TY - JOUR
T1 - Nuclear and plastidial SNP and INDEL markers for genetic tracking studies of Jacaranda copaia
AU - Sebbenn, Alexandre M.
AU - Blanc-Jolivet, Celine
AU - Mader, Malte
AU - Meyer-Sand, Barbara R.V.
AU - Paredes-Villanueva, Kathelyn
AU - Honorio Coronado, Eurídice N.
AU - García-Dávila, Carmen
AU - Tysklind, Niklas
AU - Troispoux, Valerie
AU - Delcamp, Adline
AU - Degen, Bernd
N1 - Funding: This research was supported by the German Federal Ministry of Food and Agriculture in the frame of the "Large scale project on genetic timber verification". Genotyping was performed at the Genomic and Sequencing Facility of Bordeaux (grants from the Conseil Regional d'Aquitaine no 20030304002FA and 20040305003FA, the European Union, FEDER no 2003227 and Investissements d'avenir, no ANR-10-EQPX-16-01 and CEBA: ANR-10-LABX-25-01 to the UMR EcoFoG). Permits ICMBIO no 47960, 49369, registration SisGen no A16E4DA (Brazil), MAYA/VMABCCGDF/DGBAP/MEG no 0280/2016 (Bolivia), R.D. no 001-2016-SERNANP-DGANP, R.D. no 001A-2015-SERFOR-DGGSPFFS-DGSPF, and Contrato no 001-2016-SERFOR-DGGSPFFS-DGSPF (Peru) were granted for the collection, transport, and genetic analyses of samples. The authors are grateful to colleagues from IIAP, INRA French Guiana, Cirad Paracou Station, Office National des Forets, and Thuenen Institute for their assistance during field work and laboratory work. In Bolivia, samples were identified by Museo de Historia Natural Noel Kempff Mercado.
PY - 2019/9/15
Y1 - 2019/9/15
N2 - Nuclear and plastidial single nucleotide polymorphism (SNP) and INDEL markers were developed using restriction associated DNA sequencing (RADSeq) and low coverage MiSeq genome sequencing for population genetics and timber tracking purposes in the Neotropical timber species Jacaranda copaia. We used 407 nuclear SNPs, 29 chloroplast, and 31 mitochondrial loci to genotype 92 individuals from Brazil, Bolivia, French Guiana, and Peru. Based on high amplification rates and genetic differentiation among populations, 113 nuclear SNPs, 11 chloroplast, and 4 mitochondrial loci were selected, and their use validated for genetic tracking of timber origin.
AB - Nuclear and plastidial single nucleotide polymorphism (SNP) and INDEL markers were developed using restriction associated DNA sequencing (RADSeq) and low coverage MiSeq genome sequencing for population genetics and timber tracking purposes in the Neotropical timber species Jacaranda copaia. We used 407 nuclear SNPs, 29 chloroplast, and 31 mitochondrial loci to genotype 92 individuals from Brazil, Bolivia, French Guiana, and Peru. Based on high amplification rates and genetic differentiation among populations, 113 nuclear SNPs, 11 chloroplast, and 4 mitochondrial loci were selected, and their use validated for genetic tracking of timber origin.
KW - DNA fingerprints
KW - Geographical origin
KW - Jacaranda copaia
KW - MassARRAY
KW - MiSeq
KW - RADSeq
KW - Tropical timber
U2 - 10.1007/s12686-019-01097-9
DO - 10.1007/s12686-019-01097-9
M3 - Article
AN - SCOPUS:85066796684
SN - 1877-7252
VL - 11
SP - 341
EP - 343
JO - Conservation Genetics Resources
JF - Conservation Genetics Resources
IS - 3
ER -