|	#CarboMODELS KnowledgeBase			17May2011 CJJ			|
|							|
|	"#Chris Jenkins INSTAAR, Donald Potts UCSC started Sep 2010"						|
|						SI	|
|	"#This KnowledgeBase should be limited to taxa which are: abundant, ubiquitous, well-documented and functionally important."						|
|	#Preferably it should be species-specific. Then a species can be used as an indicator in the final results.						|
|	#The references on which it is based should be given per line of data. General references can be included at the creature line or in a # line.						|
|	# Experience shows: Edit it only in EXCEL - not in the *.txt file						|
|	# The <! Sign marks the end of data lines so the program can check for good structure.						|
|							|
|							|
|							|
|	#parameterName	 parameterValues	 parameterUnits	 dataDetails	 parameterDetails	 sourceReferences	|
|							|
|							|
|							|
|							|
|	Organism=	Phormidium_crosbyanum	0	Heterotrophic carbonate-producing Bacteria		Pringaul++; http://jsedres.geoscienceworld.org/cgi/reprint/74/4/462	|
|	.AlternativeTaxa		$		other names/organisms included		|
|	.Size	av=20;mx=90	mm		linear size	http://jsedres.geoscienceworld.org/cgi/reprint/48/3/751.pdf	|
|	.Occupancy	5	%	pat area per metre; from_photos	Observed areal coverages	http://jsedres.geoscienceworld.org/cgi/reprint/48/3/751.pdf	|
|	.Tissue.AreaFraction	100	%		Areal fraction (vertical view) of living tissue	cjj	|
|	.Skeleton.AreaFraction	90	%		Areal proportion of skeletal frame (view vertically)	CJJ	|
|	.Skeleton.GrowthRate	mn=1;mx=5	mm/yr	"""very slow"""	linear extension	http://jsedres.geoscienceworld.org/cgi/reprint/48/3/751.pdf; Pringault et al 2005	|
|	.Skeleton.Morphology	aggregated; globular	$		Descriptive	CJJ	|
|	.Skeleton.Zonation	[50;50;0;0]	%	% presences of creature's materials	[%Presence] Set	cjj	|
|	.Skeleton.Disintegrated.Fraction	5	%		Fraction volume it will disintegrate to after death/transport/burial	cjj	|
|	.Skeleton.Disintegrated.Grainsize	av=20;mx=90	mm	mx=150x(2000>>6000)	Clast/grain size after death/transport/burial	Gautret et al. 74 (4): 462. (2004) ; http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2755761/ (Beggiatoa )	|
|	.Enviro.Threats		$		Limitations on growth/fecundity/survival		|
|	.Enviro.Prefs	aerobic; marine; inter skeletal spaces	$		Preferences for growth/fecundity/survival		|
|	.Enviro.Range.irrad	"[200,0;300,50;1300,50]"	umol_photons/m2/s		"[EnviroParam, Fitness] LineSet"	Pringault et al 2005	|
|	.Enviro.Range.salin	"[35.8,50;36.4]"	"[psu,%]"		"[EnviroParam, Fitness] LineSet"	Gautret et al. 74 (4): 462. (2004)	|
|	.Enviro.Range.nutr		ppm		"[EnviroParam, Fitness] LineSet"		|
|	.Enviro.Range.temp	"[25,0;26,50;32,50;33,0]"	degC		"[EnviroParam, Fitness] LineSet"	Gautret et al. 74 (4): 462. (2004)	|
|	.Enviro.Range.wd	"[0,50;13,50;19,20;25,0]"	m		"[EnviroParam, Fitness] LineSet"		|
|	.Enviro.Range.oxygen		ml/l		Dissolved Oxygen		|
|	.Mortality.Longevity	2	yr		"Maximum, usual lifespan"	http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2755761/ (Beggiatoa )	|
|	.Mortality.Rate		%		"Rate of natural, unexplained mortality"		|
|	.Mortality.Type	autotoxins(H2S;NH4)	$		"Causes of mortality even in optimum conditions (e.g predation, dieback)"	http://www.brgm.fr/brgm//biofilms-rnb/fichier/actes/theme%201/1_Rutger_de_Wit.pdf	|
|	.Repro.Clone.ProductionRate		%/yr		Clones produced per adult per year under normal conditions		|
|	.Repro.Clone.SuccessRate	av=2*0.0001	#/day	ie 24hr/doubling	"Successful formation of colonies from clones (e.g., unattached colonies)"	http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2755761/ (Beggiatoa )	|
|	.Repro.Clone.Type	fragmentation; binary fission; 	$				|
|	.Repro.Spawn.MaturitySize		m		Organism/colony size to commence spawning		|
|	.Repro.Spawn.ProductionRate	0	#/yr		"Spawn (eggs,larvae) produced per adult per year"	cjj	|
|	.Repro.Spawn.SuccessRate	0	#/m2		Propagules surviving to grow; /m2 instantaneously	cjj	|
|	.Repro.Spawn.Type	budding; motile hormogonia; continuous	$		The process of reproduction	CJJ	|
|							|
|	Organism=	Porites_lutea	1	Scleractinian coral; massive			|
|	.AlternativeTaxa		$		other names/organisms included		|
|	.Size	av=1.8; mx=9.0	m		linear size (diam)	http://www.arkive.org/stony-coral/porites-lutea/#text=Description	|
