-
1
-
-
0025183708
-
Basic local alignment search tool
-
DOI 10.1016/S0022-2836(05)80360-2
-
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. 1990. Basic local alignment search tool. Journal of Molecular Biology 215:403-410 DOI 10.1016/S0022-2836(05)80360-2.
-
(1990)
Journal of Molecular Biology
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
3
-
-
0035859018
-
Ecosystems: reef corals bleach to survive change
-
DOI 10.1038/35081151
-
Baker AC. 2001. Ecosystems: reef corals bleach to survive change. Nature 411:765-766 DOI 10.1038/35081151.
-
(2001)
Nature
, vol.411
, pp. 765-766
-
-
Baker, A.C.1
-
4
-
-
0344440739
-
Flexibility and specificity in coral-algal symbiosis: diversity, ecology, and biogeography of Symbiodinium
-
DOI 10.1146/annurev.ecolsys.34.011802.132417
-
Baker AC. 2003. Flexibility and specificity in coral-algal symbiosis: diversity, ecology, and biogeography of Symbiodinium. Annual Review of Ecology, Evolution, and Systematics 34:661-689 DOI 10.1146/annurev.ecolsys.34.011802.132417.
-
(2003)
Annual Review of Ecology, Evolution, and Systematics
, vol.34
, pp. 661-689
-
-
Baker, A.C.1
-
5
-
-
34249100346
-
Multiple symbiotic partnerships are common in scleractinian corals, but not in octocorals: comment on Goulet (2006)
-
DOI 10.3354/meps335237
-
Baker AC, Romanski AM. 2007. Multiple symbiotic partnerships are common in scleractinian corals, but not in octocorals: comment on Goulet (2006). Marine Ecology Progress Series 335:237-242 DOI 10.3354/meps335237.
-
(2007)
Marine Ecology Progress Series
, vol.335
, pp. 237-242
-
-
Baker, A.C.1
Romanski, A.M.2
-
6
-
-
34548492476
-
Distribution and diversity of archaeal ammonia monooxygenase genes associated with corals
-
DOI 10.1128/AEM.00461-07
-
Beman JM, Roberts KJ, Wegley L, Rohwer F, Francis CA. 2007. Distribution and diversity of archaeal ammonia monooxygenase genes associated with corals. Applied and Environmental Microbiology 73:5642-5647 DOI 10.1128/AEM.00461-07.
-
(2007)
Applied and Environmental Microbiology
, vol.73
, pp. 5642-5647
-
-
Beman, J.M.1
Roberts, K.J.2
Wegley, L.3
Rohwer, F.4
Francis, C.A.5
-
8
-
-
33748641529
-
The role of zooxanthellae in the thermal tolerance of corals:a 'nugget of hope' for coral reefs in an era of climate change
-
DOI 10.1098/rspb.2006.3567
-
Berkelmans R, van Oppen MJH. 2006. The role of zooxanthellae in the thermal tolerance of corals:a 'nugget of hope' for coral reefs in an era of climate change. Proceedings of the Royal Society B:Biological Sciences 273:2305-2312 DOI 10.1098/rspb.2006.3567.
-
(2006)
Proceedings of the Royal Society B:Biological Sciences
, vol.273
, pp. 2305-2312
-
-
Berkelmans, R.1
van Oppen, M.J.H.2
-
9
-
-
77956518397
-
Genetic divergence across habitats in the widespread coral Seriatopora hystrix and its associated Symbiodinium
-
DOI 10.1371/journal.pone.0010871
-
Bongaerts P, Riginos C, Ridgway T, Sampayo EM, van Oppen MJH, Englebert N, Vermeulen F, Hoegh-Guldberg O. 2010. Genetic divergence across habitats in the widespread coral Seriatopora hystrix and its associated Symbiodinium. PLoS ONE 5:e10871 DOI 10.1371/journal.pone.0010871.
-
(2010)
PLoS ONE
, vol.5
-
-
Bongaerts, P.1
Riginos, C.2
Ridgway, T.3
Sampayo, E.M.4
van Oppen, M.J.H.5
Englebert, N.6
Vermeulen, F.7
Hoegh-Guldberg, O.8
-
10
-
-
84868138236
-
Taxonomic classification of the reef coral family Mussidae (Cnidaria: Anthozoa: Scleractinia)
-
DOI 10.1111/j.1096-3642.2012.00855.x
-
Budd AF, Fukami H, Smith ND, Knowlton N. 2012. Taxonomic classification of the reef coral family Mussidae (Cnidaria: Anthozoa: Scleractinia). Zoological Journal of the Linnean Society 166:465-529 DOI 10.1111/j.1096-3642.2012.00855.x.
-
(2012)
Zoological Journal of the Linnean Society
, vol.166
, pp. 465-529
-
-
Budd, A.F.1
Fukami, H.2
Smith, N.D.3
Knowlton, N.4
-
11
-
-
4344717063
-
Overlapping species boundaries and hybridization within the Montastraea "annularis" reef coral complex in the Pleistocene of the Bahama Islands
-
DOI 10.1666/0094-8373(2004)030<0396:OSBAHW>2.0.CO;2
-
Budd AF, PandolfiJM. 2004. Overlapping species boundaries and hybridization within the Montastraea "annularis" reef coral complex in the Pleistocene of the Bahama Islands. Paleobiology 30:396-425 DOI 10.1666/0094-8373(2004)030<0396:OSBAHW>2.0.CO;2.
-
(2004)
Paleobiology
, vol.30
, pp. 396-425
-
-
Budd, A.F.1
Pandolfi, J.M.2
-
12
-
-
0000526510
-
Coral bleaching as an adaptive mechanism
-
DOI 10.2307/1312064
-
Buddemeier RW, Fautin DG. 1993. Coral bleaching as an adaptive mechanism. BioScience 43:320-326 DOI 10.2307/1312064.
-
(1993)
BioScience
, vol.43
, pp. 320-326
-
-
Buddemeier, R.W.1
Fautin, D.G.2
-
13
-
-
65549092782
-
Juvenile corals can acquire more carbon from high-performance algal symbionts
-
DOI 10.1007/s00338-009-0478-8
-
Cantin NE, Oppen MJH, Willis BL, Mieog JC, Negri AP. 2009. Juvenile corals can acquire more carbon from high-performance algal symbionts. Coral Reefs 28:405-414 DOI 10.1007/s00338-009-0478-8.
-
(2009)
Coral Reefs
, vol.28
, pp. 405-414
-
-
Cantin, N.E.1
Oppen, M.J.H.2
Willis, B.L.3
Mieog, J.C.4
Negri, A.P.5
-
14
-
-
78649995414
-
Coral-associated bacterial communities on Ningaloo Reef, Western Australia
-
DOI 10.1111/j.1574-6941.2010.00986.x
-
Ceh J, Van Keulen M, Bourne DG. 2010. Coral-associated bacterial communities on Ningaloo Reef, Western Australia. FEMS Microbiology Ecology 75:134-144 DOI 10.1111/j.1574-6941.2010.00986.x.
-
(2010)
FEMS Microbiology Ecology
, vol.75
, pp. 134-144
-
-
Ceh, J.1
Van Keulen, M.2
Bourne, D.G.3
-
15
-
-
19544374872
-
Genetic diversity of symbiotic dinoflagellates in the genus Symbiodinium
-
DOI 10.1016/j.protis.2005.02.004
-
Coffroth MA, Santos SR. 2005. Genetic diversity of symbiotic dinoflagellates in the genus Symbiodinium. Protist 156:19-34 DOI 10.1016/j.protis.2005.02.004.
-
(2005)
Protist
, vol.156
, pp. 19-34
-
-
Coffroth, M.A.1
Santos, S.R.2
-
16
-
-
84876442246
-
Chromera velia is endosymbiotic in larvae of the reef corals Acropora digitifera and A
-
DOI 10.1016/j.protis.2012.08.003
-
Cumbo VR, Baird AH, Moore RB, Negri AP, Neilan BA, Salih A, van Oppen MJH, Wang Y, Marquis CP. 2013. Chromera velia is endosymbiotic in larvae of the reef corals Acropora digitifera and A. tenuis. Protist 164:237-244 DOI 10.1016/j.protis.2012.08.003.
-
(2013)
tenuis. Protist
, vol.164
, pp. 237-244
-
-
Cumbo, V.R.1
Baird, A.H.2
Moore, R.B.3
Negri, A.P.4
Neilan, B.A.5
Salih, A.6
van Oppen, M.J.H.7
Wang, Y.8
Marquis, C.P.9
-
17
-
-
79953310937
-
SHRiMP2: sensitive yet practical short read mapping
-
DOI 10.1093/bioinformatics/btr046
-
David M, Dzamba M, Lister D, Ilie L, Brudno M. 2011. SHRiMP2: sensitive yet practical short read mapping. Bioinformatics 27:1011-1012 DOI 10.1093/bioinformatics/btr046.
