Publications

Garcia, B. M., Becker, C. C., Weber, L., Swarr, G. J., Soule, M. C. K., Apprill, A., & Kujawinski, E. B. (n.d.). Advancing Reef Monitoring Techniques through Exometabolomics: Quantification of Labile Dissolved Organic Metabolites on Coral Reefs. doi:10.1101/2023.12.20.572630

Taenzer, L., Wankel, S. D., Kapit, J., Pardis, W. A., Herrera, S., Auscavitch, S., . . . Hansel, C. M. (2023). Corals and sponges are hotspots of reactive oxygen species in the deep sea. PNAS Nexus, 2(11), pgad398. doi:10.1093/pnasnexus/pgad398

Apprill, A., Sikkel, P. C., & Brown, A. L. (2023). Microbiome dynamics of coral reef and cleanerfish from ecological surveys, in situ manipulations, and laboratory experiments conducted from 2020-2021.

Caldwell, J. M., Liu, G., Geiger, E., Heron, S. F., Eakin, C. M., De La Cour, J., . . . Donahue, M. J. (n.d.). Multi-Factor Coral Disease Risk Forecasting for Early Warning and Management. doi:10.1101/2023.10.23.563632

Greene, A., Moriarty, T., Leggatt, W., Ainsworth, T. D., Donahue, M. J., & Raymundo, L. (n.d.). Spatial extent of dysbiosis in the branching coral Pocillopora damicornis during an acute disease outbreak. Scientific Reports, 13(1), 16522. doi:10.1038/s41598-023-43490-3

Becker, C. C., Weber, L., Zgliczynski, B., Sullivan, C., Sandin, S., Muller, E., . . . Apprill, A. (2023). Microorganisms and dissolved metabolites distinguish Florida's Coral Reef habitats. PNAS Nexus, 2(9), pgad287. doi:10.1093/pnasnexus/pgad287

Jezequel, Y., Aoki, N., Cones, S. F., & Mooney, T. A. (2023). Daytime boat sound does not affect the behavior of wild thorny oysters (<i>Spondylus americanus</i>): A field-based study. JOURNAL OF THE ACOUSTICAL SOCIETY OF AMERICA, 154(2), 1041-1047. doi:10.1121/10.0020725

Beavers, K. M., Van Buren, E. W., Rossin, A. M., Emery, M. A., Veglia, A. J., Karrick, C. E., . . . Mydlarz, L. D. (n.d.). Stony coral tissue loss disease induces transcriptional signatures of in situ degradation of dysfunctional Symbiodiniaceae. Nature Communications, 14(1), 2915. doi:10.1038/s41467-023-38612-4

Yang, D., Cai, L., Jamieson, S., & Girdhar, Y. (2023). Robot Goes Fishing: Rapid, High-Resolution Biological Hotspot Mapping in Coral Reefs with Vision-Guided Autonomous Underwater Vehicles. doi:10.48550/arxiv.2305.02330

Cayemitte, K., Aoki, N., Ferguson, S. R., Mooney, T. A., & Apprill, A. (n.d.). Ramicrusta invasive alga causes mortality in Caribbean coral larvae. Frontiers in Marine Science, 10, 1158947. doi:10.3389/fmars.2023.1158947

Chen, M., Martin, P., Ren, H., Zhang, R., Samanta, D., Chen, Y. -C., . . . Goodkin, N. F. (2023). Enhanced Monsoon-Driven Upwelling in Southeast Asia During the Little Ice Age. PALEOCEANOGRAPHY AND PALEOCLIMATOLOGY, 38(4). doi:10.1029/2022PA004546

Becker, C. C., Weber, L., Llopiz, J., Mooney, T. A., & Apprill, A. (2023). Seawater microbial communities within coral reef seawater change over six years in response to disturbance.

Apprill, A., Girdhar, Y., Mooney, T. A., Hansel, C. M., Long, M. H., Liu, Y., . . . Greene, A. (2023). Toward a New Era of Coral Reef Monitoring. ENVIRONMENTAL SCIENCE & TECHNOLOGY, 57(13), 5117-5124. doi:10.1021/acs.est.2c053695117

Reigel, A., Easson, C., Apprill, A., Freeman, C., Bartley, M., & Fiore, C. (n.d.). Sponge-derived matter is assimilated by coral holobionts. doi:10.21203/rs.3.rs-2666471/v1

Rosales, S. M., Huebner, L. K., Evans, J. S., Apprill, A., Baker, A. C., Becker, C. C., . . . Voss, J. D. (n.d.). A meta-analysis of the stony coral tissue loss disease microbiome finds key bacteria in unaffected and lesion tissue in diseased colonies. ISME Communications, 3(1), 19. doi:10.1038/s43705-023-00220-0

Apprill, A., Kujawinski, E., Muller, E., Sandin, S., Weber, L., Clark, A., . . . Becker, C. C. (2023). Biogeochemistry, metabolomics, and metagenomics of Florida's Coral Reef from sampling conducted over 15 days in June 2019.

Girdhar, Y., McGuire, N., Cai, L., Jamieson, S., McCammon, S., Claus, B., . . . Mooney, T. A. (2023). CUREE: A Curious Underwater Robot for Ecosystem Exploration. doi:10.48550/arxiv.2303.03943

Reigel, A. M., Easson, C. G., Apprill, A., Freeman, C. J., Bartley, M. M., & Fiore, C. L. (2023). Isotopic analysis of ¹³C and ¹⁵N for sponges, coral, and zooxanthellae (family Symbiodiniaceae) used in a 'pulse-chase' experiment to examine the uptake of sponge-derived nutrients by the coral holobiont.

