Selected publications

2022

• Majchrzyk, A., Jakubowicz, M., Berkowski, B., Bongaerts, P., Zapalski, M. (2022) In the shadow of a giant reef: Palaeoecology of mesophotic coral communities from the Givetian of Anti-Atlas (Morocco). Palaeogeography, Palaeoclimatology, Palaeoecology 602 111177
  
  
• Pérez-Rosales, G., Hernández-Agreda, A., Bongaerts, P., Rouzé, H., Pichon, M., Carlot, J., Torda, G., Under The Pole Consortium, Parravicini, V., Hédouin, L. (2022) Mesophotic depths hide high coral cover communities in French Polynesia. Science of The Total Environment 844 157049
  
  
• Pérez-Rosales, G., Pichon, M., Rouzé, H., Villéger, S., Torda, G., Bongaerts, P., Carlot, J., Parravicini, V., & Hédouin, L.; Under The Pole Consortium (2022) Mesophotic coral ecosystems of French Polynesia are hotspots of alpha and beta generic diversity for scleractinian assemblages. Diversity and Distributions 28 1391– 1403
  
  
• Bongaerts, P (2022) Mesophotic coral ecosystems. Current Biology 32 R345-R346
  
  
• Prata K, Riginos C, Gutenkunst R, Latijnhouwers K, Sánchez J, Englebert N, Hay K, Bongaerts P (2022) Deep connections: divergence histories with gene flow in mesophotic Agaricia corals. Molecular Ecology 31 2511-2527
  
  
• Hernandez-Agreda A, Sahit FM, Englebert N, Hoegh-Guldberg O, Bongaerts P (2022) Hidden in the deep: Distinct benthic trajectories call for monitoring of mesophotic reefs. Conservation Letters 15 e12875
  
  

2021

• Kline DI, Dehgan A, Bunje P, Selbe S, Chirayath V, Pizarro O, Leray M, Connolly S, Bongaerts P, Treibitz T, Levy O (2021) The Coral Reef Sentinels Program: A Mars Shot for Blue Planetary Health. Marine Technology Society Journal 55 118-119
  
  
• Pérez-Rosales G, Rouzé H, Torda G, Bongaerts P, Pichon M, Under The Pole Consortium, Parravicini V, Hédouin L (2021) Mesophotic coral communities escape thermal coral bleaching in French Polynesia. Royal Society Open Science 8 210139
  
  
• Feldman B, Afiq-Rosli L, Simon-Blecher N, Bollati E, Wainwright B, Bongaerts P, Huang D, Levy O (2021) Distinct lineages and population genomic structure of the coral Pachyseris speciosa in the small equatorial reef system of Singapore. Coral Reefs
  
  
• Eyal G, Laverick JH, Bongaerts P, Levy O, Pandolfi JM (2021) Mesophotic coral ecosystems of the Great Barrier Reef are understudied and underexplored. Frontiers in Marine Science 8 1-5
  
  
• Bongaerts P, Dubé CE, Prata K, Gijsbers J, Achlatis M, Hernandez-Agreda A (2021) Reefscape genomics: leveraging advances in 3D imaging to assess fine-scale patterns of genomic variation on coral reefs. Frontiers in Marine Science 8 1-9
  
  
• Rouzé H, Galand PE, Medina M, Bongaerts P, Pichon M, Pérez-Rosales G, Torda G, Moya A, Raina J, Hédouin L (2021) Symbiotic associations of the deepest recorded photosynthetic scleractinian coral (172 m depth). The ISME Journal 15 1564-1568
  
  
• Bongaerts P, Cooke IR, Ying H, Wels D, Haan SD, Hernandez-Agreda A, Brunner CA, Dove S, Englebert N, Eyal G, Foret S, Grinblat M, Hay KB, Harii S, Hayward DC, Lin Y, Mihaljević M, Moya A, Muir P, Sinniger F, Smallhorn-West P, Torda G, Ragan MA, Oppen van MJH, Hoegh-Guldberg O (2021) Morphological stasis masks ecologically divergent coral species on tropical reefs. Current Biology 31 2286-2298. e8
  
  
• Marden E, Abbott RJ, Austerlitz F, Ortiz‐Barrientos D, Baucom RS, Bongaerts P, Bonin A, Bonneaud C, Browne L, Buerkle CA, Caicedo AL, Coltman DW, Cruzan MB, Davison A, DeWoody JA, Dumbrell AJ, Emerson BC, Fountain‐Jones NM, Gillespie R, Giraud T, Hansen MM, Hodgins KA, Heuertz M, Hirase S, Hooper R, Hohenlohe P, Kane NC, Kelley JL, Kinziger AP, McKenzie VJ, Moreau CS, Nazareno AG, Pelletier TA, Pemberton JM, Qu Y, Renaut S, Riginos C, Rodríguez‐Ezpeleta N, Rogers SM, Russell JA, Schoville SD, Shi S, Smith M, Sork VL, Stone GN, Taberlet P, Videvall E, Waits L, Warschefsky E, Wayne RK, Whibley A, Willoughby J, Yoder JB, Zinger L, Sibbett B, Narum S, Rieseberg LH (2021) Sharing and reporting benefits from biodiversity research. Molecular Ecology 30 1103-1107
  
  

2020

• Cooke I, Ying H, Forêt S, Bongaerts P, Strugnell JM, Simakov O, Zhang J, Field MA, Rodriguez-Lanetty M, Bell SC, Bourne DG, Oppen van MJH, Ragan MA, Miller DJ (2020) Genomic signatures in the coral holobiont reveal host adaptations driven by Holocene climate change and reef specific symbionts. Science Advances 6 eabc6318
  