-
(2011)
Bioinformatics
, vol.27
, pp. 1011-1012
-
-
David, M.1
Dzamba, M.2
Lister, D.3
Ilie, L.4
Brudno, M.5
-
18
-
-
84899053398
-
A cross-ocean comparison of responses to settlement cues in reef-building corals
-
DOI 10.7717/peerj.333
-
Davies SW, Meyer E, Guermond SM, Matz MV. 2014. A cross-ocean comparison of responses to settlement cues in reef-building corals. Peer J 2:e333 DOI 10.7717/peerj.333.
-
(2014)
Peer J
, vol.2
-
-
Davies, S.W.1
Meyer, E.2
Guermond, S.M.3
Matz, M.V.4
-
19
-
-
84874189672
-
Novel polymorphic microsatellite markers for population genetics of the endangered Caribbean star coral, Montastraea faveolata
-
DOI 10.1007/s12526-012-0133-4
-
Davies SW, Rahman M, Meyer E, Green EA, Buschiazzo E, Medina M, Matz MV. 2013. Novel polymorphic microsatellite markers for population genetics of the endangered Caribbean star coral, Montastraea faveolata. Marine Biodiversity 43:167-172 DOI 10.1007/s12526-012-0133-4.
-
(2013)
Marine Biodiversity
, vol.43
, pp. 167-172
-
-
Davies, S.W.1
Rahman, M.2
Meyer, E.3
Green, E.A.4
Buschiazzo, E.5
Medina, M.6
Matz, M.V.7
-
20
-
-
77950247237
-
Coral host transcriptomic states are correlated with Symbiodinium genotypes
-
DOI 10.1111/j.1365-294X.2010.04534.x
-
DeSalvo MK, Sunagawa S, Fisher PL, Voolstra CR, Iglesias-Prieto R, Medina M. 2010. Coral host transcriptomic states are correlated with Symbiodinium genotypes. Molecular Ecology 19:1174-1186 DOI 10.1111/j.1365-294X.2010.04534.x.
-
(2010)
Molecular Ecology
, vol.19
, pp. 1174-1186
-
-
DeSalvo, M.K.1
Sunagawa, S.2
Fisher, P.L.3
Voolstra, C.R.4
Iglesias-Prieto, R.5
Medina, M.6
-
21
-
-
0037070095
-
No habitat correlation of zooxanthellae in the coral genus Madracis on a Curačao reef
-
DOI 10.3354/meps227221
-
Diekmann OE, Bak RPM, Tonk L, StamWT, Olsen JL. 2002. No habitat correlation of zooxanthellae in the coral genus Madracis on a Curačao reef. Marine Ecology Progress Series 227:221-232 DOI 10.3354/meps227221.
-
(2002)
Marine Ecology Progress Series
, vol.227
, pp. 221-232
-
-
Diekmann, O.E.1
Bak, R.P.M.2
Tonk, L.3
Stam, W.T.4
Olsen, J.L.5
-
22
-
-
0032408156
-
Host benefit and the evolution of specialization in symbiosis
-
DOI 10.1046/j.1365-2540.1998.00455.x
-
Douglas AE. 1998. Host benefit and the evolution of specialization in symbiosis. Heredity 81:599-603 DOI 10.1046/j.1365-2540.1998.00455.x.
-
(1998)
Heredity
, vol.81
, pp. 599-603
-
-
Douglas, A.E.1
-
23
-
-
84882759440
-
STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method
-
DOI 10.1007/s12686-011-9548-7
-
Earl D, vonHoldt B. 2012. STRUCTURE HARVESTER: a website and program for visualizing STRUCTURE output and implementing the Evanno method. Conservation Genetics Resources 4:359-361 DOI 10.1007/s12686-011-9548-7.
-
(2012)
Conservation Genetics Resources
, vol.4
, pp. 359-361
-
-
Earl, D.1
vonHoldt, B.2
-
24
-
-
77957244650
-
Search and clustering orders of magnitude faster than BLAST
-
DOI 10.1093/bioinformatics/btq461
-
Edgar RC. 2010. Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26:2460-2461 DOI 10.1093/bioinformatics/btq461.
-
(2010)
Bioinformatics
, vol.26
, pp. 2460-2461
-
-
Edgar, R.C.1
-
25
-
-
21244479740
-
Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study
-
DOI 10.1111/j.1365-294X.2005.02553.x
-
Evanno G, Regnaut S, Goudet J. 2005. Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Molecular Ecology 14:2611-2620 DOI 10.1111/j.1365-294X.2005.02553.x.
-
(2005)
Molecular Ecology
, vol.14
, pp. 2611-2620
-
-
Evanno, G.1
Regnaut, S.2
Goudet, J.3
-
26
-
-
0041817568
-
Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies
-
Falush D, Stephens M, Pritchard JK. 2003. Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies. Genetics 164:1567-1587.
-
(2003)
Genetics
, vol.164
, pp. 1567-1587
-
-
Falush, D.1
Stephens, M.2
Pritchard, J.K.3
-
27
-
-
34447120219
-
Inference of population structure using multilocus genotype data: dominant markers and null alleles
-
DOI 10.1111/j.1471-8286.2007.01758.x
-
Falush D, Stephens M, Pritchard JK. 2007. Inference of population structure using multilocus genotype data: dominant markers and null alleles. Molecular Ecology Notes 7:574-578 DOI 10.1111/j.1471-8286.2007.01758.x.
-
(2007)
Molecular Ecology Notes
, vol.7
, pp. 574-578
-
-
Falush, D.1
Stephens, M.2
Pritchard, J.K.3
-
28
-
-
84870905518
-
The occurrence of mixed infections of Symbiodinium (Dinoflagellata) within individual hosts
-
DOI 10.1111/j.1529-8817.2012.01220.x
-
Fay SA, Weber MX. 2012. The occurrence of mixed infections of Symbiodinium (Dinoflagellata) within individual hosts. Journal of Phycology 48:1306-1316 DOI 10.1111/j.1529-8817.2012.01220.x.
-
(2012)
Journal of Phycology
, vol.48
, pp. 1306-1316
-
-
Fay, S.A.1
Weber, M.X.2
-
29
-
-
77955419055
-
The relative significance of host-habitat, depth, and geography on the ecology, endemism, and speciation of coral endosymbionts in the genus Symbiodinium
-
DOI 10.1007/s00248-010-9681-y
-
Finney JC, Pettay D, Sampayo E, Warner M, Oxenford H, LaJeunesse T. 2010. The relative significance of host-habitat, depth, and geography on the ecology, endemism, and speciation of coral endosymbionts in the genus Symbiodinium. Microbial Ecology 60:250-263 DOI 10.1007/s00248-010-9681-y.
-
(2010)
Microbial Ecology
, vol.60
, pp. 250-263
-
-
Finney, J.C.1
Pettay, D.2
Sampayo, E.3
Warner, M.4
Oxenford, H.5
LaJeunesse, T.6
-
30
-
-
0029201704
-
Bleaching patterns of four species of caribbean reef corals
-
DOI 10.2307/1542147
-
Fitt WK, Warner ME. 1995. Bleaching patterns of four species of caribbean reef corals. The Biological Bulletin 189:298-307 DOI 10.2307/1542147.
-
(1995)
The Biological Bulletin
, vol.189
, pp. 298-307
-
-
Fitt, W.K.1
Warner, M.E.2
-
31
-
-
84857627543
-
Connectivity of Caribbean coral populations: complementary insights from empirical and modelled gene flow
-
DOI 10.1111/j.1365-294X.2012.05455.x
-
Foster NL, Paris CB, Kool JT, Baums IB, Stevens JR, Sanchez JA, Bastidas C, Agudelo C, Bush P, Day O, Ferrari R, Gonzalez P, Gore S, Guppy R, McCartney MA, McCoy C, Mendes J, Srinivasan A, Steiner S, Vermeij MJA, Weil E, Mumby PJ. 2012. Connectivity of Caribbean coral populations: complementary insights from empirical and modelled gene flow. Molecular Ecology 21:1143-1157 DOI 10.1111/j.1365-294X.2012.05455.x.
-
(2012)
Molecular Ecology
, vol.21
, pp. 1143-1157
-
-
Foster, N.L.1
Paris, C.B.2
Kool, J.T.3
Baums, I.B.4
Stevens, J.R.5
Sanchez, J.A.6
Bastidas, C.7
Agudelo, C.8
Bush, P.9
Day, O.10
Ferrari, R.11
Gonzalez, P.12
Gore, S.13
Guppy, R.14
McCartney, M.A.15
McCoy, C.16
Mendes, J.17
Srinivasan, A.18
Steiner, S.19
Vermeij, M.J.A.20
Weil, E.21
Mumby, P.J.22
more..
-
32
-
-
55749115818
-
In situ photobiology of corals over large depth ranges: a multivariate analysis on the roles of environment, host, and algal symbiont
-
DOI 10.4319/lo.2008.53.6.2711
-
Frade PR, Bongaerts P, Winkelhagen AJS, Tonk L, Bak RPM. 2008. In situ photobiology of corals over large depth ranges: a multivariate analysis on the roles of environment, host, and algal symbiont. Limnology and Oceanography 53:2711-2723 DOI 10.4319/lo.2008.53.6.2711.
