Axiom™ Eucalyptus Genotyping Array (Axiom Euc72K), 384HT format

The Axiom Eucalyptus Genotyping Array (Axiom Euc72K) is a component of our Axiom Genotyping Solution in which target genomic DNA is prepared and processed on the GeneTitan Multi-Channel Instrument. The automated process includes hybridization of the gDNA to this high-throughput microarray, followed by staining, washing, imaging, and output of SNP genotyping data for further analysis. The Axiom Eucalyptus Genotyping Array was designed in collaboration with Drs. Dario Grattapaglia and Orzenil Bonfim Silva-Junior from EMBRAPA Genetic Resources and Biotechnology in Brazil as part of the Eucalyptus SNP Array Initiative (ESAI). The objective of the ESAI was to provide the community with an improved lower-density genotyping array with wider applicability and significantly lower cost for operational genomic selection. This array is also available in mini-96 format (Cat. No. 551135).

Axiom Eucalyptus Genotyping Array (Axiom Euc72K) content
• Contains 72,000 SNPs
• Genomes of 240 trees across 12 eucalyptus and one Corymbia species sequenced at 3.5X coverage at individual tree level to develop collection of 47 million raw SNP variants
• Supplementary whole genome sequencing data for two subtropical eucalyptus species and Corymbia used to increase sequence coverage and representation of improved SNP discovery and selection
• Whole chloroplast DNA genome sequence data used to derive subset of cpDNA SNPs
• Final list of 1.3 million SNPs selected for screening based on physical coverage of Eucalyptus grandis version 2.0 genome and screened with 960 samples covering vast majority of eucalyptus germplasm planted worldwide, including 18 eucalyptus and 4 Corymbia species
• Screening resulted in database of >780,000 validated SNPs for eucalyptus and 30,000 for Corymbia
• 72,000 SNPs selected for high-throughput production array based on genome coverage and best compromise to include largest number of informative SNPs for 'Big Nine' eucalyptus species and peripheral ones screened, while contemplating SNPs for maximum portability with previous eucalyptus SNP genotyping array

Applications
• Genome-wide association studies
• Molecular breeding (association mapping and genomic selection)
• Creation of custom array by selecting SNPs from this array (every SNP chosen has been demonstrated to perform well)

Required products
GeneChip Command Console Software
GeneTitan Multi-Channel Instrument
Axiom Analysis Suite Software
Axiom Long Format Export Tool (AxLE)