. (2013) DNA barcoding reveals the coral “laboratory-rat”, Stylophora pistillata encompasses multiple identities. Scientific Reports, Volume 3 (Number 1520). Article no. 1520. ISSN 2045-2322

Vogler, Catherine, Benzie, John A. H., Barber, Paul H., Erdmann, Mark V., Ambariyanto, , Sheppard, Charles (Charles R. C.), Tenggardjaja, Kimberly, Gérard, Karin and Wörheide, Gert. (2012) Phylogeography of the crown-of-thorns starfish in the Indian Ocean. PLoS One, Vol.7 (No.8). e43499. ISSN 1932-6203

Riegl, Bernhard M., Sheppard, Charles (Charles R. C.) and Purkis, Samuel J.. (2012) Human impact on atolls leads to coral loss and community homogenisation : a modeling study. PLoS ONE, Vol.7 (No.6). e36921. ISSN 1932-6203

Matz, Mikhail V., Yang, Sung-Yin, Keshavmurthy, Shashank, Obura, David , Sheppard, Charles (Charles R. C.), Visram, Shakil and Chen, Chaolun Allen. (2012) Diversity and distribution of symbiodinium associated with seven common coral species in the Chagos Archipelago, Central Indian Ocean. PLoS One, Vol.7 (No.5). Article no. e35836. ISSN 1932-6203

Rioja-Nieto, Rodolfo, Chiappa-Carrara, Xavier and Sheppard, Charles (Charles R. C.). (2012) Effects of hurricanes on the stability of reef-associated landscapes [Efectos de los huracanes sobre la estabilidad de paisajes asociados con arrecifes coralinos]. Ciencias Marinas, Vol.38 (No.1). pp. 47-55. ISSN 0185-3880

Price, A. R. G., Donlan, M. C. , Sheppard, Charles (Charles R. C.) and Munawar, M. . (2012) Environmental rejuvenation of the Gulf by compensation and restoration. Aquatic Ecosystem Health & Management, Vol.15 (Supp.1). pp. 7-13. ISSN 1463-4988

. (2012) Reefs and islands of the Chagos Archipelago, Indian Ocean: why it is the world's largest no-take marine protected area. Aquatic Conservation: Marine and Freshwater Ecosystems . n/a-n/a. ISSN 1052-7613

Ateweberhan, Mebrahtu, McClanahan, T. R., Graham, N. A. J. and Sheppard, Charles (Charles R. C.). (2011) Episodic heterogeneous decline and recovery of coral cover in the Indian Ocean. Coral Reefs, Vol.30 (No.3). pp. 739-752. ISSN 0722-4028

Pratchett, M. S., Graham, N. A. J., Sheppard, Charles (Charles R. C.) and Mayes, B.. (2010) Are infestations of Cymomelanodactylus killing Acropora cytherea in the Chagos archipelago? Coral Reefs, Vol.29 (No.4). p. 941. ISSN 0722-4028

Sheppard, Charles (Charles R. C.) (2010) Marine protected areas and pelagic fishing: the case of the Chagos Archipelago. Marine Pollution Bulletin, Vol.60 (No.11). pp. 1899-1901. ISSN 0025-326X

Elliott, Michael, Ducrotoy, Jean-Paul, Fernandes, Teresa F., Kingston, Paul F., McLusky, Donald S., Pearce, Jack B. and Sheppard, Charles (Charles R. C.). (2010) Obituary: Prof Alasdair McIntyre CBE, BSc DSc (Glasgow), DUniv (Stirling, Edinburgh Napier), FRSE 1926-2010. Marine Pollution Bulletin, Vol.60 (No.7). pp. 941-942. ISSN 0025-326X

Graham, Nicholas A. J., Spalding, Mark D. and Sheppard, Charles (Charles R. C.). (2010) Reef shark declines in remote atolls highlight the need for multi-faceted conservation action. Aquatic Conservation: Marine and Freshwater Ecosystems, Vol.20 (No.5). pp. 543-548. ISSN 1052-7613

Harris , A., Sheppard , C.R.C., Sheppard , A.L.S. and Gough, C.. (2010) Demise of Madagascar’s once great barrier reef –change in coral reef condition over 40 years. Atoll Research Bulletin, Vol. 574 . pp. 1-16. ISSN 0077-5630

Price, A. R. G., Harris, A., Mcgowan, A., Venkatachalam, A. J. (Alicia Jane) and Sheppard, Charles (Charles R. C.). (2010) Chagos feels the pinch: assessment of holothurian (sea cucumber) abundance, illegal harvesting and conservation prospects in British Indian Ocean Territory. Aquatic Conservation: Marine and Freshwater Ecosystems, Vol.20 (No.1). pp. 117-126. ISSN 1052-7613

(2010) The Gulf : a young sea in decline. Marine Pollution Bulletin, Vol.60 (No.1). pp. 13-38. ISSN 0025-326X

Veron, J. E. N., Hoegh-Guldberg, O., Lenton, T. M., Lough, J. M., Obura, D. O., Pearce-Kelly, P., Sheppard, Charles (Charles R. C.), Spalding, M., Stafford-Smith, M. G. and Rogers, A. D.. (2009) The coral reef crisis : the critical importance of < 350 ppm CO2. Marine Pollution Bulletin, Vol.58 (No.10). pp. 1428-1436. ISSN 0025-326X

