte; Forêt, Sylvain; Weiss, Yvonne; Bull, Tara; Tomii, Kentaro; Imai, Kenichiro; Hayward, David C.; Ball, Eldon E.; Miller, David J. (2016) 'Functional conservation of the apoptotic machinery from coral to man: the diverse and complex Bcl-2 and caspase repertoires of Acropora millepora'. BMC Genomics, 17 :1-20. [DOI]
Lin, Mei Fang; Chou, Wen Hwa; Kitahara, Marcelo V.; Chen, Chao Lun Allen; Miller, David John; Forêt, Sylvain (2016) 'Corallimorpharians are not naked corals: insights into relationships between Scleractinia and Corallimorpharia from phylogenomic analyses'. PeerJ, 4 :1-16. [DOI]
Capel, K.C.C.; Migotto, A.E.; Zilberberg, C.; Lin, M.F.; Forsman, Z.; Miller, D.J.; Kitahara, M.V. (2016) 'Complete mitochondrial genome sequences of Atlantic representatives of the invasive Pacific coral species Tubastraea coccinea and T. tagusensis (Scleractinia, Dendrophylliidae): implications for species identification'. Gene, 590 (2):270-277. [DOI]
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ResearchOnline@JCU
Moya, A.; Huisman, L.; Fêret, S.; Gattuso, J-P.; Hayward, D.C.; Ball, E.E.; Miller, D.J. (2015) 'Rapid acclimation of juvenile corals to CO2-mediated acidification by upregulation of heat shock protein and Bcl-2 genes'. Molecular Ecology, 24 (2):438-452. [DOI]
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ResearchOnline@JCU
Voolstra, Christian R.; Miller, David J.; Ragan, Mark A.; Hoffmann, Ary A.; Hoegh-Guldberg, Ove; Bourne, David G.; Ball, Eldon E.; Ying, Hua; Forêt, Sylvain; Takahashi, Shunichi; Weynberg, Karen D.; Van Oppen, Madeleine J.H.; Morrow, Kathleen; Chan, Cheong Xin; Rosic, Nedeljka; Leggat, William; Sprungala, Susanne; Imelfort, Michael; Tyson, Gene W.; Kassahn, Karin S.; Lundgren, Petra; Beeden, Roger J.; Ravasi, Timothy; Berumen, Michael L.; Abal, Eva; Fyffe, Theresa (2015) 'The ReFuGe 2020 Consortium: using omics approaches to explore the adaptability and resilience of coral holobionts to environmental change'. Frontiers in Marine Science, 2 :1-8. [DOI]
Hayward, David C.; Grasso, Lauretta C.; Saint, Robert; Miller, David J.; Ball, Eldon E. (2015) 'The organizer in evolution–gastrulation and organizer gene expression highlight the importance of Brachyury during development of the coral, Acropora millepora'. Developmental Biology, 399 (2):337-347. [DOI]
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ResearchOnline@JCU
Bertucci, A.; Forêt, S.; Ball, E.E.; Miller, D.J. (2015) 'Transcriptomic differences between day and night in Acropora millepora provide new insights into metabolite exchange and light-enhanced calcification in corals'. Molecular Ecology, 24 (17):4489-4504. [DOI]
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ResearchOnline@JCU
Sakamaki, Kazuhiro; Imai, Kenichiro; Tomii, Kentaro; Miller, David J. (2015) 'Evolutionary analyses of caspase-8 and its paralogs: deep origins of the apoptotic signaling pathways'. BioEssays, 37 (7):767-776. [DOI]
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ResearchOnline@JCU
Host coenzyme Q redox state is an early biomarker of thermal stress in the coral Acropora millepora
2015
Lutz, Adrian; Raina, Jean-Baptiste; Motti, Cherie A.; Miller, David J.; van Oppen, Madeleine J.H. (2015) 'Host coenzyme Q redox state is an early biomarker of thermal stress in the coral Acropora millepora'. PLoS ONE, 10 (10):1-18. [DOI]
Sakamaki, Kazuhiro; Shimizu, Kouhei; Iwata, Hiroaki; Imai, Kenichiro; Satou, Yutaka; Funayama, Noriko; Nozaki, Masami; Yajima, Mamiko; Nishimura, Osamu; Higuchi, Mayura; Chiba, Kumiko; Yoshimoto, Michi; Kimura, Haruna; Gracey, Andrew Y.; Shimizu, Takashi; Tomii, Kentaro; Gotoh, Osamu; Akasaka, Koji; Sawasaki, Tatsuya; Miller, David J. (2014) 'The apoptotic initiator Caspase-8: its functional ubiquity and genetic diversity during animal evolution'. Molecular Biology and Evolution, 31 (12):3282-3301. [DOI]
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ResearchOnline@JCU
Kitahara, Marcelo V.; Lin, Mei-Fang; Forêt, Sylvain; Huttley, Gavin; Miller, David J.; Chen, Chaolun Allen (2014) 'The naked coral hypothesis revisited: evidence for and against Scleractinian monophyly'. PLoS One, 9 (4):1-13. [DOI]
