Simulating and quantifying the environmental influence on coral colony growth and form

Coral Reefs: An Ecosystem in Transition

Volumn , Issue , 2011, Pages 177-185

  Kaandorp, Jaap A ^a   Filatov, Maxim ^a   Chindapol, Nol ^a  

^a UNIVERSITY OF AMSTERDAM   (Netherlands)

Author keywords

accretive growth model; advection diffusion; computed tomography scanning; hydrodynamics; iinorganic carbon; medial axis; Morphogenesis; morphometrics; scleractinian corals; simulation models; skeletonization algorithms

Indexed keywords

EID: 82555171925     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1007/978-94-007-0114-4_11     Document Type: Chapter

References (53)

1. Abraham ER (2001) The fractal branching of an arborescent sponge, Mar Biol 138: 503-510.
2. Allemand D, Ferrier-Pagès, Furla C, Houlbrèque P, Puverel FS, Reynaud S, Tambutté É, Tambutté S, Zoccola D (2004) Biomineralisation in reef-building corals: from molecular mechanisms to environmental control. C R Palevol 3:453-467.
3. Anthony KRN (1999) Coral suspension feeding on fine particulate matter. J Exp Mar Biol Ecol 232:85-106.
4. Ball EE, Hayward DC, Reece-Hoyes JS, Hislop NR, Samuel G, Saint R, Harrison PL, Miller DJ (2002) Coral development: from classical embryology to molecular control. Int J Biol 46:671-678.
5. Ball EE, Hayward DC, Saint R, Miller DJ (2004) A simple plan - cnidarians and the origins of developmental mechanisms. Nat Genet 5:567-577.
6. Bookstein FL (1991) Morphometric tools for landmark data: geometry and biology. Cambridge University Press, New York.
7. Bruno JF, Edmunds PJ (1998) Metabolic consequences of phenotypic plasticity in the coral Madracis mirabilis (Duchassaing and Michelotti): The effect of morphology and water flow on aggregate respiration. J Exp Mar Biol Ecol 229:187-195.
8. Budd AF, Johnson KG, Potts DC (1994) Recognizing morphospecies in colonial reef corals: I. Landmark-based methods. Paleobiology 20: 484-505.
9. Budd AF, Guzman HM (1994) Siderastrea glynni, a new species of scleractinian coral (cnidaria: Anthozoa) from the eastern pacific, Proc Biol Soc Wash 107:591-599.
10. Chamberlain JA, Graus RR (1977) Water flow and hydromechanical adaptations of branched reef corals. Bull Mar Sci 25:112-125.
11. Chopard B, Droz M (1998) Cellular automata modelling of physical systems. Cambridge Univerity Press, Cambridge.
12. Darke WM, Barnes DJ (1993) Growth trajectories of corallites and ages of polyps in massive colonies of reef-building corals of the genus Porites. Mar Biol 117:321-326.
13. Davies JM, Dunne RP, Brown BE (1997) Coral bleaching and elevated sea-water temperature in Milne Bay Province Papua New Guinea 1996. Mar Fresh W Res 48:513-518.
14. Filatov M, Kruszynski KJ, Kaandorp JA, van Liera R, Vermeij M, Bak R Morpho-space exploration of simulated coral morphologies and three-dimensional images of scleractinian corals (in preparation).
15. Graus RR, Macintyre IG (1982) Variation in growth forms of the reef coral Montastrea annularis (Ellis and Solander): A quantitative evaluation of growth response to light distribution using computer simulation. Smithson Contr Mar Sci 12:441-464.
16. Harper JL, Rosen BR, White J (1986) The growth and form of modular organisms. The Royal Society London.
17. Heikoop JM, Dunn JJ, Risk MJ, Schwarcz HP, McConnaughey TA, Sandeman IM (2000) Separation of kinetic and metabolic isotopic effects in carbon-13 records preserved in reef coral skeletons. Geochim Cosmochim Acta 64:975-987.
18. Jonker PP, Vossepoel AM (1995) Mathematical morphology in 3D images: comparing 2D & 3D skeletonization algoriths, pp 83-108, In: BENEFIT Summer School on Morphological Image and Signal Processing, Zakopane, K. Wojciechowski (ed.), Silesian Technical University, ACECS, Gliwice, Poland.
19. Kaandorp JA (1999) Morphological analysis of growth forms of branching marine sessile organisms along environmental gradients. Mar Biol 134:295-306.
20. Kaandorp JA, Kuebler JE (2001) The algorithmic beauty of seaweeds, sponges and corals. Springer, Heidelberg.
21. Kaandorp JA, Sloot PMA (2001) Morphological models of radiate accretive growth and the influence of hydrodynamics. J Theor Biol 209:257-274.
22. Kaandorp JA, Lowe CP, Frenkel D, Sloot PMA (1996) The effect of nutrient diffusion and flow on coral morphology. Phys Rev Let 77: 2328-2331.
23. Kaandorp JA, Koopman EA, Sloot PMA, Bak RPM, Vermeij MJA, Lampmann LEH (2003) Simulation and analysis of flow patterns around the scleractinian coral Madracis mirabilis (Duchassaing and Michelotti). Philos Trans R Soc Lond B 358:1551-1557.
24. Kaandorp JA, Sloot PMA, Merks RMH, Bak RPM, MJA Vermeji MJA, Maier C (2005) Morphogenesis of the branching reef coral Madracis mirabilis, Proc Roy Soc B 272:127-133.
