What is “Bioinformatics”?

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Presentation transcript:

Can You Taste That? Predicting PTC Tasting Ability Among Non-Human Primates

What is “Bioinformatics”? Bioinformatics is the application of computer science and information technology to biology and medicine. National Institutes of Health Definition: Research, development, or application of computational tools and approaches for expanding the use of biological, medical, behavioral or health data, including those to acquire, store, organize, archive, analyze or visualize such data.

Bioinformatics Tools Help Scientists: Organize, Process, and Make Sense of Complex Biological Data Sets DNA RNA Protein Bioinformatics Tools: DNA Sequencing Identify Mutations in DNA. Bioinformatics Tools: RNA Sequencing Identify tissue specific gene expression. Bioinformatics Tools: Protein 3D Structure visualization. Identify the impact of mutations. Bioinformatics tools help scientists organize, process and make sense of complex biological data sets Image Source: Wikipedia Commons

TAS2R38 Bitter Taste Receptor [“PTC”] Gene Left Primer Right Primer Amplify by PCR Chromosome 7 1002 bp NONTASTER (tt) GGCGGGCACT PCR PRODUCT (221 bp) TASTER (TT) GGCGGCCACT Digest with HaeIII Restriction Enzyme (Recognition Sequence GGCC ) GGCGG 44 bp FRAGMENT CCACT 177 bp FRAGMENT GGCGGGCACT 221 bp FRAGMENT Gel Electrophoresis 221 bp FRAGMENT 44 bp FRAGMENT 177 bp FRAGMENT Source: Using a Single-Nucleotide Polymorphism to Predict Bitter-Tasting Ability. Dolan DNA Learning Center and Carolina Biologicals.

Can you taste that? PTC Tasting & Polymerase Chain Reaction (PCR) U = Undigested PCR Product D = Digested PCR Product Day 1: Isolating DNA Day 2: Performing PCR Day 3: Restriction Digest of PCR Product Day 4: Agarose Gel Electrophoresis & PTC Tasting Paper Day 5: Bioinformatics Activity U D U D U D MW TT Tt tt TT = 221 bp FRAGMENT Tt = 221 bp, 177 bp & 44 bp* FRAGMENTS tt = 177 bp & 44 bp* FRAGMENTS *44 bp FRAGMENT difficult to visualize

Can you taste that? PTC Tasting Ability Among Primates http://v3.digitalworldbiology.com/ptc-tasting-ability-among-primates

What is the predicted tasting phenotype of various non-human primates? Factors to Consider when Making Predictions: Diet Geographical range Old vs. New World primates Monkey vs. Ape Social Structure Time spent rearing their young Includes primate cards, descriptions and TAS3R38 protein sequences for 37 non-human primate species

Using BLAST to Compare Human & Non-Human Primate TAS3R38 Sequences

Is Tasting or Non-Tasting the More “Ancient” Trait? Among Non-Human Primates Analyzed: 27/37 (73%) are “PAV” 10/37 (27%) are “PAI” Among Human’s Studied*: 56% are “PAV” 38% are “AVI” 6% other (none PAI) Sample Size = 330. Wooding et al. 2004. Am. J. Hum. Genet. 74:637-646.