Jézéquel, Y., Aoki, N., & Mooney, T. A. (2023). Acoustic properties and shallow water propagation distances of Caribbean spiny lobster sounds (Panulirus argus). The Journal of the Acoustical Society of America, 153(1), 529-537. doi:10.1121/10.0016898

Brown, A. L., Sharp, K., & Apprill, A. (2022). Reshuffling of the Coral Microbiome during Dormancy. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 16 pages. doi:10.1128/aem.01391-22

McCammon, S., Aoki, N., Mooney, T. A., & Girdhar, Y. (2022). Adaptive Online Sampling of Periodic Processes with Application to Coral Reef Acoustic Abundance Monitoring. In 2022 IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS) Vol. 00 (pp. 11671-11678). Institute of Electrical and Electronics Engineers (IEEE). doi:10.1109/iros47612.2022.9982217

Weber, L., Soule, M. K., Longnecker, K., Becker, C. C., Huntley, N., Kujawinski, E. B., & Apprill, A. (n.d.). Benthic exometabolites and their ecological significance on threatened Caribbean coral reefs. ISME Communications, 2(1), 101. doi:10.1038/s43705-022-00184-7

Rosales, S. M., Huebner, L. K., Evans, J. S., Apprill, A., Baker, A. C., Bellantuono, A. J., . . . Voss, J. D. (n.d.). A meta-analysis of the stony coral tissue loss disease microbiome finds key bacteria in lesions and unaffected tissue of diseased colonies. doi:10.1101/2022.09.30.510359

Grabb, K. C., Pardis, W. A., Kapit, J., Wankel, S. D., Hayden, E. B., & Hansel, C. M. (2022). Design Optimization of a Submersible Chemiluminescent Sensor (DISCO) for Improved Quantification of Reactive Oxygen Species (ROS) in Surface Waters. SENSORS, 22(17), 18 pages. doi:10.3390/s22176683

Lillis, A., & Mooney, T. A. (2022). Sounds of a changing sea: Temperature drives acoustic output by dominant biological sound-producers in shallow water habitats. FRONTIERS IN MARINE SCIENCE, 9, 11 pages. doi:10.3389/fmars.2022.960881

Brown, A. L., Sharp, K., & Apprill, A. (n.d.). Reshuffling of the coral microbiome during dormancy. doi:10.1101/2022.08.16.504223

Ferguson, S. R., Jensen, F. H., Hyer, M. D., Noble, A., Apprill, A., & Mooney, T. A. (2022). Ground-truthing daily and lunar patterns of coral reef fish call rates on a US Virgin Island reef. AQUATIC BIOLOGY, 31, 77-87. doi:10.3354/ab00755

Jones, I. T., Gray, M. D., & Mooney, T. A. (2022). Soundscapes as heard by invertebrates and fishes: Particle motion measurements on coral reefs. JOURNAL OF THE ACOUSTICAL SOCIETY OF AMERICA, 152(1), 399-415. doi:10.1121/10.0012579

Navarro-Martinez, Z. M., Armenteros, M., Espinosa, L., Jose Lake, J., & Apprill, A. (2022). Taxonomic and functional assemblage structure of coral reef fishes from Jardines de la Reina (Caribbean Sea, Cuba). MARINE ECOLOGY PROGRESS SERIES, 690, 113-132. doi:10.3354/meps14049

Huntley, N., Brandt, M. E., Becker, C. C., Miller, C. A., Meiling, S. S., Correa, A. M. S., . . . Apprill, A. (n.d.). Experimental transmission of Stony Coral Tissue Loss Disease results in differential microbial responses within coral mucus and tissue. ISME Communications, 2(1), 46. doi:10.1038/s43705-022-00126-3

Hansel, C. M. (2022). Sunscreens threaten coral survival. SCIENCE, 376(6593), 578-579. doi:10.1126/science.abo4627

Salas, A. K., Ballard, M. S., Mooney, T. A., & Wilson, P. S. (2022). Effects of frequency-dependent spatial variation in soundscape settlement cues for reef fish larvae. MARINE ECOLOGY PROGRESS SERIES, 687, 1-+. doi:10.3354/meps14012

Jones, I. T., Gray, M., & Mooney, T. A. (2022). Natural cues for invertebrate and fish hearing: Particle motion measurements on coral reefs. The Journal of the Acoustical Society of America, 151(4), a147-a148. doi:10.1121/10.0010928

Pereira, A., Soares, M. C., Santos, T., Pocas, A., Perez-Losada, M., Apprill, A., . . . Xavier, R. (2022). Reef Location and Client Diversity Influence the Skin Microbiome of the Caribbean Cleaner Goby Elacatinus evelynae. MICROBIAL ECOLOGY, 11 pages. doi:10.1007/s00248-022-01984-z

Veglia, A. J., Beavers, K., Van Buren, E. W., Meiling, S. S., Muller, E. M., Smith, T. B., . . . Correa, A. M. S. (2022). Alphaflexivirus Genomes in Stony Coral Tissue Loss Disease-Affected, Disease-Exposed, and Disease-Unexposed Coral Colonies in the U.S. Virgin Islands. Microbiology Resource Announcements, 11(2), e01199-e01121. doi:10.1128/mra.01199-21

Ma, L., Becker, C., Weber, L., Sullivan, C., Zgliczynski, B., Sandin, S., . . . Apprill, A. (2022). Biogeography of reef water microbes from within-reef to global scales. AQUATIC MICROBIAL ECOLOGY, 88, 81-94. doi:10.3354/ame01985

Navarro-Martínez, Z. M., Armenteros, M., Espinosa, L., González-Díaz, P., & Apprill, A. (n.d.). Coral reef fish assemblages exhibit signs of depletion in two protected areas from the eastern of Los Canarreos archipelago (Cuba, Caribbean Sea). PeerJ, 10, e14229. doi:10.7717/peerj.14229

Farfan, G. A., Apprill, A., Cohen, A., DeCarlo, T. M., Post, J. E., Waller, R. G., & Hansel, C. M. (2021). Crystallographic and chemical signatures in coral skeletal aragonite. CORAL REEFS, 41(1), 19-34. doi:10.1007/s00338-021-02198-4

Goodkin, N. F., Samanta, D., Bolton, A., Ong, M. R., Hoang, P. K., Vo, S. T., . . . Hughen, K. A. (2021). Natural and Anthropogenic Forcing of Multi-Decadal to Centennial Scale Variability of Sea Surface Temperature in the South China Sea. PALEOCEANOGRAPHY AND PALEOCLIMATOLOGY, 36(10), 15 pages. doi:10.1029/2021PA004233

Becker, C. C., Brandt, M., Miller, C. A., & Apprill, A. (2021). Microbial bioindicators of Stony Coral Tissue Loss Disease identified in corals and overlying waters using a rapid field-based sequencing approach. ENVIRONMENTAL MICROBIOLOGY, 24(3), 1166-1182. doi:10.1111/1462-2920.15718

