Transferability, development of simple sequence repeat (SSR) markers and application to the analysis of genetic diversit
- PDF / 1,854,002 Bytes
- 23 Pages / 595.276 x 790.866 pts Page_size
- 94 Downloads / 187 Views
RESEARCH ARTICLE
Open Access
Transferability, development of simple sequence repeat (SSR) markers and application to the analysis of genetic diversity and population structure of the African fan palm (Borassus aethiopum Mart.) in Benin Mariano Joly Kpatènon1,2,3, Kolawolé Valère Salako2,4, Sylvain Santoni5, Leila Zekraoui3, Muriel Latreille5, Christine Tollon-Cordet5, Cédric Mariac3, Estelle Jaligot3,6†, Thierry Beulé3,6† and Kifouli Adéoti1,2*†
Abstract Background: In Sub-Saharan Africa, Borassus aethiopum Mart. (African fan palm) is an important non-timber forest product-providing palm that faces multiple anthropogenic threats to its genetic diversity. However, this species is so far under-studied, which prevents its sustainable development as a resource. The present work is a first attempt at characterizing the genetic diversity and population structure of B. aethiopum across nine collection sites spanning the three climatic regions of Benin, West Africa, through the use of microsatellite markers. Results: During a first phase we relied on the reported transferability of primers developed in other palm species. We find that, in disagreement with previously published results, only 22.5% of the markers tested enable amplification of B. aethiopum DNA and polymorphism detection is very low. In a second phase, we generated a B. aethiopum-specific genomic dataset through high-throughput sequencing and used it for the de novo detection of microsatellite loci. Among the primer pairs targeting these, 11 detected polymorphisms and were further used for analyzing genetic diversity. Across the nine sites, expected heterozygosity (He) ranges from 0.263 to 0.451 with an overall average of 0.354, showing a low genetic diversity. Analysis of molecular variance (AMOVA) shows that within-site variation accounts for 53% of the genetic variation. Accordingly, the low number of migrants and positive values of the fixation index (F) in sites from both the Central (Sudano-Guinean) and (Continued on next page)
* Correspondence: [email protected] Estelle Jaligot, Thierry Beulé and Kifouli Adéoti are equal contributors as last authors. 1 Laboratoire de Microbiologie et de Technologie Alimentaire (LAMITA), Faculté des Sciences et Techniques, Université d’Abomey-Calavi, Cotonou, Bénin 2 Biodiversité et Ecologie des Plantes (BDEP), Faculté des Sciences et Techniques, Université d’Abomey-Calavi, Cotonou, Bénin Full list of author information is available at the end of the article © The Author(s). 2020 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is
Data Loading...
