Preprints
Selected publications
Barfield, S. J., Aglyamova, G. V, Bay, L. K. & Matz, M. V. Contrasting effects of Symbiodinium identity on coral host transcriptional profiles across latitudes. Mol. Ecol. (2018). doi:10.1111/mec.14774
Cleves PA, Strader ME, Bay LK, Pringle JR, Matz M V. CRISPR/Cas9-mediated genome editing in a reef-building coral. Proc Natl Acad Sci U S A 2018; 201722151.
Matz M V., Treml EA, Aglyamova G V., Bay LK. Potential and limits for rapid genetic adaptation to warming in a Great Barrier Reef coral. PLOS Genet 2018;14: e1007220.
Matz. M. V. Fantastic beasts and how to sequence them: ecological genomics for obscure model organisms. Trends Genet 2018 34: 121-132.
Strader, M.E, Aglyamova, G.V., Matz, M.V. Molecular characterization of larval development from fertilization to metamorphosis in a reef-building coral. BMC Genomics 2018, 19:17
Torda, G., Donelson, J. M., Aranda, M., Barshis, D. J., Bay, L., Berumen, M. L., et al. Rapid adaptive responses to climate change in corals. Nature Climate Change 2017, 7: 627–636.
Pollock, F. J., Katz, S. M., van de Water J. A. J. M., Davies, S. W., Hein, M., Torda, G., Matz, M. V. et al. Coral larvae for restoration and research: a large-scale method for rearing Acropora millepora larvae, inducing settlement, and establishing symbiosis. PeerJ 2017;5: e3732.
Wright, R. M., Kenkel, C. D., Dunn, C. E., Shilling, E. N., Bay, L. K. and Matz, M. V. Intraspecific differences in molecular stress responses and coral pathobiome contribute to mortality under bacterial challenge in Acropora millepora. Scientific Reports 2017, 7:2610.
Davies, S. W., Strader, M. E., Kool, J. T., Kenkel, C. D. and Matz, M. V. Modeled differences of coral life-history traits influence the refugium potential of a remote Caribbean reef. Coral Reefs 2017, doi:10.1007/s00338-017-1583-8.
Oldach, M. J., Workentine, M., Matz, M. V., Fan, T. Y. and Vize, P. D. Transcriptome dynamics over a lunar month in a broadcast spawning acroporid coral. Molecular Ecology 2017, 26:2514-2526.
Kenkel, C. D. and Matz, M. V. Gene expression plasticity as a mechanism of coral adaptation to a variable environment. Nature Ecology & Evolution 2016, 1: 0014. doi:10.1038/s41559-016-0014.
Dixon, G., Bay, L. K., Matz, M. V. Evolutionary consequences of DNA methylation in a basal metazoan. Mol. Biol. Evol. 2016, 33: 2285-2293. doi:10.1093/molbev/msw100.
Strader ME, Aglyamova G V, Matz M V. Red fluorescence in coral larvae is associated with a diapause-like state. Mol. Ecol. 2016, 25:559–569.
Barfield, S., Aglyamova , G.V., Matz, M. V. Evolutionary origins of germline segregation in Metazoa: evidence for a germ stem cell lineage in the coral Orbicella faveolata (Cnidaria, Anthozoa). Proc. Roy. Soc. B 2016, 283: 20152128.
Kenkel, C. D., Almanza, A. T. and Matz, M. V. Fine-scale environmental specialization of reef-building corals might be limiting reef recovery in the Florida Keys. Ecology 2015, 96:3197-3212.
Strader, M. E., Davies, S. W., and Matz, M. V. Differential responses of coral larvae to the colour of ambient light guide them to suitable settlement microhabitat. Roy. Soc. Opensci. 2015, 2:150358.
Davies, S. W., Scarpino, S. V., Pongwarin, T., Scott, J. and Matz, M. V. Estimating trait heritability in highly fecund species. Genes Genomes Genetics (G3) 2015, 2639-2645.
Dixon, G. B., Davies, S. W., Aglyamova, G. V., Meyer, E., Bay, L. K. and Matz, M. V. Genomic determinants of coral heat tolerance across latitudes. Science 2015, 348:1460-1462.