Lin, Mei-Fang; Kitahara, Marcelo Visentini; Luo, Haiwei; Tracey, Dianne; Geller, Jonathan; Fukami, Hironobu; Miller, David John; Chen, Chaolun Allen (2014) 'Mitochondrial genome rearrangements in the Scleractinia/Corallimorpharia complex: implications for coral phylogeny'. Genome Biology and Evolution, 6 (5):1086-1095. [DOI]
Lutz, Adrian; Motti, Cherie A.; Freckelton, Mamie L.; Van Oppen, Madeleine J.H.; Miller, David J.; Dunlap, Walter C. (2014) 'Simultaneous determination of coenzyme Q and plastoquinone redox states in the coral-Symbiodinium symbiosis during thermally induced bleaching'. Journal of Experimental Marine Biology and Ecology, 455 :1-6. [DOI]
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ResearchOnline@JCU
Bosch, Thomas C.G.; Adamska, Maja; Augustin, René; Domazet-Loso, Tomislav; Foret, Sylvain; Fraune, Sebastian; Funayama, Noriko; Grasis, Juris; Hamada, Mayuko; Hatta, Masayuki; Hobmayer, Bert; Kawai, Kotoe; Klimovich, Alexander; Manuel, Michael; Shinzato, Chuya; Technau, Uli; Yum, Seungshic; Miller, David J. (2014) 'How do environmental factors influence life cycles and development? An experimental framework for early-diverging metazoans'. BioEssays, 36 (12):1185-1194. [DOI]
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ResearchOnline@JCU
Ramos-Silva, Paula; Kaandorp, Jaap; Huisman, Lotte; Marie, Benjamin; Zanella-Cléon, Isabelle; Guichard, Nathalie; Miller, David J.; Marin, Frédéric (2013) 'The skeletal proteome of the coral Acropora millepora: the evolution of calcification by co-option and domain shuffling'. Molecular Biology and Evolution, 30 (9):2099-2112. [DOI]
Richards, Z.T.; Miller, D.J.; Wallace, C.C. (2013) 'Molecular phylogenetics of geographically restricted Acropora species: implications for threatened species conservation'. Molecular Phylogenetics and Evolution, 69 (3):837-851. [DOI]
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Weiss, Yvonne; Forêt, Sylvain; Hayward, David C.; Ainsworth, Tracy; King, Rob; Ball, Eldon E.; Miller, David J. (2013) 'The acute transcriptional response of the coral Acropora millepora to immune challenge: expression of GiMAP/IAN genes links the innate immune responses of corals with those of mammals and plants'. BMC Genomics, 14 :1-12. [DOI]
Kitahara, Marcelo V.; Cairns, Stephen D.; Stolarski, Jaroslaw; Miller, David J. (2013) 'Deltocyathiidae, an early-diverging family of Robust corals (Anthozoa, Scleractinia)'. Zoologica Scripta, 42 (2):201-212. [DOI]
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Hamada, Mayuko; Shoguchi, Eiichi; Shinzato, Chuya; Kawashima, Takeshi; Miller, David J.; Satoh, Nori (2013) 'The complex NOD-like receptor repertoire of the coral Acropora digitifera includes novel domain combinations'. Molecular Biology and Evolution, 30 (1):167-176. [DOI]
Journal Publication
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Expression of putative immune response genes during early ontogeny in the coral Acropora millepora
2012
Puill-Stephan, Eneour; Seneca, François O.; Miller, David J.; van Oppen, Madeleine J.H.; Willis, Bette L. (2012) 'Expression of putative immune response genes during early ontogeny in the coral Acropora millepora'. PLoS ONE, 7 (7):1-5. [DOI]
Moya, A.; Huisman, L.; Ball, E.E.; Hayward, D.C.; Grasso, L.C.; Chua, C.M.; Woo, H.N.; Gattuso, J.-P; Forêt, S.; Miller, D.J. (2012) 'Whole transcriptome analysis of the coral Acropora millepora reveals complex responses to CO2-driven acidification during the initiation of calcification'. Molecular Ecology, 21 (10):2440-2454. [DOI]
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Kaniewska, Paulina; Campbell, Paul R.; Kline, David I.; Rodriguez-Lanetty, Mauricio; Miller, David J.; Dove, Sophie; Hoegh-Guldberg, Ove (2012) 'Major cellular and physiological impacts of ocean acidification on a reef building coral'. PLoS ONE, 7 (4):1-12. [DOI]
Kitahara, Marcelo V.; Stolarski, Jaroslaw; Cairns, Stephen D.; Benzoni, Francesca; Stake, Joel L.; Miller, David J. (2012) 'The first modern solitary Agariciidae (Anthozoa, Scleractinia) revealed by molecular and microstructural analysis'. Invertebrate Systematics, 26 (3):303-315. [DOI]