Pereira, A., Soares, M. C., Santos, T., Poças, A., Pérez-Losada, M., Apprill, A., . . . Xavier, R. (n.d.). Habitat and Client Diversity Influence the Skin Microbiome of the Caribbean Cleaner Goby Elacatinus Evelynae. doi:10.21203/rs.3.rs-828485/v1

Meiling, S. S., Muller, E. M., Lasseigne, D., Rossin, A., Veglia, A. J., MacKnight, N., . . . Brandt, M. E. (2021). Variable Species Responses to Experimental Stony Coral Tissue Loss Disease (SCTLD) Exposure. FRONTIERS IN MARINE SCIENCE, 8, 12 pages. doi:10.3389/fmars.2021.670829

Ulmo-Diaz, G., Casane, D., Bernatchez, L., Gonzalez-Diaz, P., Apprill, A., Castellanos-Gell, J., . . . Garcia-Machado, E. (2021). Genetic differentiation in the mountainous star coral Orbicella faveolata around Cuba (vol 37, pg 1217, 2018). CORAL REEFS, 40(3), 983-984. doi:10.1007/s00338-021-02084-z

Keller, A. G., Apprill, A., Lebaron, P., Robbins, J., Romano, T. A., Overton, E., . . . Whalen, K. E. (2021). Characterizing the culturable surface microbiomes of diverse marine animals. FEMS MICROBIOLOGY ECOLOGY, 97(4), 14 pages. doi:10.1093/femsec/fiab040

Bent, S. M., Miller, C. A., Sharp, K. H., Hansel, C. M., & Apprill, A. (2021). Differential Patterns of Microbiota Recovery in Symbiotic and Aposymbiotic Corals following Antibiotic Disturbance. MSYSTEMS, 6(2), 18 pages. doi:10.1128/mSystems.01086-20

Becker, C. C., Brandt, M., Miller, C. A., & Apprill, A. (n.d.). Stony Coral Tissue Loss Disease biomarker bacteria identified in corals and overlying waters using a rapid field-based sequencing approach. doi:10.1101/2021.02.17.431614

Apprill, A., & Brandt, M. (2021). Application of a rapid microbiome characterization pipeline to corals afflicted with Stony Coral Tissue Loss Disease in St. Thomas, US Virgin Islands..

Mohtar, A. T., Hughen, K. A., Goodkin, N. F., Streanga, I. -M., Ramos, R. D., Samanta, D., . . . Switzer, A. D. (2021). Coral-based proxy calibrations constrain ENSO-driven sea surface temperature and salinity gradients in the Western Pacific Warm Pool. PALAEOGEOGRAPHY PALAEOCLIMATOLOGY PALAEOECOLOGY, 561, 16 pages. doi:10.1016/j.palaeo.2020.110037

Apprill, A., Holm, H., Santoro, A. E., Becker, C., Neave, M., Hughen, K., . . . McNally, S. (2021). Microbial ecology of coral-dominated reefs in the Federated States of Micronesia. AQUATIC MICROBIAL ECOLOGY, 86, 115-136. doi:10.3354/ame01961

Hansel, C. M., & Diaz, J. M. (2021). Production of Extracellular Reactive Oxygen Species by Marine Biota. ANNUAL REVIEW OF MARINE SCIENCE, VOL 13, 2021, 13, 177-200. doi:10.1146/annurev-marine-041320-102550

Babbin, A. R., Tamasi, T., Dumit, D., Weber, L., Rodriguez, M. V. I., Schwartz, S. L., . . . Apprill, A. (2020). Discovery and quantification of anaerobic nitrogen metabolisms among oxygenated tropical Cuban stony corals. ISME JOURNAL, 15(4), 1222-1235. doi:10.1038/s41396-020-00845-2

Mooney, T. A., Apprill, A., & Dinh, J. (2020). Acoustic summary data from hydrophone deployments at coral reefs in St. John, U.S. Virgin Islands in 2016 and 2017.

Mooney, T. A., Apprill, A., & Dinh, J. (2020). Dates and locations of hydrophone deployments at coral reefs in St. John, U.S. Virgin Islands in 2016 and 2017.

Weber, L., Armenteros, M., Soule, M. K., Longnecker, K., Kujawinski, E. B., & Apprill, A. (2020). Extracellular Reef Metabolites Across the Protected Jardines de la Reina, Cuba Reef System. FRONTIERS IN MARINE SCIENCE, 7, 17 pages. doi:10.3389/fmars.2020.582161

Doo, S. S., Kealoha, A., Andersson, A., Cohen, A. L., Hicks, T. L., Johnson, Z., . . . Busch, D. S. (2020). The challenges of detecting and attributing ocean acidification impacts on marine ecosystems. ICES JOURNAL OF MARINE SCIENCE, 77(7-8), 2411-2422. doi:10.1093/icesjms/fsaa094

Thilges, K., Potty, G., Mooney, T. A., & Van Uffelen, L. (2020). Synthesis of Acoustic Propagation Loss Measurements on Coral Reefs. In Global Oceans 2020: Singapore – U.S. Gulf Coast Vol. 00 (pp. 1-5). Institute of Electrical and Electronics Engineers (IEEE). doi:10.1109/ieeeconf38699.2020.9389354

Owen, D. P., Long, M. H., Fitt, W. K., & Hopkinson, B. M. (2020). Taxon-specific primary production rates on coral reefs in the Florida Keys. LIMNOLOGY AND OCEANOGRAPHY, 66(3), 625-638. doi:10.1002/lno.11627

Reimer, P. J., Austin, W. E. N., Bard, E., Bayliss, A., Blackwell, P. G., Ramsey, C. B., . . . Talamo, S. (2020). THE INTCAL20 NORTHERN HEMISPHERE RADIOCARBON AGE CALIBRATION CURVE (0-55 CAL KBP). RADIOCARBON, 62(4), 725-757. doi:10.1017/RDC.2020.41

Hopkinson, B. M., King, A. C., Owen, D. P., Johnson-Roberson, M., Long, M. H., & Bhandarkar, S. M. (2020). Automated classification of three-dimensional reconstructions of coral reefs using convolutional neural networks. PLOS ONE, 15(3), 20 pages. doi:10.1371/journal.pone.0230671

Weber, L., & Apprill, A. (2020). Diel, daily, and spatial variation of coral reef seawater microbial communities. PLOS ONE, 15(3), 28 pages. doi:10.1371/journal.pone.0229442

Apprill, A., Mooney, T. A., & Lillis, A. (2020). Soundscape monitoring acoustic data collected in July of 2017 during an in situ larval coral settlement experiment in St. John, US Virgin Islands.