-
(2008)
Limnology and Oceanography
, vol.53
, pp. 2711-2723
-
-
Frade, P.R.1
Bongaerts, P.2
Winkelhagen, A.J.S.3
Tonk, L.4
Bak, R.P.M.5
-
33
-
-
1642277987
-
Geographic differences in species boundaries among members of the Montastraea annularis complex based on molecular and morphological markers
-
DOI 10.1111/j.0014-3820.2004.tb01648.x
-
Fukami H, Budd AF, Don RL, Jara J, Kersanach R, Knowlton N. 2004. Geographic differences in species boundaries among members of the Montastraea annularis complex based on molecular and morphological markers. Evolution 58:324-337 DOI 10.1111/j.0014-3820.2004.tb01648.x.
-
(2004)
Evolution
, vol.58
, pp. 324-337
-
-
Fukami, H.1
Budd, A.F.2
Don, R.L.3
Jara, J.4
Kersanach, R.5
Knowlton, N.6
-
34
-
-
0027884336
-
Coral reef bleaching: ecological perspectives
-
DOI 10.1007/BF00303779
-
Glynn PW. 1993. Coral reef bleaching: ecological perspectives. Coral Reefs 12:1-17 DOI 10.1007/BF00303779.
-
(1993)
Coral Reefs
, vol.12
, pp. 1-17
-
-
Glynn, P.W.1
-
35
-
-
77954296666
-
A new bioinformatics analysis tools framework at EMBL-EBI
-
DOI 10.1093/nar/gkq313
-
Goujon M, McWilliam H, Li W, Valentin F, Squizzato S, Paern J, Lopez R. 2010. A new bioinformatics analysis tools framework at EMBL-EBI. Nucleic Acids Research 38:W695-W699 DOI 10.1093/nar/gkq313.
-
(2010)
Nucleic Acids Research
, vol.38
-
-
Goujon, M.1
McWilliam, H.2
Li, W.3
Valentin, F.4
Squizzato, S.5
Paern, J.6
Lopez, R.7
-
36
-
-
74549125386
-
SeaView Version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building
-
DOI 10.1093/molbev/msp259
-
Gouy M, Guindon S, Gascuel O. 2010. SeaView Version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building. Molecular Biology and Evolution 27:221-224 DOI 10.1093/molbev/msp259.
-
(2010)
Molecular Biology and Evolution
, vol.27
, pp. 221-224
-
-
Gouy, M.1
Guindon, S.2
Gascuel, O.3
-
37
-
-
77749249761
-
MCMC methods for multi-response generalized linear mixed models: the MCMCglmm R Package
-
Hadfield JD. 2010. MCMC methods for multi-response generalized linear mixed models: the MCMCglmm R Package. Journal of Statistical Software 33:1-22.
-
(2010)
Journal of Statistical Software
, vol.33
, pp. 1-22
-
-
Hadfield, J.D.1
-
38
-
-
0033398116
-
Climate change, coral bleaching and the future of the world's coral reefs
-
DOI 10.1071/MF99078
-
Hoegh-Guldberg O. 1999. Climate change, coral bleaching and the future of the world's coral reefs. Marine and Freshwater Research 50:839-866 DOI 10.1071/MF99078.
-
(1999)
Marine and Freshwater Research
, vol.50
, pp. 839-866
-
-
Hoegh-Guldberg, O.1
-
39
-
-
0024899085
-
The effect of sudden changes in temperature, light and salinity on the population density and export of zooxanthellae from the reef corals Stylophora pistillata Esper and Seriatopora hystrix Dana
-
DOI 10.1016/0022-0981(89)90109-3
-
Hoegh-Guldberg O, Smith GJ. 1989. The effect of sudden changes in temperature, light and salinity on the population density and export of zooxanthellae from the reef corals Stylophora pistillata Esper and Seriatopora hystrix Dana. Journal of Experimental Marine Biology and Ecology 129:279-303 DOI 10.1016/0022-0981(89)90109-3.
-
(1989)
Journal of Experimental Marine Biology and Ecology
, vol.129
, pp. 279-303
-
-
Hoegh-Guldberg, O.1
Smith, G.J.2
-
40
-
-
84857463259
-
Coral thermal tolerance shaped by local adaptation of photosymbionts
-
DOI 10.1038/nclimate1330
-
Howells EJ, Beltran VH, Larsen NW, Bay LK, Willis BL, van Oppen MJH. 2012. Coral thermal tolerance shaped by local adaptation of photosymbionts. Nature Climate Change 2:116-120 DOI 10.1038/nclimate1330.
-
(2012)
Nature Climate Change
, vol.2
, pp. 116-120
-
-
Howells, E.J.1
Beltran, V.H.2
Larsen, N.W.3
Bay, L.K.4
Willis, B.L.5
van Oppen, M.J.H.6
-
41
-
-
59449104970
-
High genetic differentiation and cross-shelf patterns of genetic diversity among Great Barrier Reef populations of Symbiodinium
-
DOI 10.1007/s00338-008-0450-z
-
Howells EJ, Oppen MJH, Willis BL. 2009. High genetic differentiation and cross-shelf patterns of genetic diversity among Great Barrier Reef populations of Symbiodinium. Coral Reefs 28:215-225 DOI 10.1007/s00338-008-0450-z.
-
(2009)
Coral Reefs
, vol.28
, pp. 215-225
-
-
Howells, E.J.1
Oppen, M.J.H.2
Willis, B.L.3
-
42
-
-
68949103876
-
Inferring weak population structure with the assistance of sample group information
-
DOI 10.1111/j.1755-0998.2009.02591.x
-
Hubisz MJ, Falush D, Stephens M, Pritchard JK. 2009. Inferring weak population structure with the assistance of sample group information. Molecular Ecology Resources 9:1322-1332 DOI 10.1111/j.1755-0998.2009.02591.x.
-
(2009)
Molecular Ecology Resources
, vol.9
, pp. 1322-1332
-
-
Hubisz, M.J.1
Falush, D.2
Stephens, M.3
Pritchard, J.K.4
-
43
-
-
33846056231
-
IUCN red list of threatened species
-
IUCN, Version 2011.1. Switzerland: IUCN
-
IUCN. 2011. IUCN red list of threatened species, Version 2011.1. Switzerland: IUCN.
-
(2011)
-
-
-
44
-
-
34547861256
-
CLUMPP: a cluster matching and permutation program for dealing with label switching and multimodality in analysis of population structure
-
DOI 10.1093/bioinformatics/btm233
-
Jakobsson M, Rosenberg NA. 2007. CLUMPP: a cluster matching and permutation program for dealing with label switching and multimodality in analysis of population structure. Bioinformatics 23:1801-1806 DOI 10.1093/bioinformatics/btm233.
-
(2007)
Bioinformatics
, vol.23
, pp. 1801-1806
-
-
Jakobsson, M.1
Rosenberg, N.A.2
-
45
-
-
77956277261
-
Potential costs of acclimatization to a warmer climate: growth of a reef coral with heat tolerant vs. sensitive symbiont types
-
DOI 10.1371/journal.pone.0010437
-
Jones A, Berkelmans R. 2010. Potential costs of acclimatization to a warmer climate: growth of a reef coral with heat tolerant vs. sensitive symbiont types. PLoS ONE 5:e10437 DOI 10.1371/journal.pone.0010437.
-
(2010)
PLoS ONE
, vol.5
-
-
Jones, A.1
Berkelmans, R.2
-
46
-
-
43249112096
-
A community change in the algal endosymbionts of a scleractinian coral following a natural bleaching event: field evidence of acclimatization
-
DOI 10.1098/rspb.2008.0069
-
Jones AM, Berkelmans R, van Oppen MJH, Mieog JC, Sinclair W. 2008. A community change in the algal endosymbionts of a scleractinian coral following a natural bleaching event: field evidence of acclimatization. Proceedings of the Royal Society B: Biological Sciences 275:1359-1365 DOI 10.1098/rspb.2008.0069.
-
(2008)
Proceedings of the Royal Society B: Biological Sciences
, vol.275
, pp. 1359-1365
-
-
Jones, A.M.1
Berkelmans, R.2
van Oppen, M.J.H.3
Mieog, J.C.4
Sinclair, W.5
-
47
-
-
84976998771
-
The application of electronic computers to factor analysis
-
DOI 10.1177/001316446002000116
-
Kaiser HF. 1960. The application of electronic computers to factor analysis. Educational and Psychological Measurement 20:141-151 DOI 10.1177/001316446002000116.
-
(1960)
Educational and Psychological Measurement
, vol.20
, pp. 141-151
-
-
Kaiser, H.F.1
-
48
-
-
84882450785
-
Evidence for a host role in thermotolerance divergence between populations of the mustard hill coral (Porites astreoides) from different reef environments
-
DOI 10.1111/mec.12391
-
Kenkel CD, Goodbody-Gringley G, Caillaud D, Davies SW, Bartels E, Matz MV. 2013. Evidence for a host role in thermotolerance divergence between populations of the mustard hill coral (Porites astreoides) from different reef environments. Molecular Ecology 22:4335-4348 DOI 10.1111/mec.12391.