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Reyes-Bermudez, Alejandro; Miller, David J.; Sprungala, Susanne (2012) 'The neuronal calcium sensor protein acrocalcin: a potential target of calmodulin regulation during development in the coral Acropora millepora'. PLoS ONE, 7 (12):1-8. [DOI]
Bellantuono, Anthony J.; Granados-Cifuentes, Camila; Miller, David J.; Hoegh-Guldberg, Ove; Rodriguez-Lanetty, Mauricio (2012) 'Coral thermal tolerance: tuning gene expression to resist thermal stress'. PLoS ONE, 7 (11):1-14. [DOI]
Attenborough, Rosalind M.F.; Hayward, David C.; V. Kitahara, Marcelo; Miller, David J.; Ball, Eldon E. (2012) 'A neural enzyme in nonbilaterian animals and algae: preneural origins for peptidylglycine α-amidating monooxygenase'. Molecular Biology and Evolution, 29 (10):3095-3109. [DOI]
Journal Publication
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Lin, Mei-Fang; Kitahara, Marcelo Visentini; Tachikawa, Hiroyuki; Fukami, Hironobu; Miller, David John; Chen, Chaolun Allen (2012) 'Novel organization of the mitochondrial genome in the deep-sea coral, Madrepora oculata (Hexacorallia, Scleractinia, Oculinidae) and its taxonomic implications'. Molecular Phylogenetics and Evolution, 65 (1):323-328. [DOI]
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Emblem, Ase; Karlsen, Bard Ove; Evertsen, Jussi; Miller, David J.; Moum, Truls; Johansen, Steinar D. (2012) 'Mitogenome polymorphism in a single branch sample revealed by SOLiD deep sequencing of the Lophelia pertusa coral genome'. Gene, 506 (2):344-349. [DOI]
Journal Publication
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Levy, O.; Kaniewska, P.; Alon, S.; Eisenberg, E.; Karako-Lampert , S.; Bay, L.K.; Reef, R.; Rodriguez-Lanetty , M.; Miller, D.J.; Hoegh-Guldberg, O. (2011) 'Complex diel cycles of gene expression in coral-algal symbiosis'. Science, 331 (6014):175-175. [DOI]
Journal Publication
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Stolarski, Jarosław; Kitahara, Marcelo V.; Miller, David J.; Cairns, Stephen D.; Mazur, Maciej; Meibom, Anders (2011) 'The ancient evolutionary origins of Scleractinia revealed by azooxanthellate corals'. BMC Evolutionary Biology, 11 :1-10. [DOI]
Shinzato, Chuya; Shoguchi, Eiichi; Kawashimi, Takeshi; Hamada, Mayuko; Hisata, Kanako; Tanaka, Makiko; Fujie, Manabu; Fujiwara, Mayuki; Koyanagi, Ryo; Ikuta, Tetsuro; Fujiyama, Asao; Miller, David J.; Satoh, Nori (2011) 'Using the Acropora digitifera genome to understand coral responses to environmental change'. Nature, 476 (7360):320-323. [DOI]
Defining the tipping point. A complex cellular life/death balance in corals in response to stress
2011
Ainsworth, T.D.; Wasmund, K.; Ukani, L.; Seneca, F.; Yellowlees, D.; Miller, D.; Leggat, W. (2011) 'Defining the tipping point. A complex cellular life/death balance in corals in response to stress'. Scientific Report, 1 :1-9. [DOI]
Forêt, Sylvain; Seneca, François; De Jong, Danielle; Bieller, Annette; Hemmrich, Georg; Augustin, Rene; Hayward, David C.; Ball, Eldon E.; Bosch, Thomas C.G.; Agata, Kiyokazu; Hassel, Monika; Miller, David J. (2011) 'Phylogenomics reveals an anomalous distribution of USP genes
in metazoans'. Molecular Biology and Evolution, 28 (1):153-161. [DOI]
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Hayward, David C.; Hetherington, Suzannah; Behm, Carolyn A.; Grasso, Lauretta C.; Forêt, Sylvain; Miller, David J.; Ball, Eldon E. (2011) 'Differential gene expression at coral settlement and metamorphosis: a subtractive hybridization study'. PLoS ONE, 6 (10):1-18. [DOI]
Lange, Christina; Hemmrich, Georg; Klostermeier, Ulrich C. ; López-Quintero, Javier A. ; Miller, David J.; Rahn, Tasja; Weiss, Yvonne; Bosch, Thomas C.G.; Rosenstiel, Philip (2011) 'Defining the origins of the NOD-like receptor system at the base of animal evolution'. Molecular Biology and Evolution, 28 (5):1687-1702. [DOI]
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Iguchi, Akira; Shinzato, Chuya ; Forêt, Sylvain; Miller, David J. (2011) 'Identification of fast-evolving genes in the scleractinian Coral Acropora using comparative EST analysis'. PLoS ONE, 6 (6):1-6. [DOI]