Apprill, A., Mooney, T. A., & Lillis, A. (2020). Porites astreoides coral settlement counts collected in July of 2017 from an in situ larval coral settlement experiment in St. John, US Virgin Islands.

Becker, C. C., Weber, L., Suca, J. J., Llopiz, J. K., Mooney, T. A., & Apprill, A. (2020). Microbial and nutrient dynamics in mangrove, reef, and seagrass waters over tidal and diurnal time scales. AQUATIC MICROBIAL ECOLOGY, 85, 101-119. doi:10.3354/ame01944

Apprill, A. (2020). The Role of Symbioses in the Adaptation and Stress Responses of Marine Organisms. ANNUAL REVIEW OF MARINE SCIENCE, VOL 12, 12, 291-+. doi:10.1146/annurev-marine-010419-010641

Weber, L., Gonzalez-Diaz, P., Armenteros, M., Ferrer, V. M., Bretos, F., Bartels, E., . . . Apprill, A. (2019). Microbial signatures of protected and impacted Northern Caribbean reefs: changes from Cuba to the Florida Keys. ENVIRONMENTAL MICROBIOLOGY, 22(1), 499-519. doi:10.1111/1462-2920.14870

Grabb, K. C., Kapit, J., Wankel, S. D., Manganini, K., Apprill, A., Armenteros, M., & Hansel, C. M. (2019). Development of a Handheld Submersible Chemiluminescent Sensor: Quantification of Superoxide at Coral Surfaces. ENVIRONMENTAL SCIENCE & TECHNOLOGY, 53(23), 13850-13858. doi:10.1021/acs.est.9b04022

Hernandez-Fernandez, L., Gonzalez de Zayas, R., Weber, L., Apprill, A., & Armenteros, M. (2019). Small-Scale Variability Dominates Benthic Coverage and Diversity Across the Jardines de La Reina, Cuba Coral Reef System. FRONTIERS IN MARINE SCIENCE, 6, 12 pages. doi:10.3389/fmars.2019.00747

Samson, J. E., Ghisalberti, M., Adams, M. P., Reidenbach, M. A., Long, M. H., Shavit, U., & Pasour, V. B. (2019). Editorial: Canopies in Aquatic Ecosystems: Integrating Form, Function, and Biophysical Processes. FRONTIERS IN MARINE SCIENCE, 6, 3 pages. doi:10.3389/fmars.2019.00697

Long, M. H., Rheuban, J. E., McCorkle, D. C., Burdige, D. J., & Zimmerman, R. C. (2019). Closing the oxygen mass balance in shallow coastal ecosystems. LIMNOLOGY AND OCEANOGRAPHY, 64(6), 2694-2708. doi:10.1002/lno.11248

Weber, L., Gonzalez-Diaz, P., Armenteros, M., & Apprill, A. (2019). The coral ecosphere: A unique coral reef habitat that fosters coral-microbial interactions. LIMNOLOGY AND OCEANOGRAPHY, 64(6), 2373-2388. doi:10.1002/lno.11190

Apprill, A. (2019). Diel, daily, and spatial variation of coral reef seawater microbial communities from US Virgin Islands, 2017.

Ramos, R. D., Goodkin, N. F., Siringan, F. P., & Hughen, K. A. (2019). Coral Records of Temperature and Salinity in the Tropical Western Pacific Reveal Influence of the Pacific Decadal Oscillation Since the Late Nineteenth Century. PALEOCEANOGRAPHY AND PALEOCLIMATOLOGY, 34(8), 1344-1358. doi:10.1029/2019PA003684

Pérez-García, J. A., Marzo-Pérez, D., & Armenteros, M. (2019). Spatial scale influences diversity patterns of free-living nematode assemblages in coral degradation zones from the Caribbean Sea. Marine Biodiversity, 49(4), 1831-1842. doi:10.1007/s12526-019-00945-z

Apprill, A. (2019). Bacterioplankton data from coral and coral mucus aquaria experiments conducted at Bermuda Institute of Ocean Sciences in 2013.

Huggett, M. J., & Apprill, A. (2019). Coral microbiome database: Integration of sequences reveals high diversity and relatedness of coral-associated microbes. ENVIRONMENTAL MICROBIOLOGY REPORTS, 11(3), 372-385. doi:10.1111/1758-2229.12686

Girdhar, Y., Cai, L., Jamieson, S., McGuire, N., Flaspohler, G., Suman, S., & Claus, B. (2019). Streaming Scene Maps for Co-Robotic Exploration in Bandwidth Limited Environments. Unknown Journal, 00, 7940-7946. doi:10.1109/icra.2019.8794132

Goodkin, N. F., Bolton, A., Hughen, K. A., Karnauskas, K. B., Griffin, S., Phan, K. H., . . . Druffel, E. R. M. (2019). East Asian Monsoon Variability Since the Sixteenth Century. GEOPHYSICAL RESEARCH LETTERS, 46(9), 4790-4798. doi:10.1029/2019GL081939

Apprill, A. (2019). Coral species list and site descriptions for studies conducted on the partial SSU rRNA genes of bacteria and archaea in the Florida Keys, Australia, and Micronesia in 2013. (Coral Microbial Relationships project).