  
• Rodriguez-Ramirez A, González-Rivero M, Beijbom O, Bailhache C, Bongaerts P, Brown KT, Bryant DEP, Dalton P, Dove S, Ganase A, Kennedy EV, Kim CJS, Lopez-Marcano S, Neal BP, Radice VZ, Vercelloni J, Beyer HL, Hoegh-Guldberg O (2020) A contemporary baseline record of the world’s coral reefs. Scientific Data 7 1-15
  
  

2019

• Leggat W, Gierz S, Hernandez-Agreda A, Ainsworth TD (2019) The mesophotic coral microbial biosphere. In: Loya Y., Puglise K., Bridge T. (eds) Mesophotic Coral Ecosystems. Coral Reefs of the World, vol 12. Springer, Cham. 493-505
  
  
• Bridge TCL, Beaman RJ, Bongaerts P, Muir PR, Ekins M, Sih T (2019) In: Loya Y., Puglise K., Bridge T. (eds) Mesophotic Coral Ecosystems. Coral Reefs of the World, vol 12. Springer, Cham.. Mesophotic Coral Ecosystems 351-367
  
  
• Frade PR, Bongaerts P, Baldwin CC, Trembanis AC, Bak RPM, Vermeij MJA (2019) Bonaire and Curaçao. 149-162
  
  
• Bridge TCL, Webster JM, Sih TL, Bongaerts P (2019) The Great Barrier Reef outer-shelf. In: Hutchings, P., Kingsford, M., Hoegh-Guldberg, O., (eds) The Great Barrier Reef: Biology, Environment and Management, 2nd ed. 73-84
  
  
• Bongaerts P, Perez-Rosales G, Radice VZ, Eyal G, Gori A, Gress E, Hammerman NM, Hernandez-Agreda A, Laverick J, Muir P, Pinheiro H, Pyle RL, Rocha L, Turner JA, Booker R (2019) Mesophotic.org: a repository for scientific information on mesophotic ecosystems. Database 2019
  
  
• Li MS, Zande RVD, Hernández-Agreda A, Bongaerts P, Stuart HS (2019) Gripper design with rotation-constrained teeth for mobile manipulation of hard, plating corals with human-portable ROVs. 1-6
  
  
• Turner JA, Andradi-Brown DA, Gori A, Bongaerts P, Burdett HL, Ferrier-Pagès C, Voolstra CR, Weinstein DK, Bridge TCL, Costantini F, Gress E, Laverick J, Loya Y, Goodbody-Gringley G, Rossi S, Taylor ML, Viladrich N, Voss JD, Williams J, Woodall LC, Eyal G (2019) Key questions for research and conservation of mesophotic coral ecosystems and temperate mesophotic ecosystems. In: Loya Y., Puglise K., Bridge T. (eds) Mesophotic Coral Ecosystems. Coral Reefs of the World, vol 12. Springer, Cham. 989-1003
  
  
• Bongaerts P, Smith TB (2019) Beyond the “Deep Reef Refuge” hypothesis: a conceptual framework to characterize persistence at depth. In: Loya Y., Puglise K., Bridge T. (eds) Mesophotic Coral Ecosystems. Coral Reefs of the World, vol 12. Springer, Cham. 881-895
  
  

2018

• Benzoni F, Arrigoni R, Berumen ML, Taviani M, Bongaerts P, Frade PR (2018) Morphological and genetic divergence between Mediterranean and Caribbean populations of Madracis pharensis (Heller 1868)(Scleractinia, Pocilloporidae): too much for one species?. Zootaxa 4471 473-492
  
  
• Gonzalez-Zapata FL, Bongaerts P, Ramírez-Portilla C, Adu-Oppong B, Walljasper G, Reyes A, Sanchez JA (2018) Holobiont diversity in a reef-building coral over its entire depth range in the mesophotic zone. Frontiers in Marine Science 5 29
  
  
• Muir PR, Wallace CC, Pichon M, Bongaerts P (2018) High species richness and lineage diversity of reef corals in the mesophotic zone. Proceedings of the Royal Society B 285 20181987
  
  
• Laverick JH, Piango S, Andradi-Brown DA, Exton DA, Bongaerts P, Bridge TCL, Lesser MP, Pyle RL, Slattery M, Wagner D, Rogers AD (2018) To what extent do mesophotic coral ecosystems and shallow reefs share species of conservation interest? A systematic review. Environmental Evidence 7 1-13
  
  
• Oppen van MJH, Bongaerts P, Frade P, Peplow LM, Boyd SE, Nim HT, Bay LK (2018) Adaptation to reef habitats through selection on the coral animal and its associated microbiome. Molecular Ecology 27 2956-2971
  
  
• Hernandez-Agreda A, Leggat W, Bongaerts P, Herrera C, Ainsworth TD (2018) Rethinking the coral microbiome: simplicity exists within a diverse microbial biosphere. MBio 9 e00812-18
  
  
• Frade PR, Bongaerts P, Englebert N, Rogers A, Gonzalez-Rivero M, Hoegh-Guldberg O (2018) Deep reefs of the Great Barrier Reef offer limited thermal refuge during mass coral bleaching. Nature Communications 9 1-8
  
  
• Liu H, Stephens TG, González-Pech RA, Beltran VH, Lapeyre B, Bongaerts P, Cooke I, Aranda M, Bourne DG, Forêt S, Miller DJ, Oppen van MJH, Voolstra CR, Ragan MA, Chan CX (2018) Symbiodinium genomes reveal adaptive evolution of functions related to coral-dinoflagellate symbiosis. Communications Biology 1 1-11
  
  
• Rocha LA, Pinheiro HT, Shepherd B, Papastamatiou YP, Luiz OJ, Pyle RL, Bongaerts P (2018) Mesophotic coral ecosystems are threatened and ecologically distinct from shallow water reefs. Science 361 281-284