Skip to content
Home
About Us
Resources
Profiles Metrics
Authors Directory
Institutions Directory
Top Authors
Top Institutions
Top Sponsors
AI Digest
Contact Us
Menu
Home
About Us
Resources
Profiles Metrics
Authors Directory
Institutions Directory
Top Authors
Top Institutions
Top Sponsors
AI Digest
Contact Us
Home
About Us
Resources
Profiles Metrics
Authors Directory
Institutions Directory
Top Authors
Top Institutions
Top Sponsors
AI Digest
Contact Us
Menu
Home
About Us
Resources
Profiles Metrics
Authors Directory
Institutions Directory
Top Authors
Top Institutions
Top Sponsors
AI Digest
Contact Us
Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
A high-density Diversity Arrays Technology (DArT) microarray for genome-wide genotyping in Eucalyptus
Plant Methods, Volume 6, No. 1, Article 16, Year 2010
Notification
URL copied to clipboard!
Description
Background: A number of molecular marker technologies have allowed important advances in the understanding of the genetics and evolution of Eucalyptus, a genus that includes over 700 species, some of which are used worldwide in plantation forestry. Nevertheless, the average marker density achieved with current technologies remains at the level of a few hundred markers per population. Furthermore, the transferability of markers produced with most existing technology across species and pedigrees is usually very limited. High throughput, combined with wide genome coverage and high transferability are necessary to increase the resolution, speed and utility of molecular marker technology in eucalypts. We report the development of a high-density DArT genome profiling resource and demonstrate its potential for genome-wide diversity analysis and linkage mapping in several species of Eucalyptus.Findings: After testing several genome complexity reduction methods we identified the PstI/TaqI method as the most effective for Eucalyptus and developed 18 genomic libraries from PstI/TaqI representations of 64 different Eucalyptus species. A total of 23,808 cloned DNA fragments were screened and 13,300 (56%) were found to be polymorphic among 284 individuals. After a redundancy analysis, 6,528 markers were selected for the operational array and these were supplemented with 1,152 additional clones taken from a library made from the E. grandis tree whose genome has been sequenced. Performance validation for diversity studies revealed 4,752 polymorphic markers among 174 individuals. Additionally, 5,013 markers showed segregation when screened using six inter-specific mapping pedigrees, with an average of 2,211 polymorphic markers per pedigree and a minimum of 859 polymorphic markers that were shared between any two pedigrees.Conclusions: This operational DArT array will deliver 1,000-2,000 polymorphic markers for linkage mapping in most eucalypt pedigrees and thus provide high genome coverage. This array will also provide a high-throughput platform for population genetics and phylogenetics in Eucalyptus. The transferability of DArT across species and pedigrees is particularly valuable for a large genus such as Eucalyptus and will facilitate the transfer of information between different studies. Furthermore, the DArT marker array will provide a high-resolution link between phenotypes in populations and the Eucalyptus reference genome, which will soon be completed. © 2010 Sansaloni et al; licensee BioMed Central Ltd.
Available Materials
https://efashare.b-cdn.net/share/pmc/articles/PMC2903579/bin/1746-4811-6-16-S1.DOC
Authors & Co-Authors
Sansaloni, Carolina Paola
Brazil, Brasilia
Embrapa Recursos Geneticos e Biotecnologia
Brazil, Brasilia
Universidade de Brasília
Petroli, César Daniel
Brazil, Brasilia
Embrapa Recursos Geneticos e Biotecnologia
Brazil, Brasilia
Universidade de Brasília
Carling, Jason
Australia, Canberra
Diversity Arrays Technology Pty Ltd
Hudson, Corey J.
Australia, Hobart
University of Tasmania
Steane, Dorothy A.
Australia, Hobart
University of Tasmania
Myburg, Alexander Andrew
South Africa, Pretoria
University of Pretoria
Grattapaglia, Dario
Brazil, Brasilia
Embrapa Recursos Geneticos e Biotecnologia
Brazil, Brasilia
Universidade de Brasília
Brazil, Brasilia
Universidade Católica de Brasília
Vaillancourt, René E.
Australia, Hobart
University of Tasmania
Kilian, Andrzej
Australia, Canberra
Diversity Arrays Technology Pty Ltd
Statistics
Citations: 134
Authors: 9
Affiliations: 6
Identifiers
Doi:
10.1186/1746-4811-6-16
e-ISSN:
17464811
Research Areas
Genetics And Genomics
Health System And Policy
Study Design
Cross Sectional Study