We provide all-inclusive genotyping services on a fee-for-service basis with the goal of generating high-quality single nucleotide polymorphisms (SNPs) and microsatellite data. We work with our UW system and external collaborators to interrogate SNPs and microsatellite assays using several different platforms for fluorescence, capillary electrophoresis, or next-generation sequencing to provide meaningful biological information in a time-sensitive manner.
Genotyping by Sequencing (GBS) is a more comprehensive SNP analysis service that we offer.
KASPar (KBioscience Competitive Allele-Specific Polymerase chain reaction) genotyping is an allele-specific PCR fluorescence based genotyping service for SNP analysis. We provide a cost-effective, high throughput assay that requires only a small amount of sample. Please email email@example.com for a list of validated SNPs. If the SNP is not listed, we will work with you to determine genotype-specific primers and validate them prior to starting your project.
TaqMan® Assays (Thermo Fisher Scientific) use
the 5' nuclease activity of Taq DNA polymerase to cleave a
fluorescently labeled probe (FAM) that increases the specificity of
specific alleles in genomic DNA detection. Up to seven different SNPs can be multiplexed and run in one reaction.
RFLP (Restriction Fragment Length Polymorphism) Assays use restriction enzymes to digest DNA into different length fragments that we then separate out by gel electrophoresis. RFLP is highly locus-specific for restriction sites and each fragment length is considered an allele. We can use this assay in genetic analysis for your genome mapping, genetic linkage, and variation analysis projects.
We offer microsatellite analyses of Simple Sequence Repeats (SSR) and Variable Number Tandem Repeat (VNTR), along with Fragment Analysis. Using microsattelite analyses, we interrogate polymorphic DNA loci, which contain repeat nucleotide regions of 2-6 nucleotides. We typically use this in population genetics and genetic linkage studies. Microsatellite marker analysis is measured using capillary electrophoresis.
SSRs are tandemly arranged repeated regions about 1-6 nucleotides long for an individual microsatellite at a specific locus. During PCR, we use primers labeled with fluorescent dye to multiplex (if the SSRs are far enough apart). We separate amplified fragments by electrophoresis or assess on a Next Gen Sequencer. Each band will represent an allele specific size in base pairs. We use SSRs in assessing genetic variation, evolutionary studies, and genetic mapping
VNTRs are locations on a genome where short nucleotide sequences are
organized as a tandem repeat caused by recombination or replication
errors. Variations in repeat lengths are specific to different alleles. We use PCR to amplify VNTRs and determine the size by gel electrophoresis. We can also multiplex multiple VNTRs. We use VNTRs for linkage analysis of diploid genomes, genetic diversity and breeding patterns in populations.
Fragment Analysis is the sizing of fluorescently labeled products of 100-600bp. The primers are typically labeled with fluorescent dyes (6-FAM, HEX and NED) and have an internal ladder of ROX or LIZ. For more information visit Fragment Analysis here.
Instruments/platforms used for microsatellite fragment analysis:
ABI 3730XL Genetic Analyzer (Thermo Fisher)
5200 Fragment Analyzer System (Agilent)
QIAxcel Advanced System (Qiagen)
Next Gen Sequencing (Illumina)
We MUST have this information before we can proceed with your request.
Please contact firstname.lastname@example.org to arrange all sample submissions. Samples and submission forms must be submitted before a project can be entered into our queue.
Submission Forms and Guidelines
Please check the service page guidelines for specific Submission Forms and Guidelines that need to be included with your samples.
Submitting Samples/ Shipping Instructions
After setting up a customer account, filling out submission form, and reviewing submission guidelines, you can now submit or send samples. *We require customers to submit electronic Submission Forms!*
In Person Submission
Please give advance notice of submission date and time so staff can be prepared to receive samples. Schedule a time for drop off with a staff member at email@example.com
Please send the tracking information to:
Next Generation Sequencing: firstname.lastname@example.org
*Samples that are being shipped must have a hard copy of the submission form and guidelines in the package! This way we know what the samples are and where they are from.*
If shipping samples from outside UWBC, ship via express shipping carrier on dry ice to the address below: