Population stock structure of leatherback turtles (Dermochelyscoriacea) in the Atlantic revealed using mtDNA and microsatellite markers

This study presents a comprehensive genetic analysis of stock structure for leatherback turtles ( Dermochelys coriacea ), combining 17 microsatellite loci and 763 bp of the mtDNA control region. Recently discovered eastern Atlantic nesting populations of this critically endangered species were absen...

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Vydáno v:	Conservation genetics Ročník 14; číslo 3; s. 625 - 636
Hlavní autoři:	Dutton, Peter H., Roden, Suzanne E., Stewart, Kelly R., LaCasella, Erin, Tiwari, Manjula, Formia, Angela, Thomé, Joao Carlos, Livingstone, Suzanne R., Eckert, Scott, Chacon-Chaverri, Didiher, Rivalan, Philippe, Allman, Phil
Médium:	Journal Article
Jazyk:	angličtina
Vydáno:	Dordrecht Springer Netherlands 01.06.2013 Springer Nature B.V
Témata:	Animal Genetics and Genomics Biodiversity Biomedical and Life Sciences Brazil Conservation Biology/Ecology Dermochelys coriacea Ecology Endangered species Evolutionary Biology gene flow Gene loci Genetic markers Haplotypes Indian Ocean Life Sciences microsatellite repeats Mitochondrial DNA Nesting nesting sites Plant Genetics and Genomics Population differentiation Reptiles & amphibians Research Article Satellite DNA surveys Turtles Western Africa AE, Atlantic ISW, Indian Ocean ASE, Africa A, Atlantic Western Africa Indian Ocean Brazil Microsatellites Recovery plan Mitochondrial DNA Demographically independent populations Management Sea turtle Conservation genetics
ISSN:	1566-0621, 1572-9737
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Abstract	This study presents a comprehensive genetic analysis of stock structure for leatherback turtles ( Dermochelys coriacea ), combining 17 microsatellite loci and 763 bp of the mtDNA control region. Recently discovered eastern Atlantic nesting populations of this critically endangered species were absent in a previous survey that found little ocean-wide mtDNA variation. We added rookeries in West Africa and Brazil and generated longer sequences for previously analyzed samples. A total of 1,417 individuals were sampled from nine nesting sites in the Atlantic and SW Indian Ocean. We detected additional mtDNA variation with the longer sequences, identifying ten polymorphic sites that resolved a total of ten haplotypes, including three new variants of haplotypes previously described by shorter sequences. Population differentiation was substantial between all but two adjacent rookery pairs, and F ST values ranged from 0.034 to 0.676 and 0.004 to 0.205 for mtDNA and microsatellite data respectively, suggesting that male-mediated gene flow is not as widespread as previously assumed. We detected weak ( F ST = 0.008 and 0.006) but significant differentiation with microsatellites between the two population pairs that were indistinguishable with mtDNA data. POWSIM analysis showed that our mtDNA marker had very low statistical power to detect weak structure ( F ST < 0.005), while our microsatellite marker array had high power. We conclude that the weak differentiation detected with microsatellites reflects a fine scale level of demographic independence that warrants recognition, and that all nine of the nesting colonies should be considered as demographically independent populations for conservation. Our findings illustrate the importance of evaluating the power of specific genetic markers to detect structure in order to correctly identify the appropriate population units to conserve.
AbstractList	This study presents a comprehensive genetic analysis of stock structure for leatherback turtles ( Dermochelys coriacea ), combining 17 microsatellite loci and 763 bp of the mtDNA control region. Recently discovered eastern Atlantic nesting populations of this critically endangered species were absent in a previous survey that found little ocean-wide mtDNA variation. We added rookeries in West Africa and Brazil and generated longer sequences for previously analyzed samples. A total of 1,417 individuals were sampled from nine nesting sites in the Atlantic and SW Indian Ocean. We detected additional mtDNA variation with the longer sequences, identifying ten polymorphic sites that resolved a total of ten haplotypes, including three new variants of haplotypes previously described by shorter sequences. Population differentiation was substantial between all but two adjacent rookery pairs, and F ST values ranged from 0.034 to 0.676 and 0.004 to 0.205 for mtDNA and microsatellite data respectively, suggesting that male-mediated gene flow is not as widespread as previously assumed. We detected weak ( F ST = 0.008 and 0.006) but significant differentiation with microsatellites between the two population pairs that were indistinguishable with mtDNA data. POWSIM analysis showed that our mtDNA marker had very low statistical power to detect weak structure ( F ST < 0.005), while our microsatellite marker array had high power. We conclude that the weak differentiation detected with microsatellites reflects a fine scale level of demographic independence that warrants recognition, and that all nine of the nesting colonies should be considered as demographically independent populations for conservation. Our findings illustrate the importance of evaluating the power of specific genetic markers to detect structure in order to correctly identify the appropriate population units to conserve. This study presents a comprehensive genetic analysis of stock structure for leatherback turtles (Dermochelys coriacea), combining 17 microsatellite loci and 763 bp of the mtDNA control region. Recently discovered eastern Atlantic nesting populations of this critically endangered species were absent in a previous survey that found little ocean-wide mtDNA variation. We added rookeries in West Africa and Brazil and generated longer sequences for previously analyzed samples. A total of 1,417 individuals were sampled from nine nesting sites in the Atlantic and SW Indian Ocean. We detected additional mtDNA variation with the longer sequences, identifying ten polymorphic sites that resolved a total of ten haplotypes, including three new variants of haplotypes previously described by shorter sequences. Population differentiation was substantial between all but two adjacent rookery pairs, and F ^sub ST^ values ranged from 0.034 to 0.676 and 0.004 to 0.205 for mtDNA and microsatellite data respectively, suggesting that male-mediated gene flow is not as widespread as previously assumed. We detected weak (F ^sub ST^ = 0.008 and 0.006) but significant differentiation with microsatellites between the two population pairs that were indistinguishable with mtDNA data. POWSIM analysis showed that our mtDNA marker had very low statistical power to detect weak structure (F ^sub ST^ < 0.005), while our microsatellite marker array had high power. We conclude that the weak differentiation detected with microsatellites reflects a fine scale level of demographic independence that warrants recognition, and that all nine of the nesting colonies should be considered as demographically independent populations for conservation. Our findings illustrate the importance of evaluating the power of specific genetic markers to detect structure in order to correctly identify the appropriate population units to conserve.[PUBLICATION ABSTRACT] This study presents a comprehensive genetic analysis of stock structure for leatherback turtles (Dermochelys coriacea), combining 17 microsatellite loci and 763 bp of the mtDNA control region. Recently discovered eastern Atlantic nesting populations of this critically endangered species were absent in a previous survey that found little ocean-wide mtDNA variation. We added rookeries in West Africa and Brazil and generated longer sequences for previously analyzed samples. A total of 1,417 individuals were sampled from nine nesting sites in the Atlantic and SW Indian Ocean. We detected additional mtDNA variation with the longer sequences, identifying ten polymorphic sites that resolved a total of ten haplotypes, including three new variants of haplotypes previously described by shorter sequences. Population differentiation was substantial between all but two adjacent rookery pairs, and F sub(ST) values ranged from 0.034 to 0.676 and 0.004 to 0.205 for mtDNA and microsatellite data respectively, suggesting that male-mediated gene flow is not as widespread as previously assumed. We detected weak (F sub(ST) = 0.008 and 0.006) but significant differentiation with microsatellites between the two population pairs that were indistinguishable with mtDNA data. POWSIM analysis showed that our mtDNA marker had very low statistical power to detect weak structure (F sub(ST) < 0.005), while our microsatellite marker array had high power. We conclude that the weak differentiation detected with microsatellites reflects a fine scale level of demographic independence that warrants recognition, and that all nine of the nesting colonies should be considered as demographically independent populations for conservation. Our findings illustrate the importance of evaluating the power of specific genetic markers to detect structure in order to correctly identify the appropriate population units to conserve. This study presents a comprehensive genetic analysis of stock structure for leatherback turtles (Dermochelys coriacea), combining 17 microsatellite loci and 763 bp of the mtDNA control region. Recently discovered eastern Atlantic nesting populations of this critically endangered species were absent in a previous survey that found little ocean-wide mtDNA variation. We added rookeries in West Africa and Brazil and generated longer sequences for previously analyzed samples. A total of 1,417 individuals were sampled from nine nesting sites in the Atlantic and SW Indian Ocean. We detected additional mtDNA variation with the longer sequences, identifying ten polymorphic sites that resolved a total of ten haplotypes, including three new variants of haplotypes previously described by shorter sequences. Population differentiation was substantial between all but two adjacent rookery pairs, and F ST values ranged from 0.034 to 0.676 and 0.004 to 0.205 for mtDNA and microsatellite data respectively, suggesting that male-mediated gene flow is not as widespread as previously assumed. We detected weak (F ST = 0.008 and 0.006) but significant differentiation with microsatellites between the two population pairs that were indistinguishable with mtDNA data. POWSIM analysis showed that our mtDNA marker had very low statistical power to detect weak structure (F ST < 0.005), while our microsatellite marker array had high power. We conclude that the weak differentiation detected with microsatellites reflects a fine scale level of demographic independence that warrants recognition, and that all nine of the nesting colonies should be considered as demographically independent populations for conservation. Our findings illustrate the importance of evaluating the power of specific genetic markers to detect structure in order to correctly identify the appropriate population units to conserve. © 2013 Springer Science+Business Media Dordrecht (outside the USA).
Author	Thomé, Joao Carlos LaCasella, Erin Formia, Angela Eckert, Scott Tiwari, Manjula Chacon-Chaverri, Didiher Stewart, Kelly R. Dutton, Peter H. Livingstone, Suzanne R. Rivalan, Philippe Allman, Phil Roden, Suzanne E.
