Luke needs a service for genotyping of rainbow trout individuals with Axiom Rainbow trout Genotyping Array (384 format).
Luke needs a service for genotyping of rainbow trout individuals with the ThermoFisher Axiom Rainbow trout Genotyping Array (384 format).
The SNP array to be used is the ThermoFisher Axiom Trout Genotyping Array (384 format) for ~57,501 markers in 384 format to ensures a broad coverage of the trout genome to provide representation of all regions in the genome. The Axiom Trout Genotyping Array has
• Comprehensive content: The array includes 57,501 markers spaced across the genome as follows:
- 17,000 markers that are unique to SNPs discovered in a previous USDA study1
- 20,000 markers unique to an outbred Norwegian commercial population
- Amino acid shifting SNPs
- SNPs preferentially located within a gene and with minor allele frequency (MAF) >0.2
- Y chromosome-specific SNPs near the sdY gene (male-specific in rainbow trout).
Luke will send fin tissue samples to the service provider (Eppendorf tubes and Biomark's tubes collected with their Tissue Sampling Unit (
https://biomark.com/wp-content/uploads/2021/06/Biomark_TSU_Brochure_2020.pdf) with individual codes) and the service provider will:
- Extract DNA from the fin clips,
- Purchase the arrays,
- Use Axiom Trout Genotyping Array (384 format) to generate SNP information on each fish,
- Return the remaining tissue of each sample in the form of homogenate or the tissue itself.
- Return all data to Luke. Each sample has an individual code to which the SNP data will be connected.
The genotyping will be done approximately for a total of 3072 individuals, that is 384 x 8 arrays. The samples can be sent immediately as one single batch.