Biology 382 - Project 1 Information

Research groups:
  1. Juan & Tara
  2. Nicole & Kimmie
  3. Ana & Ryan

Gene assignments:

  1. dhs-11, dhs-25
  2. gfrp (Y38C1AA.13), dhs-15
  3. qdpr-1, dhs-21
Each dhs is a possible substitute for the SR in BH4 synthesis in C. elegans.
(We already have RNAi constructs for ptps-1 and pcbd-1)

  • BH4 Information for the research project(s)
  • Final pterin gene primers
  • Directory with project documents & images

    Biology 382 - Project 1 Tasks

    1. Isolate sequence surrounding the gene-of-interest (GOI)
    2. Identify introns & exons (current gene model)
    3. Identify regions fully confirmed by cDNAs
    4. Design primers that include coding sequence (aim for a minimum of about 500 bp of coding sequence, with amplicon of 1000 bp or less - could be entirely coding sequence if such an exon is available).
    5. Test primers via e-PCR, and/or use Primer-BLAST for design
    6. BLAST proposed amplified sequences (amplicons) to look for similarity in C.e. genome to avoid 'off-target' effects. Avoid regions longer than about 21 bps that have >80% identity. This could particularly be a problem with intronic sequence.
    7. Additional study of GOI's (need not be done immediately):
        a. Find orthologs in C.e. relatives, align protein sequences
        b. Do protein multiple sequence alignments of homologs from Ce, Dm, Hs, etc. (wider phylogenetic range to identify conserved regions)
        c. Literature searches and reading to learn about functions of the genes in other organisms.