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NOAA, Myrtle Beach, p 179 GuoSWThompsonEAPerforming the exact test of Hardy–Weinberg proportion for multiple allelesBiometrics199248361372163796610.2307/25322961:STN:280:DyaK38zksFGgsA%3D%3D Liew HC (2011) Tragedy of the Malaysian leatherback population: what went wrong. In: Dutton PH, Squires D, Mahfuzuddin A (eds) Conservation and sustainable management of sea turtles in the Pacific Ocean. University of Hawaii Press, Hawaii, pp 97–106 ChiversSJDizonAEGearinPJRobertsonKMSmall-scale population structure of eastern North Pacific harbour porpoises (Phocoena phocoena) indicated by molecular genetic analysesFish Sci20024111122 TempletonARCrandallKASingCFA cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. III. Cladogram estimationGenetics199213261963313852661:CAS:528:DyaK3sXhslSrsQ%3D%3D WittMJBongunoEABroderickACCoyneMSFormiaAGibudiAMounguenguiGAMMoussoundaCNsafouMNougessonoSParnellRJSounguetG-PVerhageSGodleyBJTracking leatherback turtles from the world’s largest rookery: assessing threats across the South AtlanticProc R Soc B2011278233823472120894910.1098/rspb.2010.24 N Ryman (456_CR55) 2006; 15 M Girondot (456_CR21) 1996; 2 SE Roden (456_CR53) 2011; 3 SA Karl (456_CR31) 1992; 131 R Development Core Team (456_CR50) 2011 BL Taylor (456_CR63) 1999; 8 JD DiBattista (456_CR10) 2012; 103 SM Vargas (456_CR69) 2008; 99 A Billes (456_CR5) 2006; 111 RS Waples (456_CR73) 2006; 15 L Excoffier (456_CR19) 1992; 131 D Posada (456_CR49) 2001; 16 SA Karl (456_CR32) 2012; 21 BP Wallace (456_CR72) 2011; 6 DL Dutton (456_CR15) 2005; 126 456_CR17 456_CR58 S Troëng (456_CR66) 2004; 38 JC Avise (456_CR3) 1998; 89 456_CR12 456_CR11 SA Karl (456_CR30) 1999; 13 GM O’Corry-Crowe (456_CR46) 1997; 6 NN FitzSimmons (456_CR20) 1997; 147 KR Stewart (456_CR59) 2011; 21 J Sambrook (456_CR56) 1989 MC James (456_CR27) 2005; 147 AR Hoelzel (456_CR23) 1991; 66 C Moritz (456_CR42) 1994; 9 M Raymond (456_CR51) 1995; 49 H Bandelt (456_CR4) 1999; 16 PH Dutton (456_CR14) 1999; 248 D Chacón-Chaverri (456_CR8) 2007; 6 C Monzón-Argüello (456_CR41) 2010; 11 N Ryman (456_CR54) 2006; 6 MJ Witt (456_CR76) 2009; 142 MC Whitlock (456_CR75) 2011; 20 PG Meirmans (456_CR38) 2011; 11 BS Weir (456_CR74) 1984; 38 N Mrosovsky (456_CR43) 2010; 128 L Excoffier (456_CR18) 2010; 10 BW Bowen (456_CR6) 2005; 14 S Troëng (456_CR67) 2007; 6 456_CR37 BP Wallace (456_CR71) 2010; 5 456_CR36 GM O’Corry-Crowe (456_CR47) 2006; 84 456_CR35 C Carreras (456_CR7) 2007; 8 456_CR33 AR Templeton (456_CR65) 1992; 132 456_CR1 PH Dutton (456_CR13) 2009; 9 PH Dutton (456_CR16) 2007; 6 S Mesnick (456_CR39) 2011; 11 L Jost (456_CR29) 2008; 17 SJ Chivers (456_CR9) 2002; 4 JI Hoffman (456_CR24) 2006; 15 SW Guo (456_CR22) 1992; 48 LC Larsson (456_CR34) 2009; 10 BM Shamblin (456_CR57) 2011; 158 456_CR64 PGE Augustinus (456_CR2) 2004; 208 456_CR62 MA Roberts (456_CR52) 2004; 166 456_CR61 MJ Witt (456_CR77) 2011; 278 456_CR28 456_CR26 456_CR68 X Velez-Zuazo (456_CR70) 2008; 17 SA Miller (456_CR40) 1988; 16
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Snippet	This study presents a comprehensive genetic analysis of stock structure for leatherback turtles ( Dermochelys coriacea ), combining 17 microsatellite loci and... This study presents a comprehensive genetic analysis of stock structure for leatherback turtles (Dermochelys coriacea), combining 17 microsatellite loci and...
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SubjectTerms	Animal Genetics and Genomics Biodiversity Biomedical and Life Sciences Brazil Conservation Biology/Ecology Dermochelys coriacea Ecology Endangered species Evolutionary Biology gene flow Gene loci Genetic markers Haplotypes Indian Ocean Life Sciences microsatellite repeats Mitochondrial DNA Nesting nesting sites Plant Genetics and Genomics Population differentiation Reptiles & amphibians Research Article Satellite DNA surveys Turtles Western Africa
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Title	Population stock structure of leatherback turtles (Dermochelyscoriacea) in the Atlantic revealed using mtDNA and microsatellite markers
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