hoover murdock presentation
TRANSCRIPT
Murdock Site Visit, 5 September 2014Evolution of Human Olfaction
Kara C Hoover, Anthropology
A little background
THE NOSE IS AN ENVIRONMENTAL PROBE
Porter et al, 2007 (Nature Neuroscience)
Buck and Axel, 1991 (Nature)
Genomic evidence for olfactory evolution
Bendesky and Bargmann, 2011 (Nature Reviews Genetics)
Bushdid et al. 2014 (Science)
Pilot Study: What is the distribution of variation in OR7D4?
OR7D4 and Androstenone
Keller et al. 2007 (Nature)
Samples
Africa 203 Asia 307 America 136 Europe 364Biaka 5 Ami 10 Indig. America 23 Ashkenazi 10Kenya 97 Atayal 9 Karitiana 5 Basque 10Mbuti 5 Han-Beijing 97 Maya 4 Czech. 10Sub-Sahara 9 Han-South 102 Pima 5 Finland 93Yoruba 88 Japan 89 Quechuan 4 Great Britain 89
Surui 5 Hungary 9N. Africa 7 Admixed America 113 Iberia 14
Columbia 60 Iceland 12Melanesia 5 Puerto Rico 53 N. Europe 10
Russia 9Tuscany 98
FST MATRIX
Geographic Distribution, RT/WM
AMOVA results------------------------------------------------------------------------ Source of Sum of Variance Percentage variation squares components variation------------------------------------------------------------------------ Among groups 85.346 0.46609 11.13701*
Among populations within groups 148.984 0.31135 7.43948*
Within populations 1032.506 3.40765 81.42351*------------------------------------------------------------------------ Total 1266.836 4.18509------------------------------------------------------------------------*Significant (p = 0.00)
Current Project: Data mining the 1000 Genomes and more…
MiSeq project: Genotype-Phenotype Variation
Odorant Descriptor Genes-carvone Caraway OR1A1, OR8B3(+)-menthol Mint OR8K32-ethylfenchol Beer (earth, peat) OR11A12-heptanone Blue cheese OR5H14Allyl phenyl acetate Honey OR51L1Androstenone Pork (boar taint) OR7D4Anisaldehyde Anise OR6P1Caramel furanone (concentrated) Fenugreek (curry) OR8D1Caramel furanone (dilute) Caramel (burnt sugar) OR8D1Cinnamaldehyde Cinnamon OR2J3Eugenol Clove OR4Q3, OR10G7Guaiacol Smoke OR10G4Isovaleric acid Sweat/Dog OR51E1Methanethiol Rotting OR2M7N-amyl acetate Pear OR4E2Octanethiol Sulphur OR2C1Vanillin Vanilla OR10G3, OR10G4
MiSeq Benefits• Practicalities
• Less optimizing• Faster results compared to HiSeq in non-rapid mode• Up to 300bp
• Ideal for the 20 OR genes I have targeted for field study• Ancient DNA
• Great for creating ancient genome libraries• Sample projects for MiSeq
• Medieval Moravians• Shenks Ferry, proto-historic Native Americans• Prehistoric Japan
Sorokowska et al. 2014 (PLOS One)
Tsimane