|	.Occupancy	1	#/m2	as big as a metre !	Observed areal coverages	cjj	|
|	.Tissue.AreaFraction	mx=100;mn=20	%	20% ones - dead centres 	Areal fraction (vertical view) of living tissue	cjj	|
|	.Skeleton.AreaFraction	90	%		Areal proportion of skeletal frame (view vertically)		|
|	.Skeleton.GrowthRate	9	mm/yr		linear extension		|
|	.Skeleton.Morphology	attached(surface); globose	$		Descriptive		|
|	.Skeleton.Zonation	[0;0;100;0]	%	% presences of creature's materials	[%Presence] Set	cjj	|
|	.Skeleton.Disintegrated.Fraction	100	%		Fraction volume it will disintegrate to after death/transport/burial	cjj	|
|	.Skeleton.Disintegrated.Grainsize	av=1.8; mx=9.0	m		Clast/grain size after death/transport/burial	See colony size	|
|	.Enviro.Threats	excess nutrients	$		Limitations on growth/fecundity/survival		|
|	.Enviro.Prefs	sediment tolerant by mucus; bright; stenohaline; oligotrophic	$		Preferences for growth/fecundity/survival	http://www.arkive.org/stony-coral/porites-lutea/#text=Biology	|
|	.Enviro.Range.irrad	"[0,0;500,100;1000,100;2000,30]"	umol_photons/m2/s		"[EnviroParam, Fitness] LineSet"	http://www.botany.hawaii.edu/basch/uhnpscesu/pdfs/sam/Smith2007flowAS.pdf	|
|	.Enviro.Range.salin	"[10,0;37,100;40,10;47,0]"	"[psu,%]"	P_porites	"[EnviroParam, Fitness] LineSet"	file=m157p053.pdf; file=Appendix+B+(G1-NT-REPX0001635)+.pdf	|
|	.Enviro.Range.nutr		ppm		"[EnviroParam, Fitness] LineSet"	cjj	|
|	.Enviro.Range.temp	"[12,0;14,10;27,66;29.6,10;30,0]"	degC		"[EnviroParam, Fitness] LineSet"	cjj	|
|	.Enviro.Range.wd	"[0,5; 12,8; 13,100; 20,0]"	m		"[EnviroParam, Fitness] LineSet"	"Highsmith 2003; Journal of Experimental Marine Biology and Ecology Volume 47, Issue 1, 1980, Pages 55-67 "	|
|	.Enviro.Range.oxygen		ml/l		Dissolved Oxygen		|
|	.Mortality.Longevity	mx=1000	yr		"Maximum, usual lifespan"	http://www.arkive.org/stony-coral/porites-lutea/#text=Description	|
|	.Mortality.Rate	mn=9;mx=13.6	%/yr		"Rate of natural, unexplained mortality"	http://ajol.info/index.php/wiojms/article/viewFile/28434/22082	|
|	.Mortality.Type	"bleaching, crown-of-thorns"	$		"Causes of mortality even in optimum conditions (e.g predation, dieback)"		|
|	.Repro.Clone.ProductionRate	5	%/yr	value by cjj; process by Highsmith1982	Clones produced per adult per year under normal conditions	Highsmith1982	|
|	.Repro.Clone.SuccessRate	14.8	%	value by Loya 1975; process by Highsmith1983	"Successful formation of colonies from clones (e.g., unattached colonies)"	Highsmith1983; Loya 1975	|
|	.Repro.Clone.Type	fragmentation along dead or bored divisions of colonies	$			Highsmith1984	|
|	.Repro.Spawn.MaturitySize		m		Organism/colony size to commence spawning		|
|	.Repro.Spawn.ProductionRate	1	#/adult	Successful long-term offspring	"Spawn (eggs,larvae) produced per adult per year"		|
|	.Repro.Spawn.SuccessRate	mn=13;mx=54	#/m2/yr	On 1.2x1.2m plates; 3 mo collection		http://www.aoml.noaa.gov/general/lib/CREWS/Cleo/St.%20Croix/salt_river77.pdf (diverse corals)	|
|	.Repro.Spawn.Type	sexual; free-swimming gametes; free-swimming larvae; short range dispersal; april nhemi	$		The process of reproduction	http://www.arkive.org/stony-coral/porites-lutea/#text=Biology	|
|							|
|	Organism=	Acropora_palmata	2	Has NO Indo-Pacific Equivalent (DP)		DP	|
|	.AlternativeTaxa		$		other names/organisms included		|
|	.Size	30>>50;mx=200	cm		linear size		|
|	.Occupancy	av=0.1;mx=0.37	#/m2		Observed areal coverages	"Baums et al Ecological Monographs, 76(4), 2006, pp. 503–519"	|
|	.Tissue.AreaFraction	50	%		Areal fraction (vertical view) of living tissue	cjj	|
|	.Skeleton.AreaFraction	90	%		Areal proportion of skeletal frame (view vertically)		|
|	.Skeleton.GrowthRate	1>>2	cm/yr		linear extension		|
|	.Skeleton.Morphology	attached(surface); tabular branching	$		Descriptive		|
|	.Skeleton.Zonation	[0;10;30;40]	%	% presences of creature's materials	[%Presence] Set	cjj	|
|	.Skeleton.Disintegrated.Fraction	10	%		Fraction volume it will disintegrate to after death/transport/burial	cjj	|
|	.Skeleton.Disintegrated.Grainsize	30	cm		Clast/grain size after death/transport/burial		|
|	.Enviro.Threats		$		Limitations on growth/fecundity/survival		|
|	.Enviro.Prefs	bright; steno; oligotrophic; warm	$		Preferences for growth/fecundity/survival	http://www.iucnredlist.org/apps/redlist/details/133006/0	|
|	.Enviro.Range.irrad	50>>1000	umol_photons/m2/s		"[EnviroParam, Fitness] LineSet"	cjj	|
|	.Enviro.Range.salin	"[20,0;36,100;42,0]"	"[psu,%]"	A_sp	"[EnviroParam, Fitness] LineSet"	file=m157p053.pdf; file=Appendix+B+(G1-NT-REPX0001635)+.pdf	|
|	.Enviro.Range.nutr		ppm		"[EnviroParam, Fitness] LineSet"	cjj	|
|	.Enviro.Range.temp	"[0,16;28,63;31.5,37;38,0]"	degC		"[EnviroParam, Fitness] LineSet"	Randall+2004(url=http://www.ncbi.nlm.nih.gov/pubmed/20040751)	|
|	.Enviro.Range.wd	"[0.5,0; 3,100; 5.0,10; 22,1; 40,0]"	m		"[EnviroParam, Fitness] LineSet"		|
|	.Enviro.Range.oxygen		ml/l		Dissolved Oxygen		|
|	.Mortality.Longevity	10	yr		"Maximum, usual lifespan"	http://www.iucnredlist.org/apps/redlist/details/133006/0	|
|	.Mortality.Rate	28	%/yr		"Rate of natural, unexplained mortality"	http://www.aoml.noaa.gov/general/lib/CREWS/Cleo/PuertoRico/prpdfs/ortiz-population.pdf	|
|	.Mortality.Type	white band disease	$				|
|	.Repro.Clone.ProductionRate	10	#/m2	The m2 area of obsvn was unspecified; I assumed 5m2	Clones produced per adult per year under normal conditions	http://onlinelibrary.wiley.com/doi/10.1111/j.1439-0485.1995.tb00415.x/abstract;In Highsmith 1982 list	|
|	.Repro.Clone.SuccessRate	66	%	% of existing colonies	"Successful formation of colonies from clones (e.g., unattached colonies)"	Highsmith 1981	|
|	.Repro.Clone.Type	"breakage; mechanical, bioerosion small storms"	$			Highsmith 1982	|
|	.Repro.Spawn.MaturitySize	9	cm		Organism/colony size to commence spawning	(url=http://www.nmfs.noaa.gov/pr/pdfs/statusreviews/corals.pdf)	|
|	.Repro.Spawn.ProductionRate	10000	#/adult/yr		"Spawn (eggs,larvae) produced per adult per year"	cjj	|
|	.Repro.Spawn.SuccessRate	mx=4.3;mn=0.2	#/m2	larvae found settled	Propagules surviving to grow; /m2 instantaneously	(url=http://www.nmfs.noaa.gov/pr/pdfs/statusreviews/corals.pdf)	|
|	.Repro.Spawn.Type	larval; low numbers; aug boreal; full moon synchrony	$		The process of reproduction; seasonality	http://www.iucnredlist.org/apps/redlist/details/133006/0; http://www.coralscience.org/main/articles/genetics-1/acropora-palmata	|
|							|
|	Organism=	Acropora_cervicornis	3	>> 100 Indo-Pacific equivalents (DP)		TUNNICLIFFE Proc. Natl. Acad. Sci. USA 1981	|
|	.AlternativeTaxa		$		other names/organisms included		|
|	.Size	av=30; mx=100	cm		linear size		|
|	.Occupancy	mx=7.1; av=2.9	#/m2		Observed areal coverages		|
|	.Tissue.AreaFraction	50	%		Areal fraction (vertical view) of living tissue	cjj	|
|	.Skeleton.AreaFraction	10	%		Areal proportion of skeletal frame (view vertically)		|
|	.Skeleton.GrowthRate	12	cm/yr		linear extension		|
|	.Skeleton.Morphology	ramose; branching	$		Descriptive		|
|	.Skeleton.Zonation	[0;10;30;40]	%	% presences of creature's materials	[%Presence] Set	cjj	|
|	.Skeleton.Disintegrated.Fraction	5	%		Fraction volume it will disintegrate to after death/transport/burial	cjj	|
|	.Skeleton.Disintegrated.Grainsize	0.2x20	cm		Clast/grain size after death/transport/burial	cjj	|
|	.Enviro.Threats		$		Limitations on growth/fecundity/survival		|
|	.Enviro.Prefs	marine; wave action; bright; steno; oligotrophic; warm	$		Preferences for growth/fecundity/survival		|
|	.Enviro.Range.irrad	50>>1000	umol_photons/m2/s		"[EnviroParam, Fitness] LineSet"	cjj	|
|	.Enviro.Range.salin	"[20,0;36,100;42,0]"	"[psu,%]"	A_sp	"[EnviroParam, Fitness] LineSet"	file=m157p053.pdf; file=Appendix+B+(G1-NT-REPX0001635)+.pdf	|
|	.Enviro.Range.nutr		ppm		"[EnviroParam, Fitness] LineSet"	cjj	|
|	.Enviro.Range.temp	"[13.3,0;20,100;29,100;30.8,50;32,0]"	degC		"[EnviroParam, Fitness] LineSet"	Roberts(url=http://search.datapages.com/data/sepm/journals/v51-54/data/052/052001/0145.htm)	|
|	.Enviro.Range.wd	"[0,100; 50,80; 20,80; 30,5; 60,0]"	m		"[EnviroParam, Fitness] LineSet"		|
|	.Enviro.Range.oxygen		ml/l		Dissolved Oxygen		|
|	.Mortality.Longevity	mn=10	yr		"Maximum, usual lifespan"	IUCN_Redlist(url=http://www.iucnredlist.org/apps/redlist/details/133381/0)	|
|	.Mortality.Rate	mn=4;mx=80	%/yr		"Rate of natural, unexplained mortality"	http://www.ots.ac.cr/tropiweb/attachments/suppls/sup54-3%20ALMC/10-Quinn-Evaluating.pdf	|
|	.Mortality.Type	disease	$				|
|	.Repro.Clone.ProductionRate	6	%/yr		Clones produced per adult per year under normal conditions		|
|	.Repro.Clone.SuccessRate		%		"Successful formation of colonies from clones (e.g., unattached colonies)"	cjj	|
|	.Repro.Clone.Type	regenerative; on breakage	$			cjj	|
|	.Repro.Spawn.MaturitySize	17	cm		Organism/colony size to commence spawning	(url=http://www.nmfs.noaa.gov/pr/pdfs/statusreviews/corals.pdf)	|
|	.Repro.Spawn.ProductionRate	mx=70;mn=25	%adults/yr	%colonies;individuals releasing gametes	"Spawn (eggs,larvae) produced per adult per year"	http://coral.aoml.noaa.gov/pipermail/coral-list/2003-July/000056.html	|
|	.Repro.Spawn.SuccessRate	mn=13;mx=54	#/yr/m2	/m2; On 1.2x1.2m plates; 3 mo collection	Propagules surviving to grow; /m2 instantaneously	http://www.aoml.noaa.gov/general/lib/CREWS/Cleo/St.%20Croix/salt_river77.pdf (diverse corals)	|
|	.Repro.Spawn.Type	"larval,limited; vegetative fragmentation; new moon; july to aug boreal"	$		The process of reproduction; seasonality	http://www.iucnredlist.org/apps/redlist/details/133006/0; http://coral.aoml.noaa.gov/pipermail/coral-list/2003-July/000056.html	|
|							|
|	Organism=	Favia_favus	4	Scleractinian coral; massive; (DP) Atlantic equivalent = Montastrea cavernosa?		Riegl and Purkis 2009	|
|	.AlternativeTaxa	Favia_favites	$		other names/organisms included		|
|	.Size	mx=0.1	m		linear size		|
|	.Occupancy	mx=20;mn=1	#/m2		Observed areal coverages	Mann (Mann_StreamGate.pdf)	|
|	.Tissue.AreaFraction	90	%		Areal fraction (vertical view) of living tissue	cjj	|
|	.Skeleton.AreaFraction	90	%		Areal proportion of skeletal frame (view vertically)	cjj	|
|	.Skeleton.GrowthRate	7.7	mm/yr		linear extension	(url=http://www.scichina.com:8080/kxtbe/fileup/PDF/09ky0696.pdf)	|
|	.Skeleton.Morphology	attached(surface); globose	$		Descriptive	cjj	|
|	.Skeleton.Zonation	[0;0;100;0]	%	% presences of creature's materials	[%Presence] Set	cjj	|
|	.Skeleton.Disintegrated.Fraction	100	%		Fraction volume it will disintegrate to after death/transport/burial	cjj	|
|	.Skeleton.Disintegrated.Grainsize	av=0.1	m		Clast/grain size after death/transport/burial	see above	|
|	.Enviro.Threats	sedimentation; excess nutrients	$		Limitations on growth/fecundity/survival	cjj	|
|	.Enviro.Prefs	bright; oligotrophic; warm	$		Preferences for growth/fecundity/survival	cjj	|
|	.Enviro.Range.irrad	"[0,0;150,0;700,100;1100,50]"	umol_photons/m2/s	Includes compensation and saturation	"[EnviroParam, Fitness] LineSet"	(url=http://jeb.biologists.org/content/209/2/273.full.pdf)	|
|	.Enviro.Range.salin	"[20,0;36,100;42,0]"	"[psu,%]"		"[EnviroParam, Fitness] LineSet"	file=m157p053.pdf; file=Appendix+B+(G1-NT-REPX0001635)+.pdf	|
|	.Enviro.Range.nutr		ppm		"[EnviroParam, Fitness] LineSet"	cjj	|
|	.Enviro.Range.temp	"[20,0;23,100;28,100;32,0]"	degC	20 & 32 values by cjj	"[EnviroParam, Fitness] LineSet"	http://animal-world.com/encyclo/reef/lg_stony/Favites.php	|
|	.Enviro.Range.wd	"[0,10;5,100;40,50;50,0]"	m		"[EnviroParam, Fitness] LineSet"	http://www.springerlink.com/content/k4j4670v4g6k7780/fulltext.pdf	|
|	.Enviro.Range.oxygen		ml/l		Dissolved Oxygen		|
|	.Mortality.Longevity	mx=900; mn=10	yr		"Maximum, usual lifespan"	http://en.wikipedia.org/wiki/Brain_coral; http://www.iucnredlist.org/apps/redlist/details/133516/0	|
|	.Mortality.Rate	11.25	%/yr	15% over 16mo for Favia favus LizardIs	Rate of death; partial mortality also an issue !	herriott: http://www.int-res.com/articles/meps/21/m021p081.pdf	|
|	.Mortality.Type	"disease, bleaching, A_plancki"	$		"Causes of mortality even in optimum conditions (e.g predation, dieback)"		|
|	.Repro.Clone.ProductionRate	1	%/yr		Clones produced per adult per year under normal conditions	cjj	|
|	.Repro.Clone.SuccessRate	6	%	Recuperating from unpredicted low tide	"Successful formation of colonies from clones (e.g., unattached colonies)"	Loya1975=http://www.tau.ac.il/lifesci/departments/zoology/members/loya/documents/10.pdf	|
|	.Repro.Clone.Type		$				|
|	.Repro.Spawn.MaturitySize		m		Organism/colony size to commence spawning		|
|	.Repro.Spawn.ProductionRate	20>>25	fxn/adult/yr	Successful long-term offspring	"Spawn (eggs,larvae) produced per adult per year"	"Shlesinger++ Hydrobiologia 216/217: 101-108, 1991. for Favia favus"	|
|	.Repro.Spawn.SuccessRate	mn=13;mx=54	#/yr	/m2; On 1.2x1.2m plates; 3 mo collection	Propagules surviving to grow; /m2 instantaneously	http://www.aoml.noaa.gov/general/lib/CREWS/Cleo/St.%20Croix/salt_river77.pdf (diverse corals)	|
|	.Repro.Spawn.Type	larval; brooded; april nhemi	$		The process of reproduction; seasonality		|
|							|
|	Organism=	Halimeda_tuna	5	"Green alga, calcified"		Vroom et al. 2003 Hydrobiologia 501: 149–166.	|
|	.AlternativeTaxa		$		other names/organisms included		|
|	.Size	mx=10	cm		linear size		|
|	.Occupancy	mx=224; av=50	#/m2		Observed areal coverages		|
|	.Tissue.AreaFraction	10	%		Areal fraction (vertical view) of living tissue	cjj	|
|	.Skeleton.AreaFraction	10	%		Areal proportion of skeletal frame (view vertically)		|
|	.Skeleton.GrowthRate	100	%/yr	complete replacement	linear extension	cjj	|
|	.Skeleton.Morphology	attached(holdfast); articulated frondose	$		Descriptive		|
|	.Skeleton.Zonation	[0;0;100;0]	%	% presences of creature's materials	[%Presence] Set	cjj	|
|	.Skeleton.Disintegrated.Fraction	5	%		Fraction volume it will disintegrate to after death/transport/burial	cjj	|
|	.Skeleton.Disintegrated.Grainsize	1	cm		Clast/grain size after death/transport/burial		|
|	.Enviro.Threats		$		Limitations on growth/fecundity/survival		|
|	.Enviro.Prefs	coral reef lagoons; mid-water banks; nutrient flux	$		Preferences for growth/fecundity/survival		|
|	.Enviro.Range.irrad	"[0,0;100,50;800,100;1600,66]"	umol_photons/m2/s		"[EnviroParam, Fitness] LineSet"	Littler+1988 (no added nutrients)	|
|	.Enviro.Range.salin	"[15,0;36,100;40,0]"	"[psu,%]"		"[EnviroParam, Fitness] LineSet"	(file=CHP4.PDF ; file=Biber&Irlandi_2006_AqBot85.pdf)	|
|	.Enviro.Range.nutr		ppm		"[EnviroParam, Fitness] LineSet"	cjj	|
|	.Enviro.Range.temp	25>>32	degC		"[EnviroParam, Fitness] LineSet"		|
|	.Enviro.Range.wd	"[0,0; 8,1; 20,10; 55,19; 76,15; 121,0]"	m		"[EnviroParam, Fitness] LineSet"		|
|	.Enviro.Range.oxygen		ml/l		Dissolved Oxygen		|
|	.Mortality.Longevity	1	yr		"Maximum, usual lifespan"		|
|	.Mortality.Rate	mx=100;mn=30	%/yr	actually /284d; orig as #/yr - changed by cjj to %/yr	"Rate of natural, unexplained mortality"	Vroom et al. 2003 Hydrobiologia 501: 149–166.	|
|	.Mortality.Type	seasonal dieback	$		"Causes of mortality even in optimum conditions (e.g predation, dieback)"	- Clifton 1997 Science	|
|	.Repro.Clone.ProductionRate	2.3+1.7	#/adult	indvidual; instantaneous	Clones produced per adult per year under normal conditions	Vroom et al. 2003 Hydrobiologia 501: 149–166.	|
|	.Repro.Clone.SuccessRate	1	%		"Successful formation of colonies from clones (e.g., unattached colonies)"		|
|	.Repro.Clone.Type		$	with_dieback		- Clifton 1997 Science	|
|	.Repro.Spawn.MaturitySize		m		Organism/colony size to commence spawning		|
|	.Repro.Spawn.ProductionRate	600	%/yr	+1x each 2 mo	"Spawn (eggs,larvae) produced per adult per year"		|
|	.Repro.Spawn.SuccessRate	10	%/yr		Propagules surviving to grow; /m2 instantaneously	cjj	|
|	.Repro.Spawn.Type	gametes; holocarpic; summer to early autumn	$		The process of reproduction; seasonality	Vroom et al. 2003 Hydrobiologia 501: 149–166.	|
|							|
|	Organism=	Lithothamnion_corallioides	6		Species commonly forms rhodoliths	Lithothamnion corallioides Crouan and Crouan (1867).	|
|	.AlternativeTaxa		$		other names/organisms included		|
|	.Size	mx=10	cm		linear size	cjj	|
|	.Occupancy	100	%		Observed areal coverages	cjj	|
|	.Tissue.AreaFraction	100	%		Areal fraction (vertical view) of living tissue	cjj	|
|	.Skeleton.AreaFraction	90	%		Areal proportion of skeletal frame (view vertically)	cjj	|
|	.Skeleton.GrowthRate	0.4	mm/yr	summer	linear extension	http://seagrant.uaf.edu/news/04ASJ/Foster-2001-JPhycol.pdf	|
|	.Skeleton.Morphology	massive; globular or branched	$		Descriptive		|
|	.Skeleton.Zonation	[0;100;0;0]	%	% presences of creature's materials	[%Presence] Set	cjj	|
|	.Skeleton.Disintegrated.Fraction	100	%		Fraction volume it will disintegrate to after death/transport/burial	cjj	|
|	.Skeleton.Disintegrated.Grainsize	mx=10; av=1	cm		Clast/grain size after death/transport/burial		|
|	.Enviro.Threats	lighted	$		Limitations on growth/fecundity/survival		|
|	.Enviro.Prefs	steno	$		Preferences for growth/fecundity/survival		|
|	.Enviro.Range.irrad	"[0,0;20,50;100,100;150,90;333,80]"	umol_photons/m2/s		"[EnviroParam, Fitness] LineSet"	ICHIKl et al.: Photosynthesis and Growth of L. yessoense	|
|	.Enviro.Range.salin		"[psu,%]"		"[EnviroParam, Fitness] LineSet"	cjj	|
|	.Enviro.Range.nutr		ppm		"[EnviroParam, Fitness] LineSet"		|
