resolving the mollusca phylogeny using ests c. dunn (brown university), g. giribet (harvard...
TRANSCRIPT
Resolving the Mollusca Phylogeny using ESTs
C. Dunn (Brown University), G. Giribet (Harvard University), N. Wilson (UCSD)
Most controversy lies on the monophyly of Aplacophora, relationships within Conchifera, the placement of Polyplacophora; common diphyly
Bivalve species included in the project
new dataset for a total of 64 species
ESTs (Expressed Sequence Tags) are a randomly sequenced subset of expressed genes that are derived from messenger RNAs via complimentary DNA (cDNA) libraries
mRNAReverse transcriptase
RNA
cDNA
synthesis of 2nd strand of DNA
dsDNA
Forward Sequence Primer
3’ EST
Reverse Sequence Primer
5’ EST
adaptors conected to the cDNA
Assemblies of raw ESTs into unique transcripts with assembler software
Orthology assignment – gene selection and matrix assembly
Clusters evaluation
Phylogeny inference from nucleotides and AAs matrices
~50,000 reads per taxon
Public data
assign new sequences to old clusters