Grasso, L.C.; Negri, A.P.; Fôret, S.; Saint, R.; Hayward, D.C.; Miller, D.J.; Ball, E.E. (2011) 'The biology of coral metamorphosis: molecular responses of larvae to inducers of settlement and metamorphosis'. Developmental Biology, 353 (2):411-419. [DOI]
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Kitahara, Marcelo V.; Cairns, Stephen D.; Stolarski, Jaroslaw; Blair, David; Miller, David J. (2010) 'A comprehensive phylogenetic analysis of the Scleractinia (Cnidaria, Anthozoa) based on mitochondrial CO1 sequence data'. PLoS ONE, 5 (7):1-9. [DOI]
Seneca, Francois O.; Forêt , Sylvain; Ball, Eldon E.; Smith-Keune, Carolyn; Miller, David J.; van Oppen, Madeleine J.H. (2010) 'Patterns of gene expression in a scleractinian coral undergoing natural bleaching'. Marine Biotechnology, 12 (5):594-604. [DOI]
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Richards, Zoe T.; Wallace, Carden C.; Miller, David J. (2010) 'Archetypal elkhorn coral discovered in the Pacific Ocean'. Systematics and Biodiversity, 8 (2):281-288. [DOI]
Journal Publication
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Kitahara, Marcelo V.; Cairns, Stephen D.; Miller, David J. (2010) 'Monophyletic origin of Caryophyllia (Scleractinia, Caryophylliidae), with descriptions of six new species'. Systematics and Biodiversity, 8 (1):91-118. [DOI]
Journal Publication
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Hartmann, Beata; Müller, Michael; Hislop, Nikki R.; Roth , Bettina; Tomljenovic, Lucija; Miller, David J.; Reichert, Heinrich (2010) 'Coral emx-Am can substitute for Drosophila empty spiracles function in head, but not brain development'. Developmental Biology, 340 (1):125-133. [DOI]
Forêt, Sylvain; Knack, Brent; Houliston, Evelyn; Momose, Tsuyoshi; Manuel, Michael; Quéinnec, Eric; Hayward, David C.; Ball, Eldon E.; Miller, David J. (2010) 'New tricks with old genes: the genetic bases of novel cnidarian traits'. Trends in Genetics, 26 (4):154-158. [DOI]
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Ball, Eldon E.; Miller, David J. (2010) 'Putting placozoans on the (phylogeographic) map'. Molecular Ecology, 19 (11):2181-2183. [DOI]
Journal Publication
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Zhou, Yan; Zheng, Huajun; Chen, Yangyi; Zhang, Lei; Wang, Kai; Guo, Jing; Huang, Zhen; Guo, Jing; Huang, Zhen; Zhang, Bo; Huang, Wei; Jin, Ke; Dou, Tonghai; Hasegawa, Masami; Wang, Li; Zhang, Yuan; Zhou, Jie; Tao, Lin; Cao, Zhiwei; Li, Yixue; Vinar, Tomas; Brejova, Brona; Brown, Dan; Li, Ming; Miller, David; Blair, David; Zhong, Yang; Chen, Zhu; Liu, Feng; Hu, Wei; Wang, Zhi-Qin; Zhang, Qin-Hua; Song, Huai-Dong; Chen, Saijuan; Xu, Xuenian; Xu, Bin; Ju, Chuan; Huang, Yucheng; Brindley, Paul; McManus, Donald; Feng, Zheng; Han, Ze-Guang; Lu, Gang; Ren, Shuangxi; Wang, Yuezhu; Wenyi, Gu; Kang, Hui; Chen, Jie; Cheng, Xiaoyun; Chen, Shuting; Wang, Lijun; Yan, Jie; Wang, Biyun; Lv, Zinyan; Jin, Lei; Wang, Bofei; Pu, Shiyin; Zhang, Xianglin; Zhang, Wei; Hu, Qiuping; Zhu, Genfeng; Wang, Jun; Yu, Jun; Wang, Jian; Yang, Huamming; Ning, Zemin; Beriman, Matthew; Wei, Chia-Lin; Ruan, Yijuan; Zhao, Guoping; Wang, Shengyue (2009) 'The Schistosoma japonicum genome reveals features of host–parasite interplay'. Nature, 460 :345-352. [DOI]
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Microarray analysis reveals transcriptional plasticity in the reef building coral Acropora millepora
2009
Bay, Line K.; Ulstrup, Karin E.; Nielsen, H. Bjorn; Jarmer, Hanne; Goffard, Nicolas; Willis, Bette L.; Miller, David J.; van Oppen, Madeleine J.H. (2009) 'Microarray analysis reveals transcriptional plasticity in the reef building coral Acropora millepora'. Molecular Ecology, 18 (14):3062-3075. [DOI]
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Iguchi, Akira; Morita, Masaya; Nakajima, Yuichi; Nishikawa, Akira; Miller, David (2009) 'In vitro fertilization efficiency in Acropora digitifera'. Zygote, 17 :225-227. [DOI]
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Reyes-Bermudez, Alejandro; Lin, Zhiyi; Hayward, David C.; Miller, David J.; Ball, Eldon E. (2009) 'Differential expression of three galaxin-related genes during
settlement and metamorphosis in the scleractinian coral Acropora millepora'. BMC Evolutionary Biology, 9 (178). [DOI]