-
(2013)
Molecular Ecology
, vol.22
, pp. 4335-4348
-
-
Kenkel, C.D.1
Goodbody-Gringley, G.2
Caillaud, D.3
Davies, S.W.4
Bartels, E.5
Matz, M.V.6
-
49
-
-
67349085161
-
Population structure of Symbiodinium sp. associated with the common sea fan, Gorgonia ventalina, in the Florida Keys across distance, depth, and time
-
DOI 10.1007/s00227-009-1196-z
-
Kirk N, Andras J, Harvell CD, Santos S, Coffroth M. 2009. Population structure of Symbiodinium sp. associated with the common sea fan, Gorgonia ventalina, in the Florida Keys across distance, depth, and time. Marine Biology 156:1609-1623 DOI 10.1007/s00227-009-1196-z.
-
(2009)
Marine Biology
, vol.156
, pp. 1609-1623
-
-
Kirk, N.1
Andras, J.2
Harvell, C.D.3
Santos, S.4
Coffroth, M.5
-
50
-
-
0242709343
-
Multispecies microbial mutualisms on coral reefs: the host as a habitat
-
DOI 10.1086/378684
-
Knowlton N, Rohwer F. 2003. Multispecies microbial mutualisms on coral reefs: the host as a habitat. The American Naturalist 162:S51-S62 DOI 10.1086/378684.
-
(2003)
The American Naturalist
, vol.162
-
-
Knowlton, N.1
Rohwer, F.2
-
51
-
-
0037357446
-
Multiple hybrid formation in natural populations:concerted evolution of the internal transcribed spacer of nuclear ribosomal DNA (ITS) in North American Arabis divaricarpa (Brassicaceae)
-
DOI 10.1093/molbev/msg046
-
Koch MA, Dobeš C, Mitchell-Olds T. 2003. Multiple hybrid formation in natural populations:concerted evolution of the internal transcribed spacer of nuclear ribosomal DNA (ITS) in North American Arabis divaricarpa (Brassicaceae). Molecular Biology and Evolution 20:338-350 DOI 10.1093/molbev/msg046.
-
(2003)
Molecular Biology and Evolution
, vol.20
, pp. 338-350
-
-
Koch, M.A.1
Dobeš, C.2
Mitchell-Olds, T.3
-
52
-
-
75549088448
-
The ITS2 Database III-sequences and structures for phylogeny
-
DOI 10.1093/nar/gkp966
-
Koetschan C, Förster F, Keller A, Schleicher T, Ruderisch B, Schwarz R, Müller T, Wolf M, Schultz J. 2010. The ITS2 Database III-sequences and structures for phylogeny. Nucleic Acids Research 38:D275-D279 DOI 10.1093/nar/gkp966.
-
(2010)
Nucleic Acids Research
, vol.38
-
-
Koetschan, C.1
Förster, F.2
Keller, A.3
Schleicher, T.4
Ruderisch, B.5
Schwarz, R.6
Müller, T.7
Wolf, M.8
Schultz, J.9
-
53
-
-
84859841345
-
ITS2 database IV: interactive taxon sampling for internal transcribed spacer 2 based phylogenies
-
Molecular Phylogenetics and Evolution In Press
-
Koetschan C, Hackl T, Müller T, Wolf M, Förster F, Schultz J. 2012. ITS2 database IV: interactive taxon sampling for internal transcribed spacer 2 based phylogenies. Molecular Phylogenetics and Evolution In Press.
-
(2012)
-
-
Koetschan, C.1
Hackl, T.2
Müller, T.3
Wolf, M.4
Förster, F.5
Schultz, J.6
-
54
-
-
0036944045
-
Diversity and community structure of symbiotic dinoflagellates from Caribbean coral reefs
-
DOI 10.1007/s00227-002-0829-2
-
LaJeunesse TC. 2002. Diversity and community structure of symbiotic dinoflagellates from Caribbean coral reefs. Marine Biology 141:387-400 DOI 10.1007/s00227-002-0829-2.
-
(2002)
Marine Biology
, vol.141
, pp. 387-400
-
-
LaJeunesse, T.C.1
-
55
-
-
14544306214
-
Species radiations of symbiotic dinoflagellates in the Atlantic and Indo-Pacific since the miocene-pliocene transition
-
DOI 10.1093/molbev/msi042
-
LaJeunesse TC. 2005. Species radiations of symbiotic dinoflagellates in the Atlantic and Indo-Pacific since the miocene-pliocene transition. Molecular Biology and Evolution 22:570-581 DOI 10.1093/molbev/msi042.
-
(2005)
Molecular Biology and Evolution
, vol.22
, pp. 570-581
-
-
LaJeunesse, T.C.1
-
56
-
-
12344304652
-
Closely related Symbiodinium spp. differ in relative dominance in coral reef host communities across environmental, latitudinal and biogeographic gradients
-
DOI 10.3354/meps284147
-
LaJeunesse TC, Bhagooli R, Hidaka M, deVantier L, Done T, Schmidt GW, Fitt WK, Hoegh-Guldberg O. 2004. Closely related Symbiodinium spp. differ in relative dominance in coral reef host communities across environmental, latitudinal and biogeographic gradients. Marine Ecology Progress Series 284:147-161 DOI 10.3354/meps284147.
-
(2004)
Marine Ecology Progress Series
, vol.284
, pp. 147-161
-
-
LaJeunesse, T.C.1
Bhagooli, R.2
Hidaka, M.3
deVantier, L.4
Done, T.5
Schmidt, G.W.6
Fitt, W.K.7
Hoegh-Guldberg, O.8
-
57
-
-
43949090835
-
Specificity and stability in high latitude eastern pacific coral-algal symbioses
-
DOI 10.4319/lo.2008.53.2.0719
-
LaJeunesse TC, Bonilla HR, Warner ME, Wills M, Schmidt GW, Fitt WK. 2008. Specificity and stability in high latitude eastern pacific coral-algal symbioses. Limnology and Oceanography 53:719-727 DOI 10.4319/lo.2008.53.2.0719.
-
(2008)
Limnology and Oceanography
, vol.53
, pp. 719-727
-
-
LaJeunesse, T.C.1
Bonilla, H.R.2
Warner, M.E.3
Wills, M.4
Schmidt, G.W.5
Fitt, W.K.6
-
58
-
-
0141540390
-
Low symbiont diversity in Southern Great Barrier Reef Corals, relative to those of the Caribbean
-
DOI 10.4319/lo.2003.48.5.2046
-
LaJeunesse TC, Loh WKW, Woesik Rv, Hoegh-Guldberg O, Schmidt GW, Fitt WK. 2003. Low symbiont diversity in Southern Great Barrier Reef Corals, relative to those of the Caribbean. Limnology and Oceanography 48:2046-2054 DOI 10.4319/lo.2003.48.5.2046.
-
(2003)
Limnology and Oceanography
, vol.48
, pp. 2046-2054
-
-
LaJeunesse, T.C.1
Loh, W.K.W.2
Woesik, R.V.3
Hoegh-Guldberg, O.4
Schmidt, G.W.5
Fitt, W.K.6
-
59
-
-
84870891502
-
A genetics-based description of Symbiodinium minutum sp. nov. and S. psygmophilum sp. nov. (Dinophyceae), two dinoflagellates symbiotic with cnidaria
-
DOI 10.1111/j.1529-8817.2012.01217.x
-
LaJeunesse TC, Parkinson JE, Reimer JD. 2012. A genetics-based description of Symbiodinium minutum sp. nov. and S. psygmophilum sp. nov. (Dinophyceae), two dinoflagellates symbiotic with cnidaria. Journal of Phycology 48:1380-1391 DOI 10.1111/j.1529-8817.2012.01217.x.
-
(2012)
Journal of Phycology
, vol.48
, pp. 1380-1391
-
-
LaJeunesse, T.C.1
Parkinson, J.E.2
Reimer, J.D.3
-
60
-
-
77956906680
-
Host-symbiont recombination versus natural selection in the response of coral-dinoflagellate symbioses to environmental disturbance
-
DOI 10.1098/rspb.2010.0385
-
LaJeunesse TC, Smith R, Walther M, Pinzón J, Pettay DT, McGinley M, Aschaffenburg M, Medina-Rosas P, Cupul-Magaña AL, Pérez AL, Reyes-Bonilla H, Warner ME. 2010a. Host-symbiont recombination versus natural selection in the response of coral-dinoflagellate symbioses to environmental disturbance. Proceedings of the Royal Society B: Biological Sciences 277:2925-2934 DOI 10.1098/rspb.2010.0385.
-
(2010)
Proceedings of the Royal Society B: Biological Sciences
, vol.277
, pp. 2925-2934
-
-
LaJeunesse, T.C.1
Smith, R.2
Walther, M.3
Pinzón, J.4
Pettay, D.T.5
McGinley, M.6
Aschaffenburg, M.7
Medina-Rosas, P.8
Cupul-Magaña, A.L.9
Pérez, A.L.10
Reyes-Bonilla, H.11
Warner, M.E.12
-
61
-
-
77953098950
-
Long-standing environmental conditions, geographic isolation and host-symbiont specificity influence the relative ecological dominance and genetic diversification of coral endosymbionts in the genus Symbiodinium
-
DOI 10.1111/j.1365-2699.2010.02273.x
-
LaJeunesse TC, Pettay DT, Sampayo EM, Phongsuwan N, Brown B, Obura DO, Hoegh-Guldberg O, Fitt WK. 2010b. Long-standing environmental conditions, geographic isolation and host-symbiont specificity influence the relative ecological dominance and genetic diversification of coral endosymbionts in the genus Symbiodinium. Journal of Biogeography 37:785-800 DOI 10.1111/j.1365-2699.2010.02273.x.