25. Kandhai D, Hlushkou D, Hoekstra AG, Sloot PMA, Van As H, Tallarek U (2002) Influence of stagnant zones on transient and asymptotic dispersion in macroscopically homogeneous porous media. Phys Rev Lett 88:234501-234504.
26. Koponen A, Kandhai D, Hellen E, Alava M, Hoekstra A, Kataja M, Niskanen K, Sloot PMA, Timmonen J (1998) Permeability of threedimensional random fiber webs. Phys Rev Lett 80:716-719.
27. Kruszynski K, Kaandorp JA, van Liere R (2007) A computational method for quantifying morphological variation in scleractinian corals. Coral Reefs 26:831-840.
28. Lesser MP, Weis VM, Patterson MR, Jokiel PL (1994) Effects of morphology and water motion on carbon delivery and productivity in the reef coral, Pocillopora damicornis (Linnaeus): diffusion barriers, inorganic carbon limitation, and biochemical plasticity. J Exp Mar Biol Ecol 178:153-179.
29. Le Tissier MDAA, Clayton B, Brown BE, Spencer Davies P (1994) Skeletal correlates of coral density banding and an evaluation of radiography as used in scelerochronology. Mar Ecol Prog Ser 110: 29-44.
30. Lorensen WE, Cline HE (1987) Marching cubes: A high resolution 3D surface construction algorithm. ACM Comput Graph 21:163-169.
31. Lowe CP, Frenkel D (1995) The super long-time decay of velocity fluctuations in a two-dimensional fluid. Physica 220:251-260.
32. Maier C, Patzold J, Bak RPM (2003) The skeletal isotopic composition as an indicator of ecological plasticity in the coral genus Madracis. Coral Reefs 22:370-380.
33. Marubini F, Thake B (1999) Bicarbonate addition promotes coral growth. Limnol Oceanogr 44:716-720.
34. Marubini F, Ferrier-Pages C, Cuif J (2002) Suppression of skeletal growth in scleractinian corals by decreasing ambient carbonate-ion concentration: A cross-family comparison. Proc R Soc Lond B 270:179-184.
35. Mass T, Genin A (2008) Environmental versus intrinsic determination of colony symmetry in the coral Pocillopora verrucosa. Mar Ecol Prog Ser 2008 369:131-137.
36. McConnaughey TA, Burdett J, Whelan JF, Paul CK (1997) Carbon isotopes in biological carbonates: respiration and photosynthesis. Geochim Cosmochim Acta 61:611-622.
37. Merks RMH, Hoekstra AG, Sloot PMA (2002) The moment propagation method for advection-diffusion in the lattice Boltzmann method: validation and Peclet number limits. J Comput Phys 183:563-576.
38. Merks RMH, Hoekstra AG, Kaandorp JA, Sloot PMA (2003) Models of coral growth: Spontaneous branching, compactification and the Laplacian growth assumption. J Theor Biol 224:153-166.
39. Meroz E, Brickner I, Loya Y, Retzman-Shemer A, Ilan M (2002) The effect of gravity on coral morphology. Proc R Soc B 269:717-720.
40. Muko S, Kawasaki K, Sakai K, Takasu F, Shigesada N (2000) Morphological plasticity in the coral Porites sillimaniani and its adaptive significance. Bull Mar Sci 66:225-239.
41. Nakamura T, van Woesik R (2001) Water-flow rates and passive diffusion partially explain differential survival of corals during the 1998 bleaching event. Mar Ecol Prog Ser 212:301-304.
42. Nakamura T, Yamasaki H, van Woesik R (2003) Water flow facilitates recovery from bleaching in the coral Stylophora pistillata. Mar Ecol Prog Ser 256:287-291.
43. Reidenbach MA, Koseff JR, Monismith SG, Steinbuck JV, Genin A (2006) Effects of waves, unidirectional currents, and morphology on mass transfer in branched reef corals. Limnol Oceanogr 51:1134-1141.
44. Sanchez JA, Lasker HR (2003) Patterns of morphological integration in marine modular organisms: supra-module organization in branching octocoral colonies. Proc Roy Soc B 270:2039-2044.
45. Schroeder W, Martin K, Lorensen B (1997) The visualization toolkit: An object-oriented approach to 3D graphics, 2nd edn. Prentice-Hall, Upper Saddle River.
46. Sebens KP, Witting J, Helmuth B (1997) Effects of water flow and branch spacing on particle capture by the reef coral Madracis mirabilis (Duchassaing and Michelotti). J Exp Mar Biol Ecol 211: 1-28.
47. Shaish L, Abelson A, Rinkevich B (2007) How plastic can phenotypic plasticity be? The branching coral Stylophora pistillata as a model system. PLoS ONE 2007 2(7):e644.
48. Sorokin YI (1993) Coral reef ecology. Springer, Heidelberg.
49. Succi S (2001) The lattice Boltzmann equation: for fluid dynamics and beyond. Oxford University Press, Oxford.
50. Todd PA, Sanderson PG, Chou LM (2001) Morphological variation in the polyps of the scleractinian coral Favia speciosa (Dana) around Singapore, Hydrobiologia 444:227-235.
51. Todd PA (2008) Morphological plasticity in scleractinian corals. Biol Rev 83(3):315-337.
52. Veron JEN, Pichon M (1976) Scleractinia of eastern Australia part Families Thamnasteriidae, Astrocoeniidae, Pocilloporidae. Australian Government Publishing Service, Canberra.
53. Webster DR, Weissburg MJ (2009) The hydrodynamics of chemical cues among aquatic organisms. Annu Rev Fluid Mech 41:73-90.