|	.Enviro.Range.temp	"[5,0;10,75;20,100;25,66]"	degC		"[EnviroParam, Fitness] LineSet"	ICHIKI et al.: Photosynthesis and Growth of L. yessoense	|
|	.Enviro.Range.wd	"[2, 40;5, 20; 7, 100; 18,60; 30,5; 90, 1] "	m		"[EnviroParam, Fitness] LineSet"	http://seagrant.uaf.edu/news/04ASJ/Foster-2001-JPhycol.pdf	|
|	.Enviro.Range.oxygen		ml/l		Dissolved Oxygen		|
|	.Mortality.Longevity	mn=100	yr	"? written as "">100"""	"Maximum, usual lifespan"	http://seagrant.uaf.edu/news/04ASJ/Foster-2001-JPhycol.pdf	|
|	.Mortality.Rate		%/yr		"Rate of natural, unexplained mortality"		|
|	.Mortality.Type		$				|
|	.Repro.Clone.ProductionRate	0	%/yr		Clones produced per adult per year under normal conditions		|
|	.Repro.Clone.SuccessRate	0	%		"Successful formation of colonies from clones (e.g., unattached colonies)"		|
|	.Repro.Clone.Type	tetrasporangial conceptacles =>asexual	$				|
|	.Repro.Spawn.MaturitySize		m		Organism/colony size to commence spawning		|
|	.Repro.Spawn.ProductionRate	1000	#/yr		"Spawn (eggs,larvae) produced per adult per year"	cjj	|
|	.Repro.Spawn.SuccessRate	1	%/yr		Propagules surviving to grow; /m2 instantaneously	cjj	|
|	.Repro.Spawn.Type		$		The process of reproduction; seasonality		|
|							|
|	Organism=	Hydrolithon_onkodes	7	Encrusting alga of reef ridge tops		=Porolithon_onkodes	|
|	.AlternativeTaxa				other names/organisms included		|
|	.Size	mn=2;mx=20	cm	V only	linear size	Adey: http://si-pddr.si.edu/dspace/bitstream/10088/1113/2/SCMS-0015-Lo_res.pdf	|
|	.Occupancy	mx=60	%	CarryingCapacity	Observed areal coverages		|
|	.Tissue.AreaFraction	100	%		Areal fraction (vertical view) of living tissue	cjj	|
|	.Skeleton.AreaFraction	90	%		Areal proportion of skeletal frame (view vertically)		|
|	.Skeleton.GrowthRate	3	mm/yr		linear extension		|
|	.Skeleton.Morphology	massive; encrusting	$		Descriptive		|
|	.Skeleton.Zonation	[0;100;0;0]	%	% presences of creature's materials	[%Presence] Set	cjj	|
|	.Skeleton.Disintegrated.Fraction	100	%		Fraction volume it will disintegrate to after death/transport/burial	cjj	|
|	.Skeleton.Disintegrated.Grainsize				Clast/grain size after death/transport/burial		|
|	.Enviro.Threats		$		Limitations on growth/fecundity/survival		|
|	.Enviro.Prefs	lighted; marine; emergent to submerged; steno; warm	$		Preferences for growth/fecundity/survival		|
|	.Enviro.Range.irrad	"[10,0;200,100;600,100;2000,30]"	umol_photons/m2/s		"[EnviroParam, Fitness] LineSet"	Wilson+2004	|
|	.Enviro.Range.salin	31>>35	psu		Salinity	cjj	|
|	.Enviro.Range.nutr		ppm		"[EnviroParam, Fitness] LineSet"		|
|	.Enviro.Range.temp	25>>33	degC		WaterTemperature	cjj	|
|	.Enviro.Range.wd	"[-1,60; 2,20; 15,20; 25,3; 52,0]"	m		"[EnviroParam, Fitness] LineSet"	Camoin 2006; Adey: http://si-pddr.si.edu/dspace/bitstream/10088/1113/2/SCMS-0015-Lo_res.pdf	|
|	.Enviro.Range.oxygen		ml/l		Dissolved Oxygen		|
|	.Mortality.Longevity		yr		"Maximum, usual lifespan"		|
|	.Mortality.Rate		%/yr		"Rate of natural, unexplained mortality"		|
|	.Mortality.Type		$				|
|	.Repro.Clone.ProductionRate	0	%/yr		Clones produced per adult per year under normal conditions		|
|	.Repro.Clone.SuccessRate	0	%		"Successful formation of colonies from clones (e.g., unattached colonies)"		|
|	.Repro.Clone.Type		$				|
|	.Repro.Spawn.MaturitySize		m		Organism/colony size to commence spawning		|
|	.Repro.Spawn.ProductionRate	1000	%/yr		"Spawn (eggs,larvae) produced per adult per year"	cjj	|
|	.Repro.Spawn.SuccessRate	1	%		Propagules surviving to grow; %	cjj	|
|	.Repro.Spawn.Type		$		The process of reproduction; seasonality		|
|							|
|	Organism=	Lophelia_pertusa	8	Deep water coral			|
|	.AlternativeTaxa				other names/organisms included		|
|	.Size	mx=1>>3	m		linear size	http://www.safmc.net/HabitatManagement/DeepwaterCorals/Lophelia/tabid/247/Default.aspx	|
|	.Occupancy	0.1	%		Observed areal coverages		|
|	.Tissue.AreaFraction	2	%		Areal fraction (vertical view) of living tissue	cjj	|
|	.Skeleton.AreaFraction	5	%		Areal proportion of skeletal frame (view vertically)		|
|	.Skeleton.GrowthRate	10	mm/yr		linear extension	http://en.wikipedia.org/wiki/Deep_water_coral#Growth_and_reproduction	|
|	.Skeleton.Morphology	thicket; bushy	$		Descriptive		|
|	.Skeleton.Zonation	[0;0;50;50]	%	% presences of creature's materials	[%Presence] Set	cjj	|
