1. Today Blue/White screening Surface sterilization Sequence editing

3. 15 minute powerpoint topics(G+) datetopicname 21-SepDiscovery of DNA structureJanette Mendoza 25-SepRestriction enzymesGabriela Perales 28-SepSouthern blottingCarlos GarciaG 2-OctCloningTimothy McBrideG 6-OctThe first sequenced geneConrad Greaves 13-Oct(q)PCR, specificity and sensitivity Krystal Charly 16-OctESTsIan Keller 20-OctBLAST and database searchesRyan HeimrothG 23-OctMicroarraysBianca Myers 26-Oct Genome sequencing, the $1000 genome Ayesha ArefinG 30-OctForensicsJennifer Gutierrez 2-NovNext generation sequencingLeslie Janet LopezG 6-NovBioinformaticsAmalia Parra 9-NovEpigeneticsClyde Moya 13-Novnon-coding RNAHelen Nordquist 16-NovC-value paradoxKelsey CookG 20-NovPhylogenetic genomicsJennifer Cooksey 23-Nov Genes associated with Type 1 diabetes Katie Kesler

4. PARASITES AND SNAIL BIOLOGY “identity, possibilities” phylogenetics “intentions” transcriptomics PCR rDNA/mito Bioanalyzer DNA-free, direct sequencing gel electrophoresis nanodrop spec Sequence ID (BLAST) editing Phylogenetics electrophoresis RT-PCR gel CTAB Trizol TA cloning, B/W screening M13 sequencing Primer design, walking Qiagen plasmid extraction Restriction digests DNA RNA GenBank submission

5. 1) Do 10 minutes 7) Spread 10 on one plate and 100 on another

6. Monday

7. Surface sterilize

8. DNA SEQUENCING PCR with conserved primers, WHY? DNA PCR clean up, WHY? Amplicon (direct) sequencing, HOW? Reading extension products….. “*.ABI” Sequence analysis?

9. + strand sense coding primerF primerR A - strand antisense non-coding primerF primerR A 5’ 3’ sense ATCG GGAA A antisense TACG CCTT A 5’ 3’ sequencing NEED TO KNOW WHY SEQUENCE THIS?

10. sequencing forward + strand sense coding primerF primerR A - strand antisense non-coding primerF primerR A 5’ 3’ sense ATCG GGAA A - strand antisense non-coding TACG CCTT A 5’ 3’ ATCG 5’3’ Forward primer sequencing reaction

11. sequencing results + strand sense coding primerF primerR A - strand antisense non-coding primerF primerR A 5’ 3’ - strand antisense non-coding TACG CCTT A 5’3’ ATCG 5’3’ generates sense strand Forward primer sequencing reaction ggaa

12. + strand sense coding primerF primerR A - strand antisense non-coding primerF primerR A 5’ 3’ sense ATCG GGAA A antisense TACG CCTT A 5’ 3’ sequencing reverse

13. + STRAND SENSE CODING ATCG GGAA A - strand antisense non-coding tagc cctt A 5’ 3’ SENSE ATCG GGAA A 5’3’ Reverse primer sequencing reaction CCTT 5’ 3’ antisense TACG CCTT A 5’3’

14. sequencing results + STRAND SENSE CODING ATCG GGAA A - strand antisense non-coding tagc cctt A 5’ 3’ SENSE ATCG GGAA A 5’3’ Reverse primer sequencing reaction CCTT 5’ 3’generates - strand tagc

15. sequencing results + STRAND SENSE CODING ATCG GGAA A - strand antisense non-coding tagc cctt A 5’ 3’ SENSE ATCG GGAA A 5’3’ Reverse primer sequencing reaction CCTT 5’ 3’generates - strand ABI File generated 5’-3’ TTCC 3’ 5’dnarts - setareneg Sequence is reverse complement of coding sequence ! tagc cgat

16. ATCG 5’3’ sequencing generates + strand Forward primer sequencing reaction CCTT 5’ 3’generates - strand TTCC 3’ 5’dnarts - setareneg tagc cgat ggaa Reverse primer sequencing reaction reverse complement yields + (coding) sequence ATCG 5’3’ sequencing generates + strand ggaa two confirmatory sets of sequence data

17. ATCG 5’3’ sequencing generates