Sheppard, Charles (Charles R. C.). (2009) Large temperature plunges recorded by data loggers at different depths on an Indian Ocean atoll: comparison with satellite data and relevance to coral refuges. Coral Reefs, Vol.28 (No.2). pp. 399-403. ISSN 0722-4028

Sheppard, Charles (Charles R. C.) and Turner, John (2009) Eco-imperialism. New Scientist, Vol.201 (No.2700). p. 22. ISSN 0262-4079

Sheppard, Charles (Charles R. C.) and Morris, Ted (2009) Resources pressures and small island states. Marine Pollution Bulletin, Vol.58 (No.2). pp. 167-169. ISSN 0025-326X

Sheppard, Charles (Charles R. C.), Davy, Simon K. and Pilling, Graham M. (2009) The Biology of Coral Reefs. The biology of habitats series . Oxford: Oxford University Press. ISBN 9780198566359

Gan, Chai-Hsia, Tee, See-Min, Tang, Pei-Ciao, Yang, Jay Ming-Che, Freire, Francis, McGowan, Andrew, Narriman, Jiddawi, Mohammed, Suleiman Mohammed, Hsieh, Hwey-Lian, Chen, Chang-Po, Sheppard, Charles (Charles R. C.) and Chen, Chaolun Allen. (2008) Isolation and characteristics of 10 microsatellite markers from the endangered coconut crab (Birgus latro). Molecular Ecology Resources, Volume 8 (Number 6). pp. 1448-1450. ISSN 1755-098X

Fukami, Hironobu, Chen, Chaolun Allen, Budd, Ann F., Collins, Allen, Wallace, Carden C., Chuang, Yao-Yang, Chen, Chienhsun, Dai, Chang-Feng, Iwao, Kenji, Sheppard, Charles (Charles R. C.) and Knowlton, Nancy. (2008) Mitochondrial and nuclear genes suggest that stony corals are monophyletic but most families of stony corals are not (Order Scleractinia, Class Anthozoa, Phylum Cnidaria). PL o S One, Vol.3 (No.9). ISSN 1932-6203

Graham, N. A. J., McClanahan, T. R., MacNeil, M. Aaron, Wilson, Shaun K., Polunin, Nicholas, Jennings, Simon, Ph. D., Chabanet, Pascale, Clark, Susan, Spalding, Mark, Letourneur, Yves, Bigot, Lionel, Galzin, René, Öhman, Marcus C., Garpe, Kajsa C., Edwards, Alasdair J. and Sheppard, Charles (Charles R. C.). (2008) Climate warming, marine protected areas and the ocean-scale integrity of coral reef ecosystems. PLOS ONE, Vol.3 (No.8). ISSN 1932-6203

. (2008) One-third of reef-building corals face elevated extinction risk from climate change and local impacts. Science, Vol.321 (No.5888). pp. 560-563. ISSN 0036-8075

Sheppard, Charles (Charles R. C.) (2008) A marine nutcracker. Marine Pollution Bulletin, Vol.56 (No.5). pp. 799-800. ISSN 0025-326X

Richardson, Bruce, Wu, Rudolf, Shin, P. (Paul), Lam, Paul, Fleddum, Annelise, Elliott, M. (Michael), 1952 Nov. 3- and Sheppard, Charles (Charles R. C.). (2008) A tribute to John Stuart Gray (1941-2007). Marine Pollution Bulletin, Vol.56 (No.1). pp. 1-4. ISSN 0025-326X

Sheppard, Charles (Charles R. C.), Harris, A. and Sheppard, A. L. S.. (2008) Archipelago-wide coral recovery patterns since 1998 in the Chagos Archipelago, central Indian Ocean. Marine Ecology - Progress Series, Vol.362 . pp. 109-117. ISSN 0171-8630

Rioja-Nieto, Rodolfo and Sheppard, Charles (Charles R. C.). (2008) Effects of management strategies on the landscape ecology of a Marine Protected Area. Ocean & Coastal Management, Vol.51 (No.5). pp. 397-404. ISSN 0964-5691

Harris, Alasdair and Sheppard, Charles (Charles R. C.) (2008) Status and recovery of the coral reefs of the Archipelago, British Indian Ocean Territory. Kalmar University: CORDIO (Coastal Oceans Research and Development, Indian Ocean). (Coastal Oceans Research and Development in the Indian Ocean, Status Report 2008).

Sheppard, Charles (Charles R. C.) (2007) Extinction muddles and swindles. Marine Pollution Bulletin, Vol.54 (No.9). pp. 1309-1310. ISSN 0025-326X

Barranguet, Christiane and Sheppard, Charles (Charles R. C.) (2007) Marine Pollution Bulletin annual prize. Marine Pollution Bulletin, Vol.54 (No.4). p. 369. ISSN 0025-326X

Sheppard, Charles (Charles R. C.) (2007) Oceans and the 'wedge' model of CO2 stabilisation. MARINE POLLUTION BULLETIN, 54 (2). pp. 117-118. ISSN 0025-326X

Sheppard, Charles (Charles R. C.) (2007) Marine climate change and conservation priorities. ORYX, 41 (1). pp. 1-2. ISSN 0030-6053

Occhipinti-Ambrogi, Anna and Sheppard, Charles (Charles R. C.) (2007) Marine bioinvasions: A collection of reviews. MARINE POLLUTION BULLETIN, 55 (7-9). pp. 299-301. ISSN 0025-326X

Sheppard, Charles (Charles R. C.) (2006) Trawling the sea bed. Marine Pollution Bulletin, Vol.52 (No.8). pp. 831-835. ISSN 0025-326X