Journal Publication
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Reyes-Bermudez, A.; Miller, D.J. (2009) 'In vitro culture of cells derived from larvae of the staghorn coral Acropora millepora'. Coral Reefs, 28 (4):859-864. [DOI]
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Schwarz, Jodi A.; Brokstein, Peter B.; Voolstra, Christian; Terry, Astrid Y.; Miller, David J.; Szmant , Alina M.; Coffroth, Mary Alice; Medina, Monica (2008) 'Coral life history and symbiosis: functional genomic resources for two reef building Caribbean corals, Acropora palmata and Montastraea faveolata'. BMC Genomics, 9 (97):1-16. [DOI]
Miller, David J.; Ball, Eldon E. (2008) 'Cryptic complexity captured: the Nematostellar genome reveals its secrets'. Trends in Genetics, 24 (1):1-4. [DOI]
Journal Publication
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Richards, Zoe T.; van Oppen, Madeleine J.H.; Wallace, Carden C.; Willis, Bette L.; Miller, David J. (2008) 'Some rare Indo-Pacific coral species are probable hybrids'. Public Library of Science ONE, 3 (9):1-8. [DOI]
Alieva, Naila O.; Konzen, Karen A.; Field, Steven F.; Meleshkevitch, Ella A.; Hunt, Marguerite E.; Beltran Ramirez, Victor; Miller, David J.; Wiedenmann, Jorg; Salih, Anya; Matz, Mikhail V. (2008) 'Diversity and evolution of coral fluorescent proteins'. Public Library of Science ONE, 3 (7):1-12. [DOI]
Miller, David J.; Ball, Eldon E. (2008) 'Animal evolution: Trichoplax, trees and taxonomic turmoil'. Current Biology, 18 (21):1003-1005. [DOI]
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Grasso, Lauretta; Maindonald, John; Rudd, Stephen; Hayward, David C.; Saint, Robert; Miller, David J.; Ball, Eldon E. (2008) 'Microarray analysis identifies candidate genes for key roles in coral development'. BMC Genomics, 9 :540-557. [DOI]
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Knack, Brent A.; Iguchi, Akira; Shinzato, Chuya; Hayward, David C.; Ball, Eldon E.; Miller, David J. (2008) 'Unexpected diversity of cnidarian integrins: expression during coral gastrulation'. BMC Evolutionary Biology, 8 . [DOI]
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Shinzato, Chuya; Iguchi, Akira; Hayward, David C.; Technau, Ulrich; Ball, Eldon E.; Miller, David J. (2008) 'Sox genes in the coral Acropora millepora: divergent expression patterns reflect differences in developmental mechanisms within the Anthozoa'. BMC Evolutionary Biology, 8 . [DOI]
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Light-responsive cryptochromes from a simple multicellular animal, the coral Acropora millepora
2007
Levy, O.; Appelbaum, L.; Leggat, W.; Gothlif, Y.; Hayward, D.C.; Miller, D.J.; Hoegh-Guldberg, O. (2007) 'Light-responsive cryptochromes from a simple multicellular animal, the coral Acropora millepora'. Science, 318 (5849):467-470. [DOI]
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Hemmrich, Georg; Miller, David J.; Bosch, Thomas C.G. (2007) 'The evolution of immunity: a low-life perspective'. Trends in Immunology, 28 (10):449-454. [DOI]
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Iguchi, Akira; Márquez, Luis M.; Knack, Brent; Shinzato, Chuya; van Oppen, Madeleine J.H.; Willis, Bette L.; Hardie, Kate; Catmull, Julian; Miller, David J. (2007) 'Apparent involvement of a β1 type integrin in coral fertilization'. Marine Biotechnology, 9 (6):760-765. [DOI]
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Forêt, S.; Kassahn, K.S.; Grasso, L.C.; Hayward, D.C.; Iguchi, A.; Ball, E.E.; Miller, D.J. (2007) 'Genomic and microarray approaches to coral reef conservation biology'. Coral Reefs, 26 (3):475-486. [DOI]
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Ball, Eldon E.; de Jong, Danielle M.; Schierwater, Bernd; Shinzato, Chuya; Hayward, David C.; Miller, David J. (2007) 'Implications of cnidarian gene expression patterns for the origins of bilaterality - is the glass half full or half empty?'. Integrative and Comparative Biology, 47 :701-711. [DOI]
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Antil, Michel; Hayward, David C.; Miller, David J.; Ball, Eldon E. (2007) 'Sequence and expression of four coral G protein-coupled receptors distinct from all classifiable members of the rhodopsin family'. Gene, 392 (1-2):14-21. [DOI]