|	.Skeleton.Disintegrated.Fraction	5	%		Fraction volume it will disintegrate to after death/transport/burial	cjj	|
|	.Skeleton.Disintegrated.Grainsize	mn=1;mx=5	cm		Clast/grain size after death/transport/burial		|
|	.Enviro.Threats		$		Limitations on growth/fecundity/survival		|
|	.Enviro.Prefs	deep water; cold water; eutrophic; aphotic; disphotic; mesotrophic	$		Preferences for growth/fecundity/survival		|
|	.Enviro.Range.irrad	"[0,-99]"	mol_photons/m2/d		"[EnviroParam, Fitness] LineSet"	cjj	|
|	.Enviro.Range.salin	"[33,50;35,100;37,50]"	"[psu,%]"		"[EnviroParam, Fitness] LineSet"	"(file=Phenotype-Specific Bacterial Communities in the Cold-Water Coral Lophelia pertusa (Scleractinia) and Their Implications for the Coral's Nutrition, Health, and …)Distribution.htm"	|
|	.Enviro.Range.nutr		ppm		"[EnviroParam, Fitness] LineSet"	cjj	|
|	.Enviro.Range.temp	"[4,0;6,100;10,100;12,0]"	degC	0 & 15dg values by cjj	"[EnviroParam, Fitness] LineSet"	"(file=Phenotype-Specific Bacterial Communities in the Cold-Water Coral Lophelia pertusa (Scleractinia) and Their Implications for the Coral's Nutrition, Health, and …)Distribution.htm"	|
|	.Enviro.Range.wd	"[35,0;75,10; 370,50; 500,100; 700,100; 850,50;3000,0]"	m		"[EnviroParam, Fitness] LineSet"	"(file=Phenotype-Specific Bacterial Communities in the Cold-Water Coral Lophelia pertusa (Scleractinia) and Their Implications for the Coral's Nutrition, Health, and …)Distribution.htm"	|
|	.Enviro.Range.oxygen	3>>5	ml/l		Dissolved Oxygen	"(file=Phenotype-Specific Bacterial Communities in the Cold-Water Coral Lophelia pertusa (Scleractinia) and Their Implications for the Coral's Nutrition, Health, and …)Distribution.htm"	|
|	.Mortality.Longevity	700	yr	Florida	"Maximum, usual lifespan"	http://www.safmc.net/HabitatManagement/DeepwaterCorals/Lophelia/tabid/247/Default.aspx	|
|	.Mortality.Rate		%/yr		"Rate of natural, unexplained mortality"		|
|	.Mortality.Type	bioeroding sponges	$		"Causes of mortality even in optimum conditions (e.g predation, dieback)"	Gass and Roberts 2010	|
|	.Repro.Clone.ProductionRate	0	%/yr		Clones produced per adult per year under normal conditions		|
|	.Repro.Clone.SuccessRate	0	%		"Successful formation of colonies from clones (e.g., unattached colonies)"	cjj	|
|	.Repro.Clone.Type	0	$				|
|	.Repro.Spawn.MaturitySize		m		Organism/colony size to commence spawning		|
|	.Repro.Spawn.ProductionRate	mn=144; mx=480	%	#/adult	"Spawn (eggs,larvae) produced per adult per year"	(various deepsea corals) http://www.earth.ox.ac.uk/~samb/Publications_files/Burgess%20%26%20Babcock%202005.pdf	|
|	.Repro.Spawn.SuccessRate	1	#/m2		Successful long-term offspring; Number of planulae surviving to grow; /m2 instantaneously	cjj	|
|	.Repro.Spawn.Type	egg; lecithotropic; sep to oct boreal; jan to feb boreal	$		The process of reproduction; seasonality	http://oceanexplorer.noaa.gov/explorations/09lophelia/background/edu/purpose.html; waller 2005	|
|							|
|	Organism=	Celleporella_hyalina	10	Bryozoa : Cheilostomata)		" (L.),"	|
|	.AlternativeTaxa				other names/organisms included		|
|	.Size	3	cm		linear size	cjj	|
|	.Occupancy	mn=0;mx=460	#/m2		Observed areal coverages	Kuklinski++ Polar Biol (2006) 29: 652–661	|
|	.Tissue.AreaFraction	10	%		Areal fraction (vertical view) of living tissue	cjj	|
|	.Skeleton.AreaFraction	5	%		Areal proportion of skeletal frame (view vertically)	cjj	|
|	.Skeleton.GrowthRate	3	mm/yr	not Celleporella	linear extension	Polar Biol (2007) 30:1069–1081	|
|	.Skeleton.Morphology	thicket; hemispherical	$		Descriptive		|
|	.Skeleton.Zonation	[0;100;0;0]	%	% presences of creature's materials	[%Presence] Set	cjj	|
|	.Skeleton.Disintegrated.Fraction	5	%		Fraction volume it will disintegrate to after death/transport/burial	cjj	|
|	.Skeleton.Disintegrated.Grainsize	0.5	cm		Clast/grain size after death/transport/burial		|
|	.Enviro.Threats		$		Limitations on growth/fecundity/survival		|
|	.Enviro.Prefs	steno marine ; slow flow rate; upper_euphotic; steno	$		Preferences for growth/fecundity/survival		|
|	.Enviro.Range.irrad	"[0,-99]"	mol_photons/m2/d		"[EnviroParam, Fitness] LineSet"	cjj	|
|	.Enviro.Range.salin	30>>40	psu		"[EnviroParam, Fitness] LineSet"	(file=winston_fulltext.pdf)	|
|	.Enviro.Range.nutr		ppm		"[EnviroParam, Fitness] LineSet"	cjj	|
