Title
Development of nuclear and plastid SNP markers for genetic studies of Dipteryx tree species in Amazonia
Date Issued
15 September 2019
Access level
open access
Resource Type
journal article
Author(s)
Blanc-Jolivet C.
Mader M.
Sebbenn A.M.
Meyer-Sand B.R.V.
Paredes-Villanueva K.
Tysklind N.
Troispoux V.
Massot M.
Degen B.
Publisher(s)
Springer Netherlands
Abstract
We developed nuclear and plastid single nucleotide polymorphism (SNP) and insertion/deletion (INDEL) markers for Dipteryx species using a combination of restriction associated DNA sequencing (RADSeq) and low coverage MiSeq genome sequencing. Of the total 315 loci genotyped using a MassARRAY platform, 292 loci were variable and polymorphic among the 73 sampled individuals from French Guiana, Brasil, Peru, and Bolivia. A final set of 56 nuclear SNPs, 26 chloroplast SNPs, 2 chloroplast INDELs, and 32 mitochondrial SNPs identifying significant population structure was developed. This set of loci will be useful for studies on population genetics of Dipteryx species in Amazonia.
Start page
333
End page
336
Volume
11
Issue
3
Language
English
OCDE Knowledge area
Forestal
Genética, Herencia
Subjects
Scopus EID
2-s2.0-85066883375
Source
Conservation Genetics Resources
ISSN of the container
18777252
Sponsor(s)
This research was supported by the German Federal Ministry of Food and Agriculture (BMEL) and the Programa Nacional de Innovación para la Competitividad y Productividad (Innóvate Perú—contract 381-PNICP-PIAP-2014). Genotyping was performed at the Genomic and Sequencing Facility of Bordeaux (Grants from the Conseil Regional d’Aquitaine Nos. 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 Nos. 4760, 49369, registration CGen 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. We are also grateful to colleagues from IIAP, INRA French Guiana, Cirad Paracou Station, Office National des Forêts, and Thünen Institute for their assistance during field work and laboratory work.
Sources of information:
Directorio de Producción Científica
Scopus