Bryan, S. P., Hughen, K. A., Karnauskas, K. B., & Farrar, J. T. (2019). Two Hundred Fifty Years of Reconstructed South Asian Summer Monsoon Intensity and Decadal-Scale Variability. GEOPHYSICAL RESEARCH LETTERS, 46(7), 3927-3935. doi:10.1029/2018GL081593

Neave, M. J., Apprill, A., Aeby, G., Miyake, S., & Voolstra, C. R. (2019). Microbial Communities of Red Sea Coral Reefs. In Coral Reefs of the Red Sea (Vol. 11, pp. 53-68). Springer Nature. doi:10.1007/978-3-030-05802-9_4

Farfan, G. A., Cordes, E. E., Waller, R. G., DeCarlo, T. M., & Hansel, C. M. (2018). Mineralogy of Deep-Sea Coral Aragonites as a Function of Aragonite Saturation State. FRONTIERS IN MARINE SCIENCE, 5, 15 pages. doi:10.3389/fmars.2018.00473

Ulmo-Diaz, G., Casane, D., Bernatchez, L., Gonzalez-Diaz, P., Apprill, A., Castellanos-Gell, J., . . . Garcia-Machado, E. (2018). Genetic differentiation in the mountainous star coral Orbicella faveolata around Cuba. CORAL REEFS, 37(4), 1217-1227. doi:10.1007/s00338-018-1722-x

Lillis, A., Apprill, A., Suca, J. J., Becker, C., Llopiz, J. K., & Mooney, T. A. (2018). Soundscapes influence the settlement of the common Caribbean coral Porites astreoides irrespective of light conditions. ROYAL SOCIETY OPEN SCIENCE, 5(12), 8 pages. doi:10.1098/rsos.181358

Farfan, G. A., Apprill, A., Webb, S. M., & Hansel, C. M. (2018). Coupled X-ray Fluorescence and X-ray Absorption Spectroscopy for Microscale Imaging and Identification of Sulfur Species within Tissues and Skeletons of Scleractinian Corals. ANALYTICAL CHEMISTRY, 90(21), 12559-12566. doi:10.1021/acs.analchem.8b02638

Dinh, J. P., Suca, J. J., Lillis, A., Apprill, A., Llopiz, J. K., & Mooney, T. A. (2018). Multiscale spatio-temporal patterns of boat noise on US Virgin Island coral reefs. MARINE POLLUTION BULLETIN, 136, 282-290. doi:10.1016/j.marpolbul.2018.09.009

Lillis, A., & Mooney, T. A. (2018). Snapping shrimp sound production patterns on Caribbean coral reefs: relationships with celestial cycles and environmental variables. CORAL REEFS, 37(2), 597-607. doi:10.1007/s00338-018-1684-z

Murty, S. A., Bernstein, W. N., Ossolinski, J. E., Davis, R. S., Goodkin, N. F., & Hughen, K. A. (2018). Spatial and Temporal Robustness of Sr/Ca-SST Calibrations in Red Sea Corals: Evidence for Influence of Mean Annual Temperature on Calibration Slopes. PALEOCEANOGRAPHY AND PALEOCLIMATOLOGY, 33(5), 443-456. doi:10.1029/2017PA003276

Kaplan, M. B., Lammers, M. O., Zang, E., & Mooney, T. A. (2018). Acoustic and biological trends on coral reefs off Maui, Hawaii. CORAL REEFS, 37(1), 121-133. doi:10.1007/s00338-017-1638-x

Lillis, A., Caruso, F., Mooney, T. A., Llopiz, J., Bohnenstiehl, D., & Eggleston, D. B. (n.d.). Drifting hydrophones as an ecologically meaningful approach to underwater soundscape measurement in coastal benthic habitats. Journal of Ecoacoustics, 2(1), stbdh1. doi:10.22261/jea.stbdh1

Lammers, M., Zang, E., Kaplan, M. B., Mooney, T. A., Fisher-Pool, P. I., & Brainard, R. (2017). Variation in the soundscapes of Pacific coral reefs over multiple spectral, temporal, and spatial scales. The Journal of the Acoustical Society of America, 142(4), 2502. doi:10.1121/1.5014138

Kaplan, M. B., Lammers, M., Mooney, T. A., & Zang, E. (2017). Acoustic and biological trends on coral reefs off Maui, Hawaii. The Journal of the Acoustical Society of America, 141(5), 4002. doi:10.1121/1.4989176

Mooney, T. A., Lillis, A., Kaplan, M. B., Suca, J., & Lammers, M. (2017). Variability in coral reef soundscapes, spatiotemporal differences, biophysical and behavioral drivers, and associations with local biota. The Journal of the Acoustical Society of America, 141(5), 3939. doi:10.1121/1.4988920

Ramos, R. D., Goodkin, N. F., Siringan, F. P., & Hughen, K. A. (2017). Diploastrea heliopora Sr/Ca and O-18 records from northeast Luzon, Philippines: An assessment of interspecies coral proxy calibrations and climate controls of sea surface temperature and salinity. PALEOCEANOGRAPHY, 32(4), 424-438. doi:10.1002/2017PA003098

Weber, L., DeForce, E., & Apprill, A. (2017). Optimization of DNA extraction for advancing coral microbiota investigations. MICROBIOME, 5, 14 pages. doi:10.1186/s40168-017-0229-y

Neave, M. J., Michell, C. T., Apprill, A., & Voolstra, C. R. (2017). Endozoicomonas genomes reveal functional adaptation and plasticity in bacterial strains symbiotically associated with diverse marine hosts. SCIENTIFIC REPORTS, 7, 12 pages. doi:10.1038/srep40579

Neave, M. J., Rachmawati, R., Xun, L., Michell, C. T., Bourne, D. G., Apprill, A., & Voolstra, C. R. (2017). Differential specificity between closely related corals and abundant Endozoicomonas endosymbionts across global scales. ISME JOURNAL, 11(1), 186-200. doi:10.1038/ismej.2016.95

Becker, C., Hughen, K., Mincer, T. J., Ossolinski, J., Weber, L., & Apprill, A. (2017). Impact of prawn farming effluent on coral reef water nutrients and microorganisms. AQUACULTURE ENVIRONMENT INTERACTIONS, 9, 331-346. doi:10.3354/aei00238

McNally, S. P., Parsons, R. J., Santoro, A. E., & Apprill, A. (2017). Multifaceted impacts of the stony coral Porites astreoides on picoplankton abundance and community composition. LIMNOLOGY AND OCEANOGRAPHY, 62(1), 217-234. doi:10.1002/lno.10389

Diaz, J. M., Hansel, C. M., Apprill, A., Brighi, C., Zhang, T., Weber, L., . . . Xun, L. (2016). Species-specific control of external superoxide levels by the coral holobiont during a natural bleaching event. NATURE COMMUNICATIONS, 7, 10 pages. doi:10.1038/ncomms13801

Neave, M. J., Apprill, A., Ferrier-Pages, C., & Voolstra, C. R. (2016). Diversity and function of prevalent symbiotic marine bacteria in the genus Endozoicomonas. APPLIED MICROBIOLOGY AND BIOTECHNOLOGY, 100(19), 8315-8324. doi:10.1007/s00253-016-7777-0

Zang, E., Lammers, M., Kaplan, M., Mooney, T. A., Fisher-Pool, P., & Brainard, R. E. (2016). Macro- and micro-scale spatial variation in the acoustic activity of snapping shrimp on coral reefs in the Pacific. The Journal of the Acoustical Society of America, 140(4), 3018-3019. doi:10.1121/1.4969363

Girdhar, Y., & Dudek, G. (2016). Modeling curiosity in a mobile robot for long-term autonomous exploration and monitoring. AUTONOMOUS ROBOTS, 40(7), 1267-1278. doi:10.1007/s10514-015-9500-x

Lillis, A., & Mooney, T. A. (2016). The snapping shrimp conundrum: Spatial and temporal complexity of snapping sounds on coral reefs. The Journal of the Acoustical Society of America, 140(4), 3071. doi:10.1121/1.4969566

Apprill, A., Weber, L. G., & Santoro, A. E. (2016). Distinguishing between Microbial Habitats Unravels Ecological Complexity in Coral Microbiomes. MSYSTEMS, 1(5), 18 pages. doi:10.1128/mSystems.00143-16

Kaplan, M. B., & Mooney, T. A. (2016). Coral reef soundscapes may not be detectable far from the reef. SCIENTIFIC REPORTS, 6, 10 pages. doi:10.1038/srep31862

Kaplan, M. B., Mooney, T. A., Lammers, M. O., & Zang, E. (2016). Temporal and spatial variability in vessel noise on tropical coral reefs. In Proceedings of Meetings on Acoustics Vol. 27 (pp. 005002). Acoustical Society of America (ASA). doi:10.1121/2.0000250

Bernstein, W. N., Hughen, K. A., Langdon, C., McCorkle, D. C., & Lentz, S. J. (2016). Environmental controls on daytime net community calcification on a Red Sea reef flat. CORAL REEFS, 35(2), 697-711. doi:10.1007/s00338-015-1396-6

Girdhar, Y., Cho, W., Campbell, M., Pineda, J., Clarke, E., & Singh, H. (2016). Anomaly Detection in Unstructured Environments Using Bayesian Nonparametric Scene Modeling. Unknown Journal, 2651-2656. doi:10.1109/icra.2016.7487424

Zhang, T., Diaz, J. M., Brighi, C., Parsons, R. J., McNally, S., Apprill, A., & Hansel, C. M. (2016). Dark Production of Extracellular Superoxide by the Coral Porites astreoides and Representative Symbionts. FRONTIERS IN MARINE SCIENCE, 3, 16 pages. doi:10.3389/fmars.2016.00232

Work, T. M., Aeby, G. S., & Hughen, K. A. (2016). Gross and Microscopic Lesions in Corals from Micronesia. VETERINARY PATHOLOGY, 53(1), 153-162. doi:10.1177/0300985815571669

Kaplan, M. B., Mooney, T. A., Partan, J., & Solow, A. R. (2015). Coral reef species assemblages are associated with ambient soundscapes. MARINE ECOLOGY PROGRESS SERIES, 533, 93-107. doi:10.3354/meps11382

Goodkin, N. F., Wang, B. -S., You, C. -F., Hughen, K. A., Grumet-Prouty, N., Bates, N. R., & Doney, S. C. (2015). Ocean circulation and biogeochemistry moderate interannual and decadal surface water pH changes in the Sargasso Sea. GEOPHYSICAL RESEARCH LETTERS, 42(12), 4931-4939. doi:10.1002/2015GL064431

Hauff, B., Cervino, J. M., Haslun, J. A., Krucher, N., Wier, A. M., Mannix, A. L., . . . Strychar, K. B. (2014). Genetically divergent Symbiodinium sp display distinct molecular responses to pathogenic Vibrio and thermal stress. DISEASES OF AQUATIC ORGANISMS, 112(2), 149-159. doi:10.3354/dao02802

Bolton, A., Goodkin, N. F., Hughen, K., Ostermann, D. R., Vo, S. T., & Phan, H. K. (2014). Paired Porites coral Sr/Ca and delta O-18 from the western South China Sea: Proxy calibration of sea surface temperature and precipitation. PALAEOGEOGRAPHY PALAEOCLIMATOLOGY PALAEOECOLOGY, 410, 233-243. doi:10.1016/j.palaeo.2014.05.047

Furby, K. A., Apprill, A., Cervino, J. M., Ossolinski, J. E., & Hughen, K. A. (2014). Incidence of lesions on Fungiidae corals in the eastern Red Sea is related to water temperature and coastal pollution. MARINE ENVIRONMENTAL RESEARCH, 98, 29-38. doi:10.1016/j.marenvres.2014.04.002

Girdhar, Y., Giguere, P., & Dudek, G. (2014). Autonomous adaptive exploration using realtime online spatiotemporal topic modeling. In INTERNATIONAL JOURNAL OF ROBOTICS RESEARCH Vol. 33 (pp. 645-657). Quebec City, CANADA: SAGE PUBLICATIONS LTD. doi:10.1177/0278364913507325

Bayer, T., Neave, M. J., Alsheikh-Hussain, A., Aranda, M., Yum, L. K., Mincer, T., . . . Voolstra, C. R. (2014). The Microbiome of the Red Sea Coral Stylophora pistillata Is Dominated by Tissue-Associated Endozoicomonas Bacteria (vol 79, pg 4759, 2013). APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 80(1), 427. doi:10.1128/AEM.03365-13

Kneeland, J., Hughen, K., Cervino, J., Hauff, B., & Eglinton, T. (2013). Lipid biomarkers in Symbiodinium dinoflagellates: new indicators of thermal stress. CORAL REEFS, 32(4), 923-934. doi:10.1007/s00338-013-1076-3

Kaplan, M. B., Mooney, T. A., & Partan, J. (2013). Spatiotemporal variability in coral reef soundscapes in St. John, U.S. Virgin Islands. The Journal of the Acoustical Society of America, 134(5), 4177. doi:10.1121/1.4831313

Hathorne, E. C., Gagnon, A., Felis, T., Adkins, J., Asami, R., Boer, W., . . . You, C. -F. (2013). Interlaboratory study for coral Sr/Ca and other element/Ca ratio measurements. GEOCHEMISTRY GEOPHYSICS GEOSYSTEMS, 14(9), 3730-3750. doi:10.1002/ggge.20230

Prouty, N. G., Goodkin, N. F., Jones, R., Lamborg, C. H., Storlazzi, C. D., & Hughen, K. A. (2013). Environmental assessment of metal exposure to corals living in Castle Harbour, Bermuda. MARINE CHEMISTRY, 154, 55-66. doi:10.1016/j.marchem.2013.05.002

Bayer, T., Neave, M. J., Alsheikh-Hussain, A., Aranda, M., Yum, L. K., Mincer, T., . . . Voolstra, C. R. (2013). The Microbiome of the Red Sea Coral Stylophora pistillata Is Dominated by Tissue-Associated Endozoicomonas Bacteria. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 79(15), 4759-4762. doi:10.1128/AEM.00695-13

Apprill, A., Hughen, K., & Mincer, T. (2013). Major similarities in the bacterial communities associated with lesioned and healthy Fungiidae corals. ENVIRONMENTAL MICROBIOLOGY, 15(7), 2063-2072. doi:10.1111/1462-2920.12107

Long, M. H., Berg, P., de Beer, D., & Zieman, J. C. (2013). In Situ Coral Reef Oxygen Metabolism: An Eddy Correlation Study. PLOS ONE, 8(3), 11 pages. doi:10.1371/journal.pone.0058581

Reimer, P. J., Bard, E., Bayliss, A., Beck, J. W., Blackwell, P. G., Ramsey, C. B., . . . van der Plicht, J. (2013). INTCAL13 AND MARINE13 RADIOCARBON AGE CALIBRATION CURVES 0-50,000 YEARS CAL BP. RADIOCARBON, 55(4), 1869-1887. doi:10.2458/azu_js_rc.55.16947

Cervino, J. M., Hauff, B., Haslun, J. A., Winiarski-Cervino, K., Cavazos, M., Lawther, P., . . . Strychar, K. B. (2012). Ulcerated yellow spot syndrome: implications of aquaculture-related pathogens associated with soft coral Sarcophyton ehrenbergi tissue lesions. DISEASES OF AQUATIC ORGANISMS, 102(2), 137-148. doi:10.3354/dao02541

Apprill, A., Marlow, H. Q., Martindale, M. Q., & Rappe, M. S. (2012). Specificity of Associations between Bacteria and the Coral Pocillopora meandrina during Early Development. APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 78(20), 7467-7475. doi:10.1128/AEM.01232-12

Long, M. H., Rheuban, J. E., Berg, P., & Zieman, J. C. (2012). A comparison and correction of light intensity loggers to photosynthetically active radiation sensors. LIMNOLOGY AND OCEANOGRAPHY-METHODS, 10, 416-424. doi:10.4319/lom.2012.10.416

Goodkin, N. F., Druffel, E. R. M., Hughen, K. A., & Doney, S. C. (2012). Two centuries of limited variability in subtropical North Atlantic thermocline ventilation. NATURE COMMUNICATIONS, 3, 6 pages. doi:10.1038/ncomms1811

Kahng, S. E., Hochberg, E. J., Apprill, A., Wagner, D., Luck, D. G., Perez, D., & Bidigare, R. R. (2012). Efficient light harvesting in deep-water zooxanthellate corals. MARINE ECOLOGY PROGRESS SERIES, 455, 65-77. doi:10.3354/meps09657

Goodkin, N. F., Switzer, A. D., McCorry, D., DeVantier, L., True, J. D., Hughen, K. A., . . . Yang, T. T. (2011). Coral communities of Hong Kong: long-lived corals in a marginal reef environment. MARINE ECOLOGY PROGRESS SERIES, 426, 185-196. doi:10.3354/meps09019

Apprill, A., & Rappe, M. S. (2011). Response of the microbial community to coral spawning in lagoon and reef flat environments of Hawaii, USA. AQUATIC MICROBIAL ECOLOGY, 62(3), 251-266. doi:10.3354/ame01471

Wang, B. -S., Goodkin, N. F., Angeline, N., Switzer, A. D., You, C. -F., & Hughen, K. (2011). Temporal distributions of anthropogenic Al, Zn and Pb in Hong Kong Porites coral during the last two centuries. MARINE POLLUTION BULLETIN, 63(5-12), 508-515. doi:10.1016/j.marpolbul.2011.02.011

Carilli, J. E., Prouty, N. G., Hughen, K. A., & Norris, R. D. (2009). Century-scale records of land-based activities recorded in Mesoamerican coral cores. MARINE POLLUTION BULLETIN, 58(12), 1835-1842. doi:10.1016/j.marpolbul.2009.07.024

Apprill, A., Marlow, H. Q., Martindale, M. Q., & Rappe, M. S. (2009). The onset of microbial associations in the coral Pocillopora meandrina. ISME JOURNAL, 3(6), 685-699. doi:10.1038/ismej.2009.3

Reimer, P. J., Baillie, M. G. L., Bard, E., Bayliss, A., Beck, J. W., Blackwell, P. G., . . . Weyhenmeye, C. E. (2009). INTCAL09 AND MARINE09 RADIOCARBON AGE CALIBRATION CURVES, 0-50,000 YEARS CAL BP. RADIOCARBON, 51(4), 1111-1150. doi:10.1017/S0033822200034202

Prouty, N. G., Hughen, K. A., & Carilli, J. (2008). Geochemical signature of land-based activities in Caribbean coral surface samples. CORAL REEFS, 27(4), 727-742. doi:10.1007/s00338-008-0413-4

Goodkin, N. F., Hughen, K. A., Doney, S. C., & Curry, W. B. (2008). Increased multidecadal variability of the North Atlantic Oscillation since 1781. NATURE GEOSCIENCE, 1(12), 844-848. doi:10.1038/ngeo352