Kenkel, C. D., Setta, S. P., and Matz, M. V. Heritable differences in fitness-related traits among populations of the mustard hill coral, Porites astreoides. Heredity 2015, DOI: HDY.2015.52.
Wright, R. M., Aglyamova, G. V., Meyer, E. and Matz, M. V. Gene expression associated with white syndromes in a reef-building coral, Acropora hyacinthus. BMC Genomics 2015, 16: 371.
Davies, S.W., Treml, E.A., Kenkel, C.D, and Matz, M.V. Exploring the role of Micronesian islands in the maintenance of coral genetic diversity in the Pacific Ocean. Mol Ecol 2015, 24: 70-82.
Dixon, G. B., Bay, L. K., Matz, M. V. Bimodal signatures of germline methylation are linked with gene expression plasticity in the coral Acropora millepora. BMC Genomics 2014, 15:1109.
Puritz, J. B., Matz, M. V., Toonen, R. J., Weber, J. N., Bolnick, D.I. and Bird, C.E. Demystifying the RAD fad. Mol Ecol 2014, 23: 5937-5942.
Green. E.A., Davies, S.W., Matz. M.V., M Medina, M. Quantifying cryptic Symbiodinium diversity within Orbicella faveolata and Orbicella franksi at the Flower Garden Banks, Gulf of Mexico. PeerJ 2014, 2:e386.
Quigley, K.M., Davies, S.W., Kenkel, C.D., Willis, B.L., Matz, M.V., Bay, L.K. Deep-sequencing method for quantifying background abundances of Symbiodinium types: exploring the rare Symbiodinium biosphere in reef-building corals. PLoS ONE 2014, 9:e94297.
Davies, S.W., Meyer, E., Guermond, S.M., Matz, M.V. A cross-ocean comparison of responses to settlement cues in reef-building corals. PeerJ 2014, 2:e333.
Kenkel, C. D., Sheridan, C., Leal, M. C., Bhagooli, R., Castillo, K. D., Kurata, N., McGinty, E., Goulet, T. L. and Matz, M. V. Diagnostic gene expression biomarkers of coral thermal stress. Mol Ecol Res 2014, 14:667-678.
Matz, M. V., Wright, R. M., and Scott, J. G. No control genes required: Bayesian analysis of qRT-PCR data. PLoS ONE 2013, 8(8): e71448.
Kenkel, C. D., Goodbody-Gringley, G. , Caillaud, D., Davies, S. W., Bartels, E., and Matz, M. V. Evidence for a host role in thermotolerance divergence between populations of the mustard hill coral (Porites astreoides) from different reef environments. Mol Ecol 2013, 22: 4335-4348.
Kenkel, C. D., Meyer, E., and Matz, M. V. Gene expression under chronic heat stress in populations of the mustard hill coral (Porites astreoides) from different thermal environments. Mol Ecol 2013, 22:4322-4334.
Wang, S., Meyer, E., McKay, J.K., and Matz, M.V. 2b-RAD: a simple and flexible method for whole-genome genotyping. Nature Methods 2012, 9: 808-810.
Meyer, E., Aglyamova, G. A., and Matz, M. V. Profiling gene expression responses of coral larvae (Acropora millepora) to elevated temperature and settlement inducers using a novel RNA-Seq procedure. Mol. Ecol. 2011, 17: 3599-3616.
Kenkel, C. D., Traylor, M. R., Wiedenmann, J., Salih, A., and Matz, M. V. Fluorescence of coral larvae predicts their settlement response to crustose coralline algae and reflects stress. Proc. Roy. Soc. B 2011, 278: 2691-2697, doi:10.1098/rspb.2010.2344
Wang, S., Zhang, L., Meyer, E. and Matz, M.V. Construction of a high-resolution genetic linkage map and comparative genome analysis for a reef-building coral Acropora millepora. Genome Biology 2009, 10:R126
Meyer, E., Davies, S., Wang, S., Willis, B. L., Abrego, D., Juenger, T. and Matz, M. V. Genetic variation in responses to settlement cue and elevated temperature in a reef-building coral Acropora millepora. Mar. Ecol. Prog Ser. 2009, 392:81-92.
Meyer, E., Aglyamova, G. V., Wang, S., Buchanan-Carter, J, Abrego, D., Colbourne, J. K., Willis, B. L., and Matz, M. V. Sequencing and de novo analysis of a coral larval transcriptome using 454 GS Flx. BMC Genomics 2009, 10: 219.