-
(2010)
Journal of Biogeography
, vol.37
, pp. 785-800
-
-
LaJeunesse, T.C.1
Pettay, D.T.2
Sampayo, E.M.3
Phongsuwan, N.4
Brown, B.5
Obura, D.O.6
Hoegh-Guldberg, O.7
Fitt, W.K.8
-
62
-
-
72849113898
-
Outbreak and persistence of opportunistic symbiotic dinoflagellates during the 2005 Caribbean mass coral 'bleaching' event
-
DOI 10.1098/rspb.2009.1405
-
LaJeunesse TC, Smith RT, Finney J, Oxenford H. 2009. Outbreak and persistence of opportunistic symbiotic dinoflagellates during the 2005 Caribbean mass coral 'bleaching' event. Proceedings of the Royal Society B: Biological Sciences 276:4139-4148 DOI 10.1098/rspb.2009.1405.
-
(2009)
Proceedings of the Royal Society B: Biological Sciences
, vol.276
, pp. 4139-4148
-
-
LaJeunesse, T.C.1
Smith, R.T.2
Finney, J.3
Oxenford, H.4
-
63
-
-
84555205188
-
Improved resolution of reef-coral endosymbiont (Symbiodinium) species diversity, ecology, and evolution through psbA non-coding region genotyping
-
DOI 10.1371/journal.pone.0029013
-
LaJeunesse TC, Thornhill DJ. 2011. Improved resolution of reef-coral endosymbiont (Symbiodinium) species diversity, ecology, and evolution through psbA non-coding region genotyping. PLoS ONE 6:e29013 DOI 10.1371/journal.pone.0029013.
-
(2011)
PLoS ONE
, vol.6
-
-
LaJeunesse, T.C.1
Thornhill, D.J.2
-
64
-
-
0033752956
-
Biogeography of two species of Symbiodinium (Freudenthal) inhabiting the intertidal sea anemone Anthopleura elegantissima (Brandt)
-
DOI 10.2307/1542872
-
LaJeunesse TC, Trench RK. 2000. Biogeography of two species of Symbiodinium (Freudenthal) inhabiting the intertidal sea anemone Anthopleura elegantissima (Brandt). The Biological Bulletin 199:126-134 DOI 10.2307/1542872.
-
(2000)
The Biological Bulletin
, vol.199
, pp. 126-134
-
-
LaJeunesse, T.C.1
Trench, R.K.2
-
65
-
-
77957217837
-
Spatial and temporal variability during periods of "recovery" after mass bleaching on Western Atlantic Coral Reefs
-
Lang JC, Lasker HR, Gladfelter EH, Hallock P, JaapWC, Losada FJ, Muller RG. 1992. Spatial and temporal variability during periods of "recovery" after mass bleaching on Western Atlantic Coral Reefs. American Zoologist 32:696-706.
-
(1992)
American Zoologist
, vol.32
, pp. 696-706
-
-
Lang, J.C.1
Lasker, H.R.2
Gladfelter, E.H.3
Hallock, P.4
Jaap, W.C.5
Losada, F.J.6
Muller, R.G.7
-
66
-
-
24044455869
-
Genome sequencing in microfabricated high-density picolitre reactors
-
Margulies M, Egholm M, Altman WE, Attiya S, Bader JS, Bemben LA, Berka J, Braverman MS, Chen Y-J, Chen Z, Dewell SB, Du L, Fierro JM, Gomes XV, Godwin BC, He W, Helgesen S, Ho CH, Irzyk GP, Jando SC, Alenquer MLI, Jarvie TP, Jirage KB, Kim J-B, Knight JR, Lanza JR, Leamon JH, Lefkowitz SM, Lei M, Li J, Lohman KL, Lu H, Makhijani VB, McDade KE, McKenna MP, Myers EW, Nickerson E, Nobile JR, Plant R, Puc BP, Ronan MT, Roth GT, Sarkis GJ, Simons JF, Simpson JW, Srinivasan M, Tartaro KR, Tomasz A, Vogt KA, Volkmer GA, Wang SH, Wang Y, Weiner MP, Yu P, Begley RF, Rothberg JM. 2005. Genome sequencing in microfabricated high-density picolitre reactors. Nature 437:376-380.
-
(2005)
Nature
, vol.437
, pp. 376-380
-
-
Margulies, M.1
Egholm, M.2
Altman, W.E.3
Attiya, S.4
Bader, J.S.5
Bemben, L.A.6
Berka, J.7
Braverman, M.S.8
Chen, Y.-J.9
Chen, Z.10
Dewell, S.B.11
Du, L.12
Fierro, J.M.13
Gomes, X.V.14
Godwin, B.C.15
He, W.16
Helgesen, S.17
Ho, C.H.18
Irzyk, G.P.19
Jando, S.C.20
Alenquer, M.L.I.21
Jarvie, T.P.22
Jirage, K.B.23
Kim, J.-B.24
Knight, J.R.25
Lanza, J.R.26
Leamon, J.H.27
Lefkowitz, S.M.28
Lei, M.29
Li, J.30
Lohman, K.L.31
Lu, H.32
Makhijani, V.B.33
McDade, K.E.34
McKenna, M.P.35
Myers, E.W.36
Nickerson, E.37
Nobile, J.R.38
Plant, R.39
Puc, B.P.40
Ronan, M.T.41
Roth, G.T.42
Sarkis, G.J.43
Simons, J.F.44
Simpson, J.W.45
Srinivasan, M.46
Tartaro, K.R.47
Tomasz, A.48
Vogt, K.A.49
Volkmer, G.A.50
Wang, S.H.51
Wang, Y.52
Weiner, M.P.53
Yu, P.54
Begley, R.F.55
Rothberg, J.M.56
more..
-
67
-
-
0033864092
-
Bleaching of corals on the Great Barrier Reef: differential susceptibilities among taxa
-
DOI 10.1007/s003380000086
-
Marshall PA, Baird AH. 2000. Bleaching of corals on the Great Barrier Reef: differential susceptibilities among taxa. Coral Reefs 19:155-163 DOI 10.1007/s003380000086.
-
(2000)
Coral Reefs
, vol.19
, pp. 155-163
-
-
Marshall, P.A.1
Baird, A.H.2
-
68
-
-
84897925447
-
No control genes required: Bayesian analysis of qRT-PCR data
-
DOI 10.1371/journal.pone.0071448
-
Matz MV, Wright RM, Scott JG. 2013. No control genes required: Bayesian analysis of qRT-PCR data. PLoS ONE 8:e71448 DOI 10.1371/journal.pone.0071448.
-
(2013)
PLoS ONE
, vol.8
-
-
Matz, M.V.1
Wright, R.M.2
Scott, J.G.3
-
69
-
-
84883577718
-
Analysis tool web services from the EMBL-EBI
-
DOI 10.1093/nar/gkt376
-
McWilliam H, Li W, Uludag M, Squizzato S, Park YM, Buso N, Cowley AP, Lopez R. 2013. Analysis tool web services from the EMBL-EBI. Nucleic Acids Research 41:W597-W600 DOI 10.1093/nar/gkt376.
-
(2013)
Nucleic Acids Research
, vol.41
-
-
McWilliam, H.1
Li, W.2
Uludag, M.3
Squizzato, S.4
Park, Y.M.5
Buso, N.6
Cowley, A.P.7
Lopez, R.8
-
70
-
-
67749147580
-
The roles and interactions of symbiont, host and environment in defining coral fitness
-
DOI 10.1371/journal.pone.0006364
-
Mieog JC, Olsen JL, Berkelmans R, Bleuler-Martinez SA, Willis BL, van Oppen MJH. 2009. The roles and interactions of symbiont, host and environment in defining coral fitness. PLoS ONE 4:e6364 DOI 10.1371/journal.pone.0006364.
-
(2009)
PLoS ONE
, vol.4
-
-
Mieog, J.C.1
Olsen, J.L.2
Berkelmans, R.3
Bleuler-Martinez, S.A.4
Willis, B.L.5
van Oppen, M.J.H.6
-
71
-
-
84866172415
-
Bacterial associates of two Caribbean coral species reveal species-specific distribution and geographic variability
-
DOI 10.1128/AEM.01162-12
-
Morrow KM, Moss AG, Chadwick NE, Liles MR. 2012. Bacterial associates of two Caribbean coral species reveal species-specific distribution and geographic variability. Applied and Environmental Microbiology 78:6438-6449 DOI 10.1128/AEM.01162-12.
-
(2012)
Applied and Environmental Microbiology
, vol.78
, pp. 6438-6449
-
-
Morrow, K.M.1
Moss, A.G.2
Chadwick, N.E.3
Liles, M.R.4
-
72
-
-
0001462989
-
Assimilation of photosynthetic products of zooxanthellae by a reef coral
-
DOI 10.2307/1540172
-
Muscatine L, Cernichiari E. 1969. Assimilation of photosynthetic products of zooxanthellae by a reef coral. The Biological Bulletin 137:506-523 DOI 10.2307/1540172.