Cervino, J. M., Thompson, F. L., Gomez-Gil, B., Lorence, E. A., Goreau, T. J., Hayes, R. L., . . . Bartels, E. (2008). The Vibrio core group induces yellow band disease in Caribbean and Indo-Pacific reef-building corals. JOURNAL OF APPLIED MICROBIOLOGY, 105(5), 1658-1671. doi:10.1111/j.1365-2672.2008.03871.x

Goodkin, N. F., Hughen, K. A., Curry, W. B., Doney, S. C., & Ostermann, D. R. (2008). Sea surface temperature and salinity variability at Bermuda during the end of the Little Ice Age. PALEOCEANOGRAPHY, 23(3), 13 pages. doi:10.1029/2007PA001532

Lammers, M. O., Brainard, R. E., Au, W. W. L., Mooney, T. A., & Wong, K. B. (2008). An ecological acoustic recorder (EAR) for long-term monitoring of biological and anthropogenic sounds on coral reefs and other marine habitats. JOURNAL OF THE ACOUSTICAL SOCIETY OF AMERICA, 123(3), 1720-1728. doi:10.1121/1.2836780

Apprill, A. M., Bidigare, R. R., & Gates, R. D. (2007). Visibly healthy corals exhibit variable pigment concentrations and symbiont phenotypes. CORAL REEFS, 26(2), 387-397. doi:10.1007/s00338-007-0209-y

Goodkin, N. F., Hughen, K. A., & Cohen, A. L. (2007). A multicoral calibration method to approximate a universal equation relating Sr/Ca and growth rate to sea surface temperature. PALEOCEANOGRAPHY, 22(1), 10 pages. doi:10.1029/2006PA001312

Apprill, A. M., & Gates, R. D. (2007). Recognizing diversity in coral symbiotic dinoflagellate communities. MOLECULAR ECOLOGY, 16(6), 1127-1134. doi:10.1111/j.1365-294X.2006.03214.x

Hughen, K., Southon, J., Lehman, S., Bertrand, C., & Turnbull, J. (2006). Marine-derived C-14 calibration and activity record for the past 50,000 years updated from the Cariaco Basin. QUATERNARY SCIENCE REVIEWS, 25(23-24), 3216-3227. doi:10.1016/j.quascirev.2006.03.014

Reimer, P. J., Baillie, M. G. L., McCormac, G., Reimer, R. W., Bard, E., Beck, J. W., . . . Weyhenmeyer, C. E. (2006). Comment on "Radiocarbon calibration curve spanning 0 to 50,000 years BP based on paired Th-230/U-234/U-238 and C-14 dates on pristine corals" by R.G. Fairbanks et al. (Quaternary Science Reviews 24 (2005) 1781-1796) and "Extending the radiocarbon calibration beyond 26,000 years before present using fossil corals" by T.-C. Chin et al. (Quaternary Science Reviews 24 (2005) 1797-1808). QUATERNARY SCIENCE REVIEWS, 25(7-8), 855-862. doi:10.1016/j.quascirev.2005.09.009

Hochberg, E. J., Apprill, A. M., Atkinson, M. J., & Bidigare, R. R. (2006). Bio-optical modeling of photosynthetic pigments in corals. CORAL REEFS, 25(1), 99-109. doi:10.1007/s00338-005-0071-8

Goodkin, N. F., Hughen, K. A., Cohen, A. L., & Smith, S. R. (2005). Record of Little Ice Age sea surface temperatures at Bermuda using a growth-dependent calibration of coral Sr/Ca. PALEOCEANOGRAPHY, 20(4), 9 pages. doi:10.1029/2005PA001140

Lammers, M. O., Mooney, T. A., Brainard, R. E., & Au, W. W. L. (2005). Passive acoustic monitoring of biological activity on coral reefs and in nearby waters. The Journal of the Acoustical Society of America, 118(3), 1908. doi:10.1121/1.4780155

Hochberg, E. J., Atkinson, M. J., Apprill, A., & Andrefouet, S. (2004). Spectral reflectance of coral. CORAL REEFS, 23(1), 84-95. doi:10.1007/s00338-003-0350-1

Hughen, K. A., Southon, J. R., Bertrand, C. J. H., Frantz, B., & Zermeno, P. (2004). Cariaco basin calibration update: Revisions to calendar and C-14 chronologies for core PL07-58PC. RADIOCARBON, 46(3), 1161-1187. doi:10.1017/S0033822200033075

Reimer, P. J., Baillie, M. G. L., Bard, E., Bayliss, A., Beck, J. W., Bertrand, C. J. H., . . . Weyhenmeyer, C. E. (2004). IntCal04 terrestrial radiocarbon age calibration, 0-26 cal kyr BP. RADIOCARBON, 46(3), 1029-1058. doi:10.1017/S0033822200032999

Hughen, K. A., Baillie, M. G. L., Bard, E., Beck, J. W., Bertrand, C. J. H., Blackwell, P. G., . . . Weyhenmeyer, C. E. (2004). Marine04 marine radiocarbon age calibration, 0-26 cal kyr BP. RADIOCARBON, 46(3), 1059-1086. doi:10.1017/S0033822200033002

Hughen, K. A., Schrag, D. P., Jacobsen, S. B., & Hantoro, W. (1999). El Nino during the last interglacial period recorded by a fossil coral from Indonesia. GEOPHYSICAL RESEARCH LETTERS, 26(20), 3129-3132. doi:10.1029/1999GL006062

Hughen, K. A., Overpeck, J. T., Lehman, S. J., Kashgarian, M., & Southon, J. R. (1998). A new C-14 calibration data set for the last deglaciation based on marine varves. RADIOCARBON, 40(1), 483-494. Retrieved from https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000075550700059&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=8089ad20fbb398f01a4cda689a61f0e5

Hughen, K. A., Overpeck, J. T., Lehman, S. J., Kashgarian, M., Southon, J., Peterson, L. C., . . . Sigman, D. M. (1998). Deglacial changes in ocean circulation from an extended radiocarbon calibration. NATURE, 391(6662), 65-68. doi:10.1038/34150

Stuiver, M., Reimer, P. J., Bard, E., Beck, J. W., Burr, G. S., Hughen, K. A., . . . Spurk, M. (1998). INTCAL98 radiocarbon age calibration, 24,000-0 cal BP. RADIOCARBON, 40(3), 1041-1083. doi:10.1017/S0033822200019123