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Miller, David J.; Hemmrich, Georg; Ball, Eldon E.; Hayward, David C.; Khalturin, Konstantin; Funayama, Noriko; Agata, Kiyokazu; Bosch, Thomas C.G. (2007) 'The innate immune repertoire in Cnidaria - ancestral complexity and stochastic gene loss'. Genome Biology, 8 (4):R59.1-R59.13. [DOI]
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Fukatsu, Takuya; Onodera, Ken-ichi; Ohta, Yuichiro; Oba, Yuichi; Nakamura, Hideshi; Shintani, Tomoaki; Yoshioka, Yukio; Okamoto, Tetsuji; ten Lohuis, Michael; Miller, David J.; Kawachi, Masanobu; Ojika, Makoto (2007) 'Zooxanthellamide D, a polyhydroxy polyene amide from a marine dinoflagellate, and chemotaxonomic perspective of the Symbiodinium polyols'. Journal of Natural Products, 70 (3):407-411. [DOI]
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Willis, Bette L.; van Oppen, Madeleine J.H.; Miller, David J.; Vollmer, Steve V.; Ayre, David J. (2006) 'The role of hybridization in the evolution of reef corals'. Annual Review of Ecology, Evolution, and Systematics, 37 :489-517. [DOI]
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Kamm, Kai; Schierwater, Bernd; Jakob, Wolfgang; Dellaporta, Stephen L.; Miller, David J. (2006) 'Axial patterning and diversification in the Cnidaria predate the Hox System'. Current Biology, 16 (9):920-926. [DOI]
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Ball, Eldon E.; Miller, David J. (2006) 'Phylogeny: the continuing classificatory conundrum of Chaetognaths'. Current Biology, 16 (15):593-596. [DOI]
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de Jong, Danielle M.; Hislop, Nikki R.; Hayward, David C.; Reece-Hoyes, John S.; Pontynen, Patricia C.; Ball, Eldon; Miller, David J. (2006) 'Components of both major axial patterning systems of the Bilateria are differentially expressed along the primary axis of a 'radiate' animal, the anthozoan cnidarian Acropora millepora'. Developmental Biology, 298 (2):632-643. [DOI]
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Technau, Ulrich; Rudd, Stephen; Maxwell, Peter; Gordon, Paul M.K.; Saina, Michael; Grasso, Lauretta C.; Hayward, David C.; Sensen, Christoph W.; Saint, Robert; Holstein, Thomas W.; Ball, Eldon E.; Miller, David J. (2005) 'Maintenance of ancestral complexity and non-metazoan genes in two basal cnidarians'. Trends in Genetics, 21 (12):633-639. [DOI]
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Miller, David J.; Catmull, Julian; Puskeiler, Robert; Tweedale, Helen; Sharples, Frank P.; Hiller, Roger G. (2005) 'Reconstitution of the peridinin–chlorophyll a protein (PCP): evidence for functional flexibility in chlorophyll binding'. Photosynthesis Research, 86 (1-2):229-240. [DOI]
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St. Pierre, Liam; Masci, Paul P.; Filippovich, Igor; Sorokina, Natasha; Marsh, Neville; Miller, David J.; Lavin, Martin F. (2005) 'Comparative analysis of prothrombin activators from the venom of Australian elapids'. Molecular Biology and Evolution, 22 (9):1853-1864. [DOI]
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Hislop, Nikki R.; de Jong, Danielle; Hayward, David C.; Ball, Eldon E.; Miller, David J. (2005) 'Tandem organization of independently duplicated homeobox genes in the basal cnidarian Acropora millepora'. Development Genes and Evolution, 215 (5):268-273. [DOI]
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Miller, David J.; Ball, Eldon E. (2005) 'Animal evolution: the enigmatic phylum Placozoa revisited'. Current Biology, 15 (1):R26-R28. [DOI]
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Miller, David J.; Ball, Eldon E.; Technau, Ulrich (2005) 'Cnidarians and ancestral genetic complexity in the animal kingdom'. Trends in Genetics, 21 (10):536-539. [DOI]
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Ball, Eldon E.; Hayward, David C.; Saint, Robert; Miller, David J. (2004) 'A simple plan: cnidarians and the origins of developmental mechanisms'. Nature Reviews: Genetics, 5 (8):567-577. [DOI]
