genomics - Genomics Chapter 20 Genomics Genomics is the...

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Unformatted text preview: Genomics Chapter 20 Genomics Genomics is the study of whole genomes Structural Genomics Sequence of DNA and prediction of genes and elements Functional Genomics Prediction of function of the genes When and where are they expressed Role in biological function Comparative Genomics How organisms differ in information How has information changed over evolution What are the really important differences Drosophila Drosophila Genetic Map Distances in centiMorgans Recombination frequency distance G A G A G G A T A G C G C G C C T A A T G G C G C G C T A T A T T G C G T A G C G T C A G T G C G C G G T Drosophila Genetic Map Distances in centiMorgans Recombination frequency distance Associated DNA sequence PHYSICAL MAP Distances in bp (Kbp, Mbp) 0 bp 22.4 Mbp Drosophila Maps: http://flybase.org/maps/chromosomes/ Molecular Markers can track polymorphisms (differences) in the DNA sequence VNTR: V ariable N umber of T andem R epeats Minisatellites Repeats 6-10 bases long, scattered over genome STR: S hort T andem R epeats Microsatellites Repeats 3-6 bases long, scattered over genome PCR primers Short Tandem Repeat sequences (STRs) Microsatellites- 3-4 bp long repeated multiple times hyper variable in number of repeats CODIS-13 STR markers used for DNA fingerprinting in forensics Segregation of one STR marker in a cross- can map its location vs. other traits or molecular markers Different progeny parents * * * * * * Afflicted Dominant trait Linkage to this Marker allele 3 STR locus Xcfa2292 2/20 longer repeat associated with susceptibility gene progeny : R=resistant, S=susceptible STR locus Xwmc44 all long allele associated with susceptibility gene progeny : R=resistant, S=susceptible http://www.chinagene.cn/qikan/manage/htmlwenzhang/XB7071.htm Mapping virus resistance in wheat- dominant trait so follow susceptible progeny (S) S parent R parent S parent R parent 10% recombination so 10 cM away from susceptibility gene <0.5% recombination so < 0.5 cM away from susceptibility gene ND=292.70&MAP0=ideogr%2Cmarsh%2Cthon&VERBOSE=ON&COMPRESS=auto&WIDT Microsatellite markers Additional molecular markers Molecular Markers Mapped on human chromosome 1 Distances in centiMorgans 7.19 p.184 Remember?-Found Genetic Linkage of Nail-patella syndrome and blood type (ANOTHER PHENOTYPIC MARKER) in pedigree?-If we knew the gene for blood-type, then we would know the afflicted gene was 15cM away (15 million bases) Nail-patella syndrome- autosomal dominant = N wild-type = n * * 2 recombinants/13=15cM 1 cM 2245 1 Mbp Physical Marker allow finding the gene associated with a nearby phenotypic marker Cystic Fibrosis Gene (chapter 19) MET and D7S8- molecular marker linked to Cystic Fibrosis locus- mapped to less than 1cM away Walking- using one genomic clone to find a neighboring segment by overlap 19.21 Genomic Library- a collection of bacteria each containing a different part of the genome. Together have entire genome Remember If BAC vector then each insert is up to 300 Kb long Genomic Library...
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genomics - Genomics Chapter 20 Genomics Genomics is the...

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