-
(1969)
The Biological Bulletin
, vol.137
, pp. 506-523
-
-
Muscatine, L.1
Cernichiari, E.2
-
74
-
-
70349255569
-
vegan: Community Ecology Package
-
R package v2.0-10 ed
-
Oksanen J, Blanchet FG, Kindt R, Legendre P, Minchin PR, O'Hara RB, Simpson GL, Solymos P, Stevens MHH, Wagner H. 2013. vegan: Community Ecology Package. R package v2.0-10 ed.
-
(2013)
-
-
Oksanen, J.1
Blanchet, F.G.2
Kindt, R.3
Legendre, P.4
Minchin, P.R.5
O'Hara, R.B.6
Simpson, G.L.7
Solymos, P.8
Stevens, M.H.H.9
Wagner, H.10
-
75
-
-
84888865593
-
Differential abundance analysis for microbial marker-gene surveys
-
DOI 10.1038/nmeth.2658
-
Paulson JN, Stine OC, Bravo HC, Pop M. 2013. Differential abundance analysis for microbial marker-gene surveys. Nature Methods 10:1200-1202 DOI 10.1038/nmeth.2658.
-
(2013)
Nature Methods
, vol.10
, pp. 1200-1202
-
-
Paulson, J.N.1
Stine, O.C.2
Bravo, H.C.3
Pop, M.4
-
76
-
-
84867293252
-
GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research-an update
-
DOI 10.1093/bioinformatics/bts460
-
Peakall R, Smouse PE. 2012. GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research-an update. Bioinformatics 28:2537-2539 DOI 10.1093/bioinformatics/bts460.
-
(2012)
Bioinformatics
, vol.28
, pp. 2537-2539
-
-
Peakall, R.1
Smouse, P.E.2
-
77
-
-
35848942350
-
Microsatellites from clade B Symbiodinium spp. specialized for Caribbean corals in the genus Madracis
-
DOI 10.1111/j.1471-8286.2007.01852.x
-
Pettay DT, LaJeunesse TC. 2007. Microsatellites from clade B Symbiodinium spp. specialized for Caribbean corals in the genus Madracis. Molecular Ecology Notes 7:1271-1274 DOI 10.1111/j.1471-8286.2007.01852.x.
-
(2007)
Molecular Ecology Notes
, vol.7
, pp. 1271-1274
-
-
Pettay, D.T.1
LaJeunesse, T.C.2
-
78
-
-
77953131723
-
A new Symbiodinium clade (Dinophyceae) fromsoritid foraminifera in Hawai'i
-
DOI 10.1016/j.ympev.2010.03.040
-
Pochon X, Gates RD. 2010. A new Symbiodinium clade (Dinophyceae) fromsoritid foraminifera in Hawai'i. Molecular Phylogenetics and Evolution 56:492-497 DOI 10.1016/j.ympev.2010.03.040.
-
(2010)
Molecular Phylogenetics and Evolution
, vol.56
, pp. 492-497
-
-
Pochon, X.1
Gates, R.D.2
-
79
-
-
0035688587
-
High genetic diversity and relative specificity among Symbiodinium-like endosymbiotic dinoflagellates in soritid foraminiferans
-
DOI 10.1007/s002270100674
-
Pochon X, Pawlowski J, Zaninetti L, Rowan R. 2001. High genetic diversity and relative specificity among Symbiodinium-like endosymbiotic dinoflagellates in soritid foraminiferans. Marine Biology 139:1069-1078 DOI 10.1007/s002270100674.
-
(2001)
Marine Biology
, vol.139
, pp. 1069-1078
-
-
Pochon, X.1
Pawlowski, J.2
Zaninetti, L.3
Rowan, R.4
-
80
-
-
84855406723
-
Identifying and characterizing alternative molecular markers for the symbiotic and free-living dinoflagellate genus Symbiodinium
-
DOI 10.1371/journal.pone.0029816
-
Pochon X, Putnam HM, Burki F, Gates RD. 2012. Identifying and characterizing alternative molecular markers for the symbiotic and free-living dinoflagellate genus Symbiodinium. PLoS ONE 7:e29816 DOI 10.1371/journal.pone.0029816.
-
(2012)
PLoS ONE
, vol.7
-
-
Pochon, X.1
Putnam, H.M.2
Burki, F.3
Gates, R.D.4
-
81
-
-
24344458180
-
Establishment initial analysis of deep reef stations (32-40 m) at the East Flower Garden Bank. Dedicated Issue, Flower Garden Banks National Marine Sanctuary
-
Precht W, Robbart ML, Boland GS, Schmahl GP. 2005. Establishment and initial analysis of deep reef stations (32-40 m) at the East Flower Garden Bank. Dedicated Issue, Flower Garden Banks National Marine Sanctuary. Gulf of Mexico Science 21:124-127.
-
(2005)
Gulf of Mexico Science
, vol.21
, pp. 124-127
-
-
Precht, W.1
Robbart, M.L.2
Boland, G.S.3
Schmahl, G.P.4
-
82
-
-
0034118493
-
Inference of population structure using multilocus genotype data
-
Pritchard JK, Stephens M, Donnelly P. 2000. Inference of population structure using multilocus genotype data. Genetics 155:945-959.
-
(2000)
Genetics
, vol.155
, pp. 945-959
-
-
Pritchard, J.K.1
Stephens, M.2
Donnelly, P.3
-
83
-
-
84866859503
-
Endosymbiotic flexibility associates with environmental sensitivity in scleractinian corals
-
DOI 10.1098/rspb.2012.1454
-
Putnam HM, Stat M, Pochon X, Gates RD. 2012. Endosymbiotic flexibility associates with environmental sensitivity in scleractinian corals. Proceedings of the Royal Society B: Biological Sciences 279:4352-4361 DOI 10.1098/rspb.2012.1454.
-
(2012)
Proceedings of the Royal Society B: Biological Sciences
, vol.279
, pp. 4352-4361
-
-
Putnam, H.M.1
Stat, M.2
Pochon, X.3
Gates, R.D.4
-
84
-
-
84899629877
-
Deep-sequencing method for quantifying background abundances of Symbiodinium types: exploring the rare Symbiodinium biosphere in reef-building corals
-
DOI 10.1371/journal.pone.0094297
-
Quigley KM, Davies SW, Kenkel CD, Willis BL, Matz MV, Bay LK. 2014. Deep-sequencing method for quantifying background abundances of Symbiodinium types: exploring the rare Symbiodinium biosphere in reef-building corals. PLoS ONE 9:e94297 DOI 10.1371/journal.pone.0094297.
-
(2014)
PLoS ONE
, vol.9
-
-
Quigley, K.M.1
Davies, S.W.2
Kenkel, C.D.3
Willis, B.L.4
Matz, M.V.5
Bay, L.K.6
-
85
-
-
84863304598
-
R: A language and environment for statistical computing
-
R Developmental Core Team., R Foundation for Statistical Computing
-
R Developmental Core Team. 2013. R: A language and environment for statistical computing. R Foundation for Statistical Computing.
-
(2013)
-
-
-
87
-
-
0037606155
-
Approximate variance-stabilizing transformations for geneexpression microarray data
-
DOI 10.1093/bioinformatics/btg107
-
Rocke DM, Durbin B. 2003. Approximate variance-stabilizing transformations for geneexpression microarray data. Bioinformatics 19:966-972 DOI 10.1093/bioinformatics/btg107.
-
(2003)
Bioinformatics
, vol.19
, pp. 966-972
-
-
Rocke, D.M.1
Durbin, B.2
-
89
-
-
1342331102
-
DISTRUCT: a program for the graphical display of population structure
-
DOI 10.1046/j.1471-8286.2003.00566.x
-
Rosenberg NA. 2004. DISTRUCT: a program for the graphical display of population structure. Molecular Ecology Notes 4:137-138 DOI 10.1046/j.1471-8286.2003.00566.x.
-
(2004)
Molecular Ecology Notes
, vol.4
, pp. 137-138
-
-
Rosenberg, N.A.1
-
91
-
-
0030855057
-
Landscape ecology of algal symbionts creates variation in episodes of coral bleaching
-
DOI 10.1038/40843
-
Rowan R, Knowlton N, Baker A, Jara J. 1997. Landscape ecology of algal symbionts creates variation in episodes of coral bleaching. Nature 388:265-269 DOI 10.1038/40843.
-
(1997)
Nature
, vol.388
, pp. 265-269
-
-
Rowan, R.1
Knowlton, N.2
Baker, A.3
Jara, J.4
-
92
-
-
34548533977
-
Niche partitioning of closely related symbiotic dinoflagellates
-
DOI 10.1111/j.1365-294X.2007.03403.x
-
Sampayo EM, Franceschinis L, Hoegh-Guldberg OVE, Dove S. 2007. Niche partitioning of closely related symbiotic dinoflagellates. Molecular Ecology 16:3721-3733 DOI 10.1111/j.1365-294X.2007.03403.x.
