Open Access Highly Accessed Research article

Widespread horizontal genomic exchange does not erode species barriers among sympatric ducks

Robert HS Kraus12*, Hindrik HD Kerstens3, Pim van Hooft1, Hendrik-Jan Megens4, Johan Elmberg5, Arseny Tsvey6, Dmitry Sartakov7, Sergej A Soloviev8, Richard PMA Crooijmans4, Martien AM Groenen4, Ronald C Ydenberg19 and Herbert HT Prins1

Author Affiliations

1 Resource Ecology Group, Wageningen University, P.O. Box 47, 6700 AA Wageningen, The Netherlands

2 Conservation Genetics Group, Senckenberg Research Institute and Natural History Museum, D-63571 Gelnhausen, Germany

3 Department of Molecular Biology, Faculty of Science, Nijmegen Centre for Molecular Life Sciences, Radboud University Nijmegen, Nijmegen, The Netherlands

4 Animal Breeding and Genomics Centre, Wageningen University, Marijkeweg 40, 6709 PG Wageningen, The Netherlands

5 Aquatic Biology and Chemistry, Kristianstad University, SE-291 88 Kristianstad, Sweden

6 Biological Station Rybachy of the Zoological institute RAS, 238535 Kaliningrad region, Russia

7 Ecological Watch of Siberia, Komarova street 27/6/5, 644074 Omsk, Russia

8 Department of Chemistry, Omsk State University, St. Prospect Mira 55a, 644077 Omsk, Russia

9 Centre for Wildlife Ecology, Simon Fraser University, V5A 1S6 Burnaby, BC, Canada

For all author emails, please log on.

BMC Evolutionary Biology 2012, 12:45  doi:10.1186/1471-2148-12-45

Published: 2 April 2012

Additional files

Additional file 1:

Bar graph of the genetic admixture analysis of individual ducks. All duck species in one admixture analysis. Each bar represents one individual and colours indicate membership in a certain cluster as identified with STRUCTURE without using prior information. Individual IDs are explained in the text and additional file 4 and additional file 6. On the y-axis the percentage of membership in a certain cluster is given. For instance, individual ATHO001 (individual 1 from the Anas platyrhynchos locality in Austria) is almost 100% assigned to the light blue cluster, while individual CARM009 (from a Canadian locality) is mainly assigned to the light blue, but also with about 15% to the purple cluster (an effect of genetic admixture between these two otherwise discrete clusters). This file is scalable in order to retrieve details if needed.

Format: PDF Size: 41KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 2:

Bar graph of the genetic admixture analysis of individuals: Anas platyrhynchos excluded. See additional file 1 for details.

Format: PDF Size: 13KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 3:

Vector graph of a PCA analysis of genotypes of all duck species. First and second axes are plotted against each other (explained variation in brackets). Grey dots represent individuals designated as Anas platyrhynchos at sampling. Other colours indicate other duck species. A tentative hybrid between Anas acuta and Anas platyrhynchos is in red. Labels next to the dots represent individual study IDs. This file is scalable in order to retrieve details if needed.

Format: PDF Size: 23KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 4:

List of all Anas platyrhynchos samples analysed in this study. Includes information on specific ID, collection date, country of origin, names of collectors, sampling locations, and further additional info.

Format: PDF Size: 16KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 5:

PCA analysis of genotypes of all non-Anas platyrhynchos individuals. Details as in additional file 3, but without Anas platyrhynchos.

Format: XLS Size: 46KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 6:

List of all other duck species samples analysed in this study, Details similar those given in additional file 4.

Format: XLS Size: 21KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 7:

'Oligo pooled assay (OPA)' summary file. Contains all necessary information for genotyping the presented SNPs on an Illumina BeadXpress system.

Format: OPA Size: 229KB Download file

Open Data

Additional file 8:

'Cluster file' for use with GenomeStudio software. These configuration settings are used by the SNP genotyping software to convert raw signal into genotypes.

Format: EGT Size: 169KB Download file

Open Data