APR 24, 2018 08:00 AM PDT

KASP genotyping - better by design

SPONSORED BY: LGC
C.E. CREDITS: P.A.C.E. CE | Florida CE
Speakers
  • Senior Scientist - Scientific Support, LGC
    Biography
      Jonathan studied Molecular Biology at Birkbeck College while working at G.R. Micro Ltd, a contract research company focused on both surveillance and development of antimicrobial/anti-infective compounds. He worked from laboratory aide to scientist whilst completing his degree at night. Incidentally, the company was later acquired by Quotient Bioresearch Ltd which is now the LGC Groups' Fordham facility. He carried on to study for a PhD in microbiology at UCL, looking at beta-lactamases from the soil bacterium Citrobacter freundii focusing on the role of plasmids and other mobile genetic elements in their mobilisation in to human enteric pathogens. Jonathan was lucky enough to utilise a wide variety of molecular biology techniques and sequencing, gaining a fond appreciation for bioinformatics. He was offered a position with KBioscience / LGC Genomics in 2013 to help build a technical support team, better understand our customers, how they use our chemistries and how we can help them get the best results possible. One of his first roles was to implement sequence analysis in to LGC's assay design software, called Magic Box, for automated whole genome primer analysis for any species.

    Abstract:

    In this talk we will cover basic principles of KASP® genotyping chemistry and designing assays that are specific to desired targets. We will go over commonly encountered challenges such as targeting highly conserved regions of genomes to polyploidy and distinguishing targets on chromosomes that are part of a collective of similar organisms, e.g. wheat. We will start with the basics of BLAST for highlighting regions to avoid and move on to the annotation of these regions for submission to LGC for design. From simple diploids such as human and tomato to more complex genome structures such as potato and wheat, we will show real examples before and after analysis.

    Learning Objectives:

    • Become familiar with how KASP works and how different design strategies can be used to answer a multitude of research questions.
    • Apply publicly available sequence analysis tools to solve common problem faced when designing primers and translating this for sequence submission with worked examples.
    • Show how these simple design principles can be used to answer more complex genetic questions such as differentiating and selectively target loci in polyploid genomes or targeting large insertions / deletions / rearrangements using worked examples.

    Show Resources
    You May Also Like
    MAY 22, 2018 08:00 AM PDT
    C.E. CREDITS
    MAY 22, 2018 08:00 AM PDT
    DATE: May 22, 2018TIME: 08:00AM PDT The nuclear receptors pregnane X receptor (PXR) and constitutive androstane receptor (CAR) are closely related transcription factors that...
    MAY 03, 2018 11:00 AM PDT
    MAY 03, 2018 11:00 AM PDT
    DATE: May 3, 2018TIME: 11:00AM PDT, 2:00PM EDTWhile stress is one of the leading causes of neuropsychiatric disorders, the molecular underpinnings of how stress induces alterations in b...
    APR 27, 2018 10:00 AM PDT
    C.E. CREDITS
    APR 27, 2018 10:00 AM PDT
    DATE: April 27, 2018TIME: 10:00am PST, 1:00pm ESTGlioblastoma (GBM) and Medulloblastoma (MB) are the most common adult and paediatric brain tumours, both of which can have devastating c...
    MAY 24, 2018 09:30 AM PDT
    C.E. CREDITS
    MAY 24, 2018 09:30 AM PDT
    DATE: May 24, 2018 TIME: 9:30PM PDT The current gold standard in in vitro pre-clinical cancer treatment screening remain cell lines,...
    JUN 29, 2018 09:00 AM PDT
    C.E. CREDITS
    JUN 29, 2018 09:00 AM PDT
    DATE: June 29, 2018TIME: 09:00AM PDT, 12:00PM EDT There is significant epidemiological evidence to suggest that the consumption of a high-broccoli diet is associated with a r...
    AUG 15, 2018 08:00 AM PDT
    C.E. CREDITS
    AUG 15, 2018 08:00 AM PDT
    DATE: August 15, 2018TIME: 08:00AM PDT, 11:00AM EDTThe failure of current chemotherapeutic strategies in the fight against cancer can be largely attributed to the occurrence of drug res...
    Loading Comments...
    Show Resources