Cleves PA, Strader ME, Bay LK, Pringle JR, Matz M V. CRISPR/Cas9-mediated genome editing in a reef-building coral. Proc Natl Acad Sci U S A 2018; 201722151.
Matz M V., Treml EA, Aglyamova G V., Bay LK. Potential and limits for rapid genetic adaptation to warming in a Great Barrier Reef coral. PLOS Genet 2018;14: e1007220.
Matz. M. V. Fantastic beasts and how to sequence them: ecological genomics for obscure model organisms. Trends Genet 2018 34: 121-132.
Strader, M.E, Aglyamova, G.V., Matz, M.V. Molecular characterization of larval development from fertilization to metamorphosis in a reef-building coral. BMC Genomics 2018, 19:17
Torda, G., Donelson, J. M., Aranda, M., Barshis, D. J., Bay, L., Berumen, M. L., et al. Rapid adaptive responses to climate change in corals. Nature Climate Change 2017, 7: 627–636.
Pollock, F. J., Katz, S. M., van de Water J. A. J. M., Davies, S. W., Hein, M., Torda, G., Matz, M. V. et al. Coral larvae for restoration and research: a large-scale method for rearing Acropora millepora larvae, inducing settlement, and establishing symbiosis. PeerJ 2017;5: e3732.
Wright, R. M., Kenkel, C. D., Dunn, C. E., Shilling, E. N., Bay, L. K. and Matz, M. V. Intraspecific differences in molecular stress responses and coral pathobiome contribute to mortality under bacterial challenge in Acropora millepora. Scientific Reports 2017, 7:2610.
Davies, S. W., Strader, M. E., Kool, J. T., Kenkel, C. D. and Matz, M. V. Modeled differences of coral life-history traits influence the refugium potential of a remote Caribbean reef. Coral Reefs 2017, doi:10.1007/s00338-017-1583-8.
Oldach, M. J., Workentine, M., Matz, M. V., Fan, T. Y. and Vize, P. D. Transcriptome dynamics over a lunar month in a broadcast spawning acroporid coral. Molecular Ecology 2017, 26:2514-2526.
Kenkel, C. D. and Matz, M. V. Gene expression plasticity as a mechanism of coral adaptation to a variable environment. Nature Ecology & Evolution 2016, 1: 0014. doi:10.1038/s41559-016-0014.
Dixon, G., Bay, L. K., Matz, M. V. Evolutionary consequences of DNA methylation in a basal metazoan. Mol. Biol. Evol. 2016, 33: 2285-2293. doi:10.1093/molbev/msw100.
Strader ME, Aglyamova G V, Matz M V. Red fluorescence in coral larvae is associated with a diapause-like state. Mol. Ecol. 2016, 25:559–569.
Barfield, S., Aglyamova , G.V., Matz, M. V. Evolutionary origins of germline segregation in Metazoa: evidence for a germ stem cell lineage in the coral Orbicella faveolata (Cnidaria, Anthozoa). Proc. Roy. Soc. B 2016, 283: 20152128.
Kenkel, C. D., Almanza, A. T. and Matz, M. V. Fine-scale environmental specialization of reef-building corals might be limiting reef recovery in the Florida Keys. Ecology 2015, 96:3197-3212.
Strader, M. E., Davies, S. W., and Matz, M. V. Differential responses of coral larvae to the colour of ambient light guide them to suitable settlement microhabitat. Roy. Soc. Opensci. 2015, 2:150358.
Davies, S. W., Scarpino, S. V., Pongwarin, T., Scott, J. and Matz, M. V. Estimating trait heritability in highly fecund species. Genes Genomes Genetics (G3) 2015, 2639-2645.
Dixon, G. B., Davies, S. W., Aglyamova, G. V., Meyer, E., Bay, L. K. and Matz, M. V. Genomic determinants of coral heat tolerance across latitudes. Science 2015, 348:1460-1462.
Kenkel, C. D., Setta, S. P., and Matz, M. V. Heritable differences in fitness-related traits among populations of the mustard hill coral, Porites astreoides. Heredity 2015, DOI: HDY.2015.52.
