Genetic Markers for Species Conservation and Timber Tracking: Development of Microsatellite Primers for the Tropical African Tree Species Prioria balsamifera and Prioria oxyphylla

• Published in: Forests Vol. 10; no. 11; p. 1037
• Main Authors: Vanden Abeele, Samuel, Hardy, Olivier J., Beeckman, Hans, Ilondea, Bhély Angoboy, Janssens, Steven B.
• Format: Journal Article
• Language: English
• Published: Basel MDPI AG 01.11.2019
• Subjects: african rainforest; Amplification; Breeding; Conservation; Deoxyribonucleic acid; detarioideae; DNA; dna fingerprinting; DNA fingerprints; Endangered & extinct species; fabaceae; Flooring; Forensic science; Furniture; Gene flow; Gene frequency; Genetic diversity; Genetic markers; Genetic structure; Genetics; high-throughput sequencing; Inbreeding; Loci; Markers; Microsatellites; Multiplexing; Next-generation sequencing; Nucleotide sequence; Pipeline design; Plant breeding; Plant species; Plywood; Polymorphism; Population genetics; Population studies; Populations; Populus balsamifera; Primers; species identification; ssr; Threatened species; Timber management; timber tracking; Tracking; Wildlife conservation; Wood; Belgium; Nigeria; United States > US
• ISSN: 1999-4907; 1999-4907
• DOI: 10.3390/f10111037

Research Highlights: Two novel sets of polymorphic microsatellite markers were developed for Prioria balsamifera and Prioria oxyphylla through high-throughput sequencing. Validation in two populations of each species proved the utility of the developed primers to estimate genetic diversity at population level. Background and Objectives: Prioria balsamifera and Prioria oxyphylla are tropical tree species from Central Africa. They produce a high-quality, multi-purpose timber that is of great interest to the international market. Prioria balsamifera has been included as ‘endangered’ on the IUCN Red List of Threatened Species. In order to set up adequate management plans and facilitate timber tracking, knowledge on the genetic diversity at population level is needed. Therefore, we aim to develop microsatellite markers that can be used for species conservation, forensics, plant breeding and population genetics studies. Materials and Methods: Genomic DNA of P. balsamifera and P. oxyphylla was sequenced on an Illumina NextSeq platform (Illumina Inc., San Diego, CA, USA), generating 829,421 and 772,018 paired-end reads that contained 7148 and 7004 microsatellite sequences, respectively. The QDD-pipeline was used to design primers, which were tested for amplification in two populations of each species. Cross-species amplification was tested in all seven African Prioria species. Results: For P. balsamifera, 16 polymorphic microsatellite markers were developed and combined in three multiplexes. Inbreeding appeared to be absent but genetic diversity was low in both populations. For P. oxyphylla, 15 polymorphic microsatellite markers were developed and combined in three multiplexes. Genetic diversity was low in both populations and estimated null allele frequencies were high for multiple loci. Cross-species amplification tests demonstrated the occurrence of conserved loci that amplified for most of the African Prioria species. Conclusions: The microsatellite markers prove to be useful for estimating genetic diversity at population level. These novel markers can be used to study gene flow and spatial genetic structure in Prioria species, which is needed to set up proper conservation guidelines and to prevent genetic erosion.