A high-density Diversity Arrays Technology (DArT) microarray for genome-wide genotyping in Eucalyptus
Carolina Sansaloni,Carolina Sansaloni,Cesar Petroli,Cesar Petroli,Jason Carling,Corey J. Hudson,Dorothy A. Steane,Alexander Andrew Myburg,Dario Grattapaglia,Dario Grattapaglia,Dario Grattapaglia,René E. Vaillancourt,Andrzej Kilian +12 more
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TLDR
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 and will also provide a high-throughput platform for population genetics and phylogenetics in EucalyPTus.Abstract:
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.read more
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Book ChapterDOI
Diversity arrays technology: a generic genome profiling technology on open platforms.
Andrzej Kilian,Peter Wenzl,Eric Huttner,Jason Carling,Ling Xia,Helene Blois,Vanessa Caig,Katarzyna Heller-Uszynska,Damian Jaccoud,Colleen Hopper,Malgorzata Aschenbrenner-Kilian,Margaret Evers,Kaiman Peng,Cyril Cayla,Puthick Hok,Grzegorz Uszynski +15 more
TL;DR: DArT proved more robust to genome size and ploidy-level differences among approximately 60 organisms for which DArT was developed to date compared to other high-throughput genotyping technologies.
Journal ArticleDOI
Genomic selection in forest tree breeding
Dario Grattapaglia,Dario Grattapaglia,Marcos Deon Vilela de Resende,Marcos Deon Vilela de Resende +3 more
TL;DR: The cautiously optimistic outlook is that GS has great potential to accelerate tree breeding, however, further simulation studies and proof-of-concept experiments of GS are needed before recommending it for operational implementation.
Journal ArticleDOI
Genomic selection for growth and wood quality in Eucalyptus: capturing the missing heritability and accelerating breeding for complex traits in forest trees
Marcos Deon Vilela de Resende,Marcos Deon Vilela de Resende,Márcio Fernando R. Resende,Carolina Sansaloni,Carolina Sansaloni,Cesar Petroli,Cesar Petroli,Alexandre Alves Missiaggia,Aurélio Mendes Aguiar,Jupiter Israel Muro Abad,Elizabete Keiko Takahashi,Antonio M. Rosado,Danielle A. Faria,Georgios J. Pappas,Georgios J. Pappas,Andrzej Kilian,Dario Grattapaglia,Dario Grattapaglia +17 more
TL;DR: Genomic selection brings a new perspective to the understanding of quantitative trait variation in forest trees and provides a revolutionary tool for applied tree improvement, although population-specific predictive models will likely drive the initial applications of GS in forest tree breeding.
Journal ArticleDOI
Diversity Arrays Technology (DArT) and next-generation sequencing combined: genome-wide, high throughput, highly informative genotyping for molecular breeding of Eucalyptus
Carolina Sansaloni,Cesar Petroli,Damian Jaccoud,Jason Carling,Frank Detering,Dario Grattapaglia,Dario Grattapaglia,Andrzej Kilian +7 more
TL;DR: The power of the now well established DArT marker platform in combination with Illumina short read sequencing to generate a linkage map for a segregating outcrossed F1 population derived from E. grandis BRASUZ1, the donor of the Eucalyptus reference genome is assessed.
Journal ArticleDOI
Progress in Myrtaceae genetics and genomics: Eucalyptus as the pivotal genus
Dario Grattapaglia,Dario Grattapaglia,René E. Vaillancourt,Merv Shepherd,Bala R. Thumma,William J. Foley,Carsten Külheim,Brad M. Potts,Alexander Andrew Myburg +8 more
TL;DR: The status of genomics and genetics research in the Myrtaceae, a large family of dicotyledonous woody plants, is reviewed with Eucalyptus as the focal genus, to find candidate gene-based association genetics have successfully found marker–trait associations for wood and fiber traits.
References
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Journal ArticleDOI
Diversity Arrays: a solid state technology for sequence information independent genotyping
TL;DR: The successful application of the microarray technology platform to the analysis of DNA polymorphisms is presented and the potential of a high-throughput genome analysis method called Diversity Array Technology, DArT' is demonstrated.
Journal ArticleDOI
Diversity arrays technology (DArT) for high-throughput profiling of the hexaploid wheat genome
Mona Akbari,Peter Wenzl,Vanessa Caig,Jason Carling,Ling Xia,Shiying Yang,Grzegorz Uszynski,Volker Mohler,Volker Mohler,A. Lehmensiek,Haydn Kuchel,Mathew J. Hayden,Mathew J. Hayden,Neil Howes,Peter Sharp,Peter Vaughan,Bill Rathmell,Eric Huttner,Andrzej Kilian +18 more
TL;DR: It is shown that DArT performs similarly well for the hexaploid genome of bread wheat as it did for barley, and the genetic relationships among bread wheat cultivars revealed by D ArT coincided with knowledge generated with other methods, and even closely related cultivars could be distinguished.
Journal ArticleDOI
Diversity Arrays Technology (DArT) for whole-genome profiling of barley
Peter Wenzl,Jason Carling,David Kudrna,Damian Jaccoud,Damian Jaccoud,Eric Huttner,Andris Kleinhofs,Andrezej Kilian +7 more
TL;DR: Diversity Arrays Technology can be effectively applied to genetic mapping and diversity analyses of barley and is highlighted as a generic technique for genome profiling in the context of molecular breeding and genomics.
Journal ArticleDOI
Eucalyptus applied genomics: from gene sequences to breeding tools.
TL;DR: Given the extraordinary genetic variation that exists in the genus Eucalyptus, the ingenuity of most breeders, and the powerful genomic tools that have become available, the prospects of applied genomics in Eucaliptus forest production are encouraging.