Wright, R. M., Aglyamova, G. V., Meyer, E. and Matz, M. V. Gene expression associated with white syndromes in a reef-building coral, Acropora hyacinthus. BMC Genomics 2015, 16: 371.
Davies, S.W., Treml, E.A., Kenkel, C.D, and Matz, M.V. Exploring the role of Micronesian islands in the maintenance of coral genetic diversity in the Pacific Ocean. Mol Ecol 2015, 24: 70-82.
Dixon, G. B., Bay, L. K., Matz, M. V. Bimodal signatures of germline methylation are linked with gene expression plasticity in the coral Acropora millepora. BMC Genomics 2014, 15:1109.
Puritz, J. B., Matz, M. V., Toonen, R. J., Weber, J. N., Bolnick, D.I. and Bird, C.E. Demystifying the RAD fad. Mol Ecol 2014, 23: 5937-5942.
Green. E.A., Davies, S.W., Matz. M.V., M Medina, M. Quantifying cryptic Symbiodinium diversity within Orbicella faveolata and Orbicella franksi at the Flower Garden Banks, Gulf of Mexico. PeerJ 2014, 2:e386.
Quigley, K.M., Davies, S.W., Kenkel, C.D., Willis, B.L., Matz, M.V., Bay, L.K. Deep-sequencing method for quantifying background abundances of Symbiodinium types: exploring the rare Symbiodinium biosphere in reef-building corals. PLoS ONE 2014, 9:e94297.
Davies, S.W., Meyer, E., Guermond, S.M., Matz, M.V. A cross-ocean comparison of responses to settlement cues in reef-building corals. PeerJ 2014, 2:e333.
Kenkel, C. D., Sheridan, C., Leal, M. C., Bhagooli, R., Castillo, K. D., Kurata, N., McGinty, E., Goulet, T. L. and Matz, M. V. Diagnostic gene expression biomarkers of coral thermal stress. Mol Ecol Res 2014, 14:667-678.
Matz, M. V., Wright, R. M., and Scott, J. G. No control genes required: Bayesian analysis of qRT-PCR data. PLoS ONE 2013, 8(8): e71448.
Kenkel, C. D., Goodbody-Gringley, G. , Caillaud, D., Davies, S. W., Bartels, E., and Matz, M. V. Evidence for a host role in thermotolerance divergence between populations of the mustard hill coral (Porites astreoides) from different reef environments. Mol Ecol 2013, 22: 4335-4348.
Kenkel, C. D., Meyer, E., and Matz, M. V. Gene expression under chronic heat stress in populations of the mustard hill coral (Porites astreoides) from different thermal environments. Mol Ecol 2013, 22:4322-4334.
Wang, S., Meyer, E., McKay, J.K., and Matz, M.V. 2b-RAD: a simple and flexible method for whole-genome genotyping. Nature Methods 2012, 9: 808-810.
Meyer, E., Aglyamova, G. A., and Matz, M. V. Profiling gene expression responses of coral larvae (Acropora millepora) to elevated temperature and settlement inducers using a novel RNA-Seq procedure. Mol. Ecol. 2011, 17: 3599-3616.
Kenkel, C. D., Traylor, M. R., Wiedenmann, J., Salih, A., and Matz, M. V. Fluorescence of coral larvae predicts their settlement response to crustose coralline algae and reflects stress. Proc. Roy. Soc. B 2011, 278: 2691-2697, doi:10.1098/rspb.2010.2344
Wang, S., Zhang, L., Meyer, E. and Matz, M.V. Construction of a high-resolution genetic linkage map and comparative genome analysis for a reef-building coral Acropora millepora. Genome Biology 2009, 10:R126
Meyer, E., Davies, S., Wang, S., Willis, B. L., Abrego, D., Juenger, T. and Matz, M. V. Genetic variation in responses to settlement cue and elevated temperature in a reef-building coral Acropora millepora. Mar. Ecol. Prog Ser. 2009, 392:81-92.
Meyer, E., Aglyamova, G. V., Wang, S., Buchanan-Carter, J, Abrego, D., Colbourne, J. K., Willis, B. L., and Matz, M. V. Sequencing and de novo analysis of a coral larval transcriptome using 454 GS Flx. BMC Genomics 2009, 10: 219.