-
(2007)
Molecular Ecology
, vol.16
, pp. 3721-3733
-
-
Sampayo, E.M.1
Franceschinis, L.2
Hoegh-Guldberg, O.V.E.3
Dove, S.4
-
94
-
-
0942300460
-
Fine-scale diversity and specificity in the most prevalent lineage of symbiotic dinoflagellates (Symbiodinium, Dinophyceae) of the Caribbean
-
DOI 10.1046/j.1365-294X.2003.02058.x
-
Santos SR, Shearer TL, Hannes AR, Coffroth MA. 2004. Fine-scale diversity and specificity in the most prevalent lineage of symbiotic dinoflagellates (Symbiodinium, Dinophyceae) of the Caribbean. Molecular Ecology 13:459-469 DOI 10.1046/j.1365-294X.2003.02058.x.
-
(2004)
Molecular Ecology
, vol.13
, pp. 459-469
-
-
Santos, S.R.1
Shearer, T.L.2
Hannes, A.R.3
Coffroth, M.A.4
-
95
-
-
85199442338
-
Biology and ecology of coral reefs and coral communities in the Flower Garden Banks Region, Northwestern Gulf of Mexico
-
Riegl BM, Dodge RE, eds., Coral Reefs of the USA. Dordrecht: Springer
-
Schmahl GP, Hickerson EL, Precht WF. 2008. Riegl BM, Dodge RE, eds. Biology and ecology of coral reefs and coral communities in the Flower Garden Banks Region, Northwestern Gulf of Mexico. Coral Reefs of the USA. Dordrecht: Springer, 221-262.
-
(2008)
, pp. 221-262
-
-
Schmahl, G.P.1
Hickerson, E.L.2
Precht, W.F.3
-
96
-
-
15444361843
-
A common core of secondary structure of the internal transcribed spacer 2 (ITS2) throughout the Eukaryota
-
DOI 10.1261/rna.7204505
-
Schultz J, Maisel S, Gerlach D, Müller T, Wolf M. 2005. A common core of secondary structure of the internal transcribed spacer 2 (ITS2) throughout the Eukaryota. RNA 11:361-364 DOI 10.1261/rna.7204505.
-
(2005)
RNA
, vol.11
, pp. 361-364
-
-
Schultz, J.1
Maisel, S.2
Gerlach, D.3
Müller, T.4
Wolf, M.5
-
97
-
-
33747844305
-
The internal transcribed spacer 2 database-a web server for (not only) low level phylogenetic analyses
-
DOI 10.1093/nar/gkl129
-
Schultz J, Müller T, Achtziger M, Seibel PN, Dandekar T, Wolf M. 2006. The internal transcribed spacer 2 database-a web server for (not only) low level phylogenetic analyses. Nucleic Acids Research 34:W704-W707 DOI 10.1093/nar/gkl129.
-
(2006)
Nucleic Acids Research
, vol.34
-
-
Schultz, J.1
Müller, T.2
Achtziger, M.3
Seibel, P.N.4
Dandekar, T.5
Wolf, M.6
-
98
-
-
79959383523
-
Metagenomic biomarker discovery and explanation
-
DOI 10.1186/gb-2011-12-6-r60
-
Segata N, Izard J, Waldron L, Gevers D, Miropolsky L, Garrett W, Huttenhower C. 2011. Metagenomic biomarker discovery and explanation. Genome Biology 12:R60 DOI 10.1186/gb-2011-12-6-r60.
-
(2011)
Genome Biology
, vol.12
-
-
Segata, N.1
Izard, J.2
Waldron, L.3
Gevers, D.4
Miropolsky, L.5
Garrett, W.6
Huttenhower, C.7
-
99
-
-
33751213606
-
4SALE-a tool for synchronous RNA sequence and secondary structure alignment and editing
-
DOI 10.1186/1471-2105-7-498
-
Seibel P, Muller T, Dandekar T, Schultz J, Wolf M. 2006. 4SALE-a tool for synchronous RNA sequence and secondary structure alignment and editing. BMC Bioinformatics 7:498 DOI 10.1186/1471-2105-7-498.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 498
-
-
Seibel, P.1
Muller, T.2
Dandekar, T.3
Schultz, J.4
Wolf, M.5
-
100
-
-
58049121167
-
Synchronous visual analysis and editing of RNA sequence and secondary structure alignments using 4SALE
-
DOI 10.1186/1756-0500-1-91
-
Seibel P, Muller T, Dandekar T, Wolf M. 2008. Synchronous visual analysis and editing of RNA sequence and secondary structure alignments using 4SALE. BMC Research Notes 1:91 DOI 10.1186/1756-0500-1-91.
-
(2008)
BMC Research Notes
, vol.1
, pp. 91
-
-
Seibel, P.1
Muller, T.2
Dandekar, T.3
Wolf, M.4
-
101
-
-
38549087890
-
The ITS2 Database II: homology modelling RNA structure for molecular systematics
-
DOI 10.1093/nar/gkm827
-
Selig C, Wolf M, Müller T, Dandekar T, Schultz J. 2008. The ITS2 Database II: homology modelling RNA structure for molecular systematics. Nucleic Acids Research 36:D377-D380 DOI 10.1093/nar/gkm827.
-
(2008)
Nucleic Acids Research
, vol.36
-
-
Selig, C.1
Wolf, M.2
Müller, T.3
Dandekar, T.4
Schultz, J.5
-
102
-
-
80054078476
-
Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega
-
DOI 10.1038/msb.2011.75
-
Sievers F, Wilm A, Dineen D, Gibson TJ, Karplus K, Li W, Lopez R, McWilliam H, Remmert M, Söding J, Thompson JD, Higgins DG. 2011. Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega. Molecular Systems Biology 7:539 DOI 10.1038/msb.2011.75.
-
(2011)
Molecular Systems Biology
, vol.7
, pp. 539
-
-
Sievers, F.1
Wilm, A.2
Dineen, D.3
Gibson, T.J.4
Karplus, K.5
Li, W.6
Lopez, R.7
McWilliam, H.8
Remmert, M.9
Söding, J.10
Thompson, J.D.11
Higgins, D.G.12
-
103
-
-
84987704954
-
Specificity is rarely absolute in coral-algal symbiosis: implications for coral response to climate change
-
DOI 10.1098/rspb.2012.0055
-
Silverstein RN, Correa AMS, Baker AC. 2012. Specificity is rarely absolute in coral-algal symbiosis: implications for coral response to climate change. Proceedings of the Royal Society B: Biological Sciences 279:2609-2618 DOI 10.1098/rspb.2012.0055.
-
(2012)
Proceedings of the Royal Society B: Biological Sciences
, vol.279
, pp. 2609-2618
-
-
Silverstein, R.N.1
Correa, A.M.S.2
Baker, A.C.3
-
104
-
-
79251581848
-
Variation in Symbiodinium ITS2 sequence assemblages among coral colonies
-
DOI 10.1371/journal.pone.0015854
-
Stat M, Bird CE, Pochon X, Chasqui L, Chauka LJ, Concepcion GT, Logan D, Takabayashi M, Toonen RJ, Gates RD. 2011. Variation in Symbiodinium ITS2 sequence assemblages among coral colonies. PLoS ONE 6:e15854 DOI 10.1371/journal.pone.0015854.
-
(2011)
PLoS ONE
, vol.6
-
-
Stat, M.1
Bird, C.E.2
Pochon, X.3
Chasqui, L.4
Chauka, L.J.5
Concepcion, G.T.6
Logan, D.7
Takabayashi, M.8
Toonen, R.J.9
Gates, R.D.10
-
105
-
-
33748182761
-
The evolutionary history of Symbiodinium and scleractinian hosts-symbiosis, diversity, and the effect of climate change
-
DOI 10.1016/j.ppees.2006.04.001
-
Stat M, Carter D, Hoegh-Guldberg O. 2006. The evolutionary history of Symbiodinium and scleractinian hosts-symbiosis, diversity, and the effect of climate change. Perspectives in Plant Ecology, Evolution and Systematics 8:23-43 DOI 10.1016/j.ppees.2006.04.001.
-
(2006)
Perspectives in Plant Ecology, Evolution and Systematics
, vol.8
, pp. 23-43
-
-
Stat, M.1
Carter, D.2
Hoegh-Guldberg, O.3
-
106
-
-
68049138036
-
Specificity in communities of Symbiodinium in corals from Johnston Atoll
-
DOI 10.3354/meps08080
-
Stat M, Pochon X, Cowie ROM, Gates RD. 2009. Specificity in communities of Symbiodinium in corals from Johnston Atoll. Marine Ecology Progress Series 386:83-96 DOI 10.3354/meps08080.
-
(2009)
Marine Ecology Progress Series
, vol.386
, pp. 83-96
-
-
Stat, M.1
Pochon, X.2
Cowie, R.O.M.3
Gates, R.D.4
-
107
-
-
67349105701
-
Bacterial diversity and White Plague Disease-associated community changes in the Caribbean coral Montastraea faveolata
-
DOI 10.1038/ismej.2008.131
-
Sunagawa S, DeSantis TZ, Piceno YM, Brodie EL, DeSalvo MK, Voolstra CR, Weil E, Andersen GL, Medina M. 2009. Bacterial diversity and White Plague Disease-associated community changes in the Caribbean coral Montastraea faveolata. ISME Journal 3:512-521 DOI 10.1038/ismej.2008.131.