|	.Enviro.Range.temp	"[5,0;7,50;15,100;20,0]"	degC		"[EnviroParam, Fitness] LineSet"	"(file=costelloe_fulltext.pdf; Hughes (10326–10330   PNAS   September 2, 2003   vol. 100   no. 18)"	|
|	.Enviro.Range.wd	"[0,50;5,100;40,0]"	m	"Cinctipora elegans,"	"[EnviroParam, Fitness] LineSet"	cjj	|
|	.Enviro.Range.oxygen	5.8>>7	ml/l		Dissolved Oxygen		|
|	.Mortality.Longevity	4	mo	"enforced in UK,>18 elsewhere"	"Maximum, usual lifespan"	"J. M. Cancino and R.N. Hughes (J. Exp. Mar. Biol. Ecol., 1987, Vol. 112, pp. 109-130)"	|
|	.Mortality.Rate	70	%/yr		"Rate of natural, unexplained mortality"	http://www.int-res.com/articles/meps/210/m210p085.pdf	|
|	.Mortality.Type	nudibranch predation	$		"Causes of mortality even in optimum conditions (e.g predation, dieback)"		|
|	.Repro.Clone.ProductionRate	0	%/yr		Clones produced per adult per year under normal conditions		|
|	.Repro.Clone.SuccessRate	0	%		"Successful formation of colonies from clones (e.g., unattached colonies)"		|
|	.Repro.Clone.Type		$				|
|	.Repro.Spawn.MaturitySize		m		Organism/colony size to commence spawning		|
|	.Repro.Spawn.ProductionRate	3>>4	#/yr	?? #/adult/3mo; larvae produced per female; f had longevity 3-4mo	"Spawn (eggs,larvae) produced per adult per year"	"J. M. Cancino and R.N. Hughes (J. Exp. Mar. Biol. Ecol., 1987, Vol. 112, pp. 109-130)"	|
|	.Repro.Spawn.SuccessRate	mx=10	%		Propagules surviving to grow; /m2 instantaneously	"Frank Kenneth McKinney, Marjorie Jackson McKinney, ( Facies Volume 29, Number 1, 119-131)"	|
|	.Repro.Spawn.Type	larval; external fertilization; after 91 to 158days	$		The process of reproduction; seasonality	"J. M. Cancino and R.N. Hughes (J. Exp. Mar. Biol. Ecol., 1987, Vol. 112, pp. 109-130)"	|
|							|
|							|
|	Organism=	Marginopora_vertebralis	9	Foraminiferida : Miliolina			|
|	.AlternativeTaxa				other names/organisms included		|
|	.Size	1.3>>2.7; av=2.1; mx=3.0	cm		linear size (diam)	"Lee et 2009 ""A Note on Asexual ..."""	|
|	.Occupancy	1000	#/m2		Observed areal coverages		|
|	.Tissue.AreaFraction	100	%		Areal fraction (vertical view) of living tissue		|
|	.Skeleton.AreaFraction	100	%		Areal proportion of skeletal frame (view vertically)		|
|	.Skeleton.GrowthRate	7.7>>1.8	%wt/yr		linear extension		|
|	.Skeleton.Morphology	disc	$		Descriptive		|
|	.Skeleton.Zonation	[0;100;0;0]	%		[%Presence] Set		|
|	.Skeleton.Disintegrated.Fraction	100	%		Fraction volume it will disintegrate to after death/transport/burial		|
|	.Skeleton.Disintegrated.Grainsize	1.3>>2.7_W; av=2.1_W; 1.1>>2.1_H; av=1.8_W	cm		Clast/grain size after death/transport/burial		|
|	.Enviro.Threats		$		Limitations on growth/fecundity/survival	"Lee et 2009 ""A Note on Asexual ..."""	|
|	.Enviro.Prefs	stenohaline; photosynthetic; warm-water	$		Preferences for growth/fecundity/survival		|
|	.Enviro.Range.irrad	"[0,0;100,50;200,100;1500,100]"	umol_photons/m2/s		"[EnviroParam, Fitness] LineSet"	FUJITa & FUJIMURA 2008 (no inhibition)	|
|	.Enviro.Range.salin	"[36,100]"	"[psu,%]"		"[EnviroParam, Fitness] LineSet"	Koehler-Rink+2000	|
|	.Enviro.Range.nutr		ppm		"[EnviroParam, Fitness] LineSet"		|
|	.Enviro.Range.temp	"[21,0;27,100;33,0]"	degC		"[EnviroParam, Fitness] LineSet"	Rivers et al 2009 sed geol.pdf	|
|	.Enviro.Range.wd	"[0,0; 10,100; 20,50; 50,0]"	m		"[EnviroParam, Fitness] LineSet"	Rivers et al 2009 sed geol.pdf	|
|	.Enviro.Range.oxygen		ml/l		Dissolved Oxygen		|
|	.Mortality.Longevity	3.5	yrs		"Maximum, usual lifespan"	C. A. ROSS 1975. Calcium Carbonate Fixation by Large Reef-Dwelling Foraminifera.	|
|	.Mortality.Rate	8	%/yr		"Rate of natural, unexplained mortality"	cjj	|
|	.Mortality.Type	fish_predation	$		"Causes of mortality even in optimum conditions (e.g predation, dieback)"		|
|	.Repro.Clone.ProductionRate	0	%/yr		Clones produced per adult per year under normal conditions		|
|	.Repro.Clone.SuccessRate	0	%		"Successful formation of colonies from clones (e.g., unattached colonies)"		|
|	.Repro.Clone.Type	0	$				|
|	.Repro.Spawn.MaturitySize		m		Organism/colony size to commence spawning		|
|	.Repro.Spawn.ProductionRate	100	#/yr		"Spawn (eggs,larvae) produced per adult per year"	Ross 1973	|
|	.Repro.Spawn.SuccessRate	10	%		Propagules surviving to grow; /m2 instantaneously		|
|	.Repro.Spawn.Type	twice/yr	$		The process of reproduction; seasonality	"Fujita+2000 ""Population dynamics of Marginopora kudakajimensis ..."""	|
|							|
|	ALL_END						|