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Mackenzie, J.B.; Munday, P.L.; Willis, B.L.; Miller, D.J.; van Oppen, M.J.H. (2004) 'Unexpected patterns of genetic structuring among locations but not colour morphs in Acropora nasuta (Cnidaria; Scleractinia)'. Molecular Ecology, 13 (1):9-20. [DOI]
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Jolodar, Abbas; Fischer, Peter; Büttner, Dietrich W.; Miller, David J.; Schmetz, Christel; Brattig, Norbert W. (2004) 'Onchocerca volvulus: expression and immunolocalization of a nematode cathepsin D-loike lysosomal aspartic protease'. Experimental Parasitology, 107 (3-4):145-156. [DOI]
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Hayward, David C.; Miller, David J.; Ball, Eldon E. (2004) 'Snail expression during embryonic development of the coral Acropora: blurring the diploblast/triplobalst divide'. Development Genes and Evolution, 214 (5):257-260. [DOI]
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Kortschak, R. Daniel; Samuel, Gabrielle; Saint, Robert; Miller, David J. (2003) 'EST analysis of the cnidarian Acropora millepora reveals extensive gene loss and rapid sequence divergence in the model invertebrates'. Current Biology, 13 (24):2190-2195. [DOI]
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Miller, David J.; van Oppen, Madeleine J.H. (2003) 'A 'fair go' for coral hybridization'. Molecular Ecology, 12 (4):805-807. [DOI]
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Pseudogenes contribute to the extreme diversity of nuclear ribosomal DNA in the hard coral Acropora
2003
Marquez, Luis M.; Miller, David J.; Mackenzie, Jason B.; van Oppen, Madeleine J.H. (2003) 'Pseudogenes contribute to the extreme diversity of nuclear ribosomal DNA in the hard coral Acropora'. Molecular Biology and Evolution, 20 (7):1077-1086. [DOI]
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Plaza, Serge; de Jong, Danielle M.; Gehring, Walter J.; Miller, David J. (2003) 'DNA-binding characteristics of cnidarian Pax-C and Pax-B proteins in vivo and in vitro: no simple relationship with the Pax-6 and Pax-2/5/8 classes'. Journal of Experimental Zoology Part B: molecular and developmental evolution, 299B (1):26-35. [DOI]
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Miller, Steven W.; Hayward, David C.; Bunch, Thomas A.; Miller, David J.; Ball, Eldon E.; Bardwell, Vivian J.; Zarkower, David; Brower, Danny L. (2003) 'A DM domain protein from a coral, Acropora millepora, homologous to proteins important for sex determination'. Evolution & Development, 5 (3):251-258. [DOI]
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Nordström, Karin; Scholten, Ingo; Nordström, Johanna; Larhammer, Dan; Miller, David (2003) 'Mutational analysis of the Acropora millepora PaxD paired domain highlights the importance of the linker region for DNA binding'. Gene, 320 (27):81-87. [DOI]
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van Oppen, Madeleine J.H.; Willis, Bette L.; van Rheede, Teun; Miller, David J. (2002) 'Spawning times, reproductive compatibilities and genetic structuring in the Acropora aspera group: evidence for natural hybridization and semi-permeable species boundaries in corals'. Molecular Ecology, 11 (8):1363-1376. [DOI]
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Marquez, L.M.; van Oppen, M.J.H.; Willis, B.L.; Reyes, A.; Miller, D.J. (2002) 'The highly cross-fertile coral species, Acropora hyacinthus and Acropora cytherea, constitute statistically distinguishable lineages'. Molecular Ecology, 11 (8):1339-1349. [DOI]
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van Oppen, Madeleine J. H.; Catmull, Julian; McDonald, Brenda J; Hislop, Nikki R.; Hageman, Paul J.; Miller, David J. (2002) 'The mitochondrial genome of Acropora tenuis (Cnidaria: Scleractinia) contains a large group I intron and a candidate control region'. Journal of Molecular Evolution, 55 (1):1-13. [DOI]
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Ball, Eldon E.; Hayward, David C.; Reece-Hoyes, John S.; Hislop, Nikki R.; Samuel, Gabrielle; Saint, Robert; Harrison, Peter L.; Miller, David J. (2002) 'Coral development: from classical embryology to molecular control'. International Journal of Developmental Biology, 46 (4):671-678.
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Jolodar, Abbas; Miller, David J. (2002) 'Construction and expression of aspartic protease from Onchocerca volvulus as ompA fusion protein in a mutant strain of Salmonella typhimurium'. Genetics and Molecular Biology, 25 (1):97-101. [DOI]
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Hayward, David C.; Samuel, Gabrielle; Pontynen, Patricia C.; Catmull, Julian; Saint, Robert; Miller, David J.; Ball, Eldon E. (2002) 'Localized expression of a dpp/BMP2/4 ortholog in a coral embryo'. National Academy of Sciences. Proceedings, 99 (12):8106-8111. [DOI]
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Marquez, L.M.; van Oppen, M.J.H.; Willis, B.L.; Miller, D.J. (2002) 'Sympatric populations of the highly cross-fertile coral species Acropora hyacinthus and Acropora cytherea are genetically distinct'. Proceedings of the Royal Society of London Series B, Biological Sciences, 269 (1497):1289-1294. [DOI]
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van Oppen, Madeleine J.H.; McDonald, Brenda J.; Willis, Bette; Miller, David J. (2001) 'The evolutionary history of the coral genus Acropora (Scleractinia, Cnidaria) based on a mitochondrial and a nuclear marker: reticulation, incomplete lineage sorting, or morphological convergence?'. Molecular Biology and Evolution, 18 (7):1315-1329.
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Samuel, Gabrielle; Miller, David; Saint, Robert (2001) 'Conservation of a DPP/BMP signaling pathway in the nonbilateral cnidarian Acropora millepora'. Evolution & Development, 3 (4):241-250. [DOI]
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Hayward, David C.; Catmull, Julian; Reece-Hoyes, John S.; Berghammer, Heinrich; Dodd, Heather; Hann, Steven J.; Miller, David J.; Ball, Eldon E. (2001) 'Gene structure and larval expression of cnox-2Am from the coral Acropora millepora'. Development Genes and Evolution, 211 (1):10-19. [DOI]
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van Oppen, Madeleine; Palstra, Friso P.; Piquet, Anouk M.-T.; Miller, David J. (2001) 'Patterns of coral-dinoflagellate associations in Acropora: significance of local availability and physiology of Symbiodinium strains and host-symbiont selectivity'. Proceedings of the Royal Society of London Series B: biological sciences, 268 (1478):1759-1767. [DOI]
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Miller, David J.; Hayward, David C.; Reece-Hoyes, John S.; Scholten, Ingo; Catmull, Julian; Gehring, Walter J.; Callaerts, Patrick; Larsen, Jill E.; Ball, Eldon E. (2000) 'Pax gene diversity in the basal cnidarian Acropora millepora (Cnidaria, Anthozoa): Implications for the evolution of the Pax gene family'. Proceedings of the National Academy of Sciences of the United States of America, 97 (7):4475-4480. [DOI]
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Chen, C.L.; Miller, David J.; Wei, Nuwei Vivian; Dai, Chang-Feng; Yang, Hsiao-Pei (2000) 'The ETS/IGS region in a lower animal, the seawhip, Junceella fragilis (Cnidaria: Anthozoa: Octocorallia): compactness, low variation and apparent conservation of a pre-rRNA processing signal with fungi'. Zoological Studies, 39 (2):138-143.
Journal Publication
ResearchOnline@JCU
Van Oppen, M.J.H.; Willis, B.L.; Van Vugt, H.W.J.; Miller, D.J. (2000) 'Examination of species boundaries in the Acropora cervicornis group (Scleractinia, Cnidaria) using nuclear DNA sequence analyses'. Molecular Ecology, 9 (9):1363-1373. [DOI]
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ResearchOnline@JCU
Miller, David J.; Ball, Eldon E. (2000) 'The coral Acropora: what it can contribute to our knowledge of metazoan evolution and the evolution of developmental processes'. BioEssays, 22 (3):291-296. [DOI]
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ResearchOnline@JCU
Galliot, Brigitte; Miller, David (2000) 'Origin of anterior patterning: how old is our head?'. Trends in Genetics, 16 (1):1-5. [DOI]
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ResearchOnline@JCU
Ten Lohuis, Michael R.; Miller, David (1998) 'Genetic transformation of dinoflagellates (Amphidinium and Symbiodinium): expression of GUS in microalgae using heterologous promoter constructs'. The Plant Journal, 13 (3):427-435. [DOI]
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ResearchOnline@JCU
Miller, David; Miles, Annabel (1993) 'Homeobox genes and the zootype'. Nature, 365 :215-216. [DOI]
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ResearchOnline@JCU