-
(2009)
ISME Journal
, vol.3
, pp. 512-521
-
-
Sunagawa, S.1
DeSantis, T.Z.2
Piceno, Y.M.3
Brodie, E.L.4
DeSalvo, M.K.5
Voolstra, C.R.6
Weil, E.7
Andersen, G.L.8
Medina, M.9
-
108
-
-
0030733101
-
Hybridization within the species complex of the scleractinan coral Montastraea annularis
-
DOI 10.1007/s002270050197
-
Szmant AM, Weil E, Miller MW, Colón DE. 1997. Hybridization within the species complex of the scleractinan coral Montastraea annularis. Marine Biology 129:561-572 DOI 10.1007/s002270050197.
-
(1997)
Marine Biology
, vol.129
, pp. 561-572
-
-
Szmant, A.M.1
Weil, E.2
Miller, M.W.3
Colón, D.E.4
-
109
-
-
31844439796
-
Multi-year, seasonal genotypic surveys of coral-algal symbioses reveal prevalent stability or post-bleaching reversion
-
DOI 10.1007/s00227-005-0114-2
-
Thornhill D, LaJeunesse T, Kemp D, Fitt W, Schmidt G. 2006. Multi-year, seasonal genotypic surveys of coral-algal symbioses reveal prevalent stability or post-bleaching reversion. Marine Biology 148:711-722 DOI 10.1007/s00227-005-0114-2.
-
(2006)
Marine Biology
, vol.148
, pp. 711-722
-
-
Thornhill, D.1
LaJeunesse, T.2
Kemp, D.3
Fitt, W.4
Schmidt, G.5
-
110
-
-
53549085682
-
Correspondence between cold tolerance and temperate biogeography in a western Atlantic Symbiodinium (Dinophyta) lineage
-
DOI 10.1111/j.1529-8817.2008.00567.x
-
Thornhill DJ, Kemp DW, Bruns BU, Fitt WK, Schmidt GW. 2008. Correspondence between cold tolerance and temperate biogeography in a western Atlantic Symbiodinium (Dinophyta) lineage. Journal of Phycology 44:1126-1135 DOI 10.1111/j.1529-8817.2008.00567.x.
-
(2008)
Journal of Phycology
, vol.44
, pp. 1126-1135
-
-
Thornhill, D.J.1
Kemp, D.W.2
Bruns, B.U.3
Fitt, W.K.4
Schmidt, G.W.5
-
111
-
-
37249027666
-
Measuring rDNA diversity in eukaryotic microbial systems: how intragenomic variation, pseudogenes, and PCR artifacts confound biodiversity estimates
-
DOI 10.1111/j.1365-294X.2007.03576.x
-
Thornhill DJ, Lajeunesse TC, Santos SR. 2007. Measuring rDNA diversity in eukaryotic microbial systems: how intragenomic variation, pseudogenes, and PCR artifacts confound biodiversity estimates. Molecular Ecology 16:5326-5340 DOI 10.1111/j.1365-294X.2007.03576.x.
-
(2007)
Molecular Ecology
, vol.16
, pp. 5326-5340
-
-
Thornhill, D.J.1
Lajeunesse, T.C.2
Santos, S.R.3
-
112
-
-
84898428251
-
Host-specialist lineages dominate the adaptive radiation of reef coral endosymbionts
-
DOI 10.1111/evo.12270
-
Thornhill DJ, Lewis AM, Wham DC, LaJeunesse TC. 2014. Host-specialist lineages dominate the adaptive radiation of reef coral endosymbionts. Evolution 68:352-367 DOI 10.1111/evo.12270.
-
(2014)
Evolution
, vol.68
, pp. 352-367
-
-
Thornhill, D.J.1
Lewis, A.M.2
Wham, D.C.3
LaJeunesse, T.C.4
-
113
-
-
0035543253
-
Zooxanthellae of the Montastraea annularis species complex: patterns of distribution of four taxa of Symbiodinium on different reefs and across depths
-
DOI 10.2307/1543613
-
Toller WW, Rowan R, Knowlton N. 2001. Zooxanthellae of the Montastraea annularis species complex: patterns of distribution of four taxa of Symbiodinium on different reefs and across depths. The Biological Bulletin 201:348-359 DOI 10.2307/1543613.
-
(2001)
The Biological Bulletin
, vol.201
, pp. 348-359
-
-
Toller, W.W.1
Rowan, R.2
Knowlton, N.3
-
114
-
-
0000757306
-
Dinoflagellates in non-parasitic symbioses
-
In: Taylor FJR, ed., London: Blackwell Scientific Publications
-
Trench RK. 1987. Dinoflagellates in non-parasitic symbioses. In: Taylor FJR, ed. The biology of dinoflagellates. London: Blackwell Scientific Publications, 530-570.
-
(1987)
The biology of dinoflagellates.
, pp. 530-570
-
-
Trench, R.K.1
-
115
-
-
0035823175
-
Patterns of coral-dinoflagellate associations in Acropora: significance of local availability and physiology of Symbiodinium strains and host-symbiont selectivity
-
DOI 10.1098/rspb.2001.1733
-
Van Oppen MJH, Palstra FP, Piquet AM-T, Miller DJ. 2001. Patterns of coral-dinoflagellate associations in Acropora: significance of local availability and physiology of Symbiodinium strains and host-symbiont selectivity. Proceedings of the Royal Society of London Series B:Biological Sciences 268:1759-1767 DOI 10.1098/rspb.2001.1733.
-
(2001)
Proceedings of the Royal Society of London Series B:Biological Sciences
, vol.268
, pp. 1759-1767
-
-
Van Oppen, M.J.H.1
Palstra, F.P.2
Piquet, A.M.-T.3
Miller, D.J.4
-
116
-
-
74549224369
-
Effects of temperature on gene expression in embryos of the coral Montastraea faveolata
-
DOI 10.1186/1471-2164-10-627
-
Voolstra C, Schnetzer J, Peshkin L, Randall C, Szmant A, Medina M. 2009. Effects of temperature on gene expression in embryos of the coral Montastraea faveolata. BMC Genomics 10:627 DOI 10.1186/1471-2164-10-627.
-
(2009)
BMC Genomics
, vol.10
, pp. 627
-
-
Voolstra, C.1
Schnetzer, J.2
Peshkin, L.3
Randall, C.4
Szmant, A.5
Medina, M.6
-
117
-
-
0029668492
-
The effects of elevated temperature on the photosynthetic efficiency of zooxanthellae in hospite from four different species of reef coral: a novel approach
-
DOI 10.1111/j.1365-3040.1996.tb00251.x
-
Warner ME, Fitt WK, Schmidt GW. 1996. The effects of elevated temperature on the photosynthetic efficiency of zooxanthellae in hospite from four different species of reef coral: a novel approach. Plant, Cell & Environment 19:291-299 DOI 10.1111/j.1365-3040.1996.tb00251.x.
-
(1996)
Plant, Cell & Environment
, vol.19
, pp. 291-299
-
-
Warner, M.E.1
Fitt, W.K.2
Schmidt, G.W.3
-
118
-
-
33746899012
-
The ecological distribution and comparative photobiology of symbiotic dinoflagellates from reef corals in Belize:potential implications for coral bleaching
-
DOI 10.4319/lo.2006.51.4.1887
-
Warner ME, LaJeunesse TC, Robison JD, Thur RM. 2006. The ecological distribution and comparative photobiology of symbiotic dinoflagellates from reef corals in Belize:potential implications for coral bleaching. Limnology and Oceanography 51:1887-1897 DOI 10.4319/lo.2006.51.4.1887.
-
(2006)
Limnology and Oceanography
, vol.51
, pp. 1887-1897
-
-
Warner, M.E.1
LaJeunesse, T.C.2
Robison, J.D.3
Thur, R.M.4
-
119
-
-
66249145772
-
Statistical methods for detecting differentially abundant features in clinical metagenomic samples
-
DOI 10.1371/journal.pcbi.1000352
-
White JR, Nagarajan N, Pop M. 2009. Statistical methods for detecting differentially abundant features in clinical metagenomic samples. PLoS Computational Biology 5:e1000352 DOI 10.1371/journal.pcbi.1000352.
-
(2009)
PLoS Computational Biology
, vol.5
-
-
White, J.R.1
Nagarajan, N.2
Pop, M.3
-
120
-
-
27144461969
-
Homology modeling revealed more than 20,000 rRNA internal transcribed spacer 2 (ITS2) secondary structures
-
DOI 10.1261/rna.2144205
-
Wolf M, Achtziger M, Schultz J, Dandekar T, Müller T. 2005. Homology modeling revealed more than 20,000 rRNA internal transcribed spacer 2 (ITS2) secondary structures. RNA 11:1616-1623 DOI 10.1261/rna.2144205.
-
(2005)
RNA
, vol.11
, pp. 1616-1623
-
-
Wolf, M.1
Achtziger, M.2
Schultz, J.3
Dandekar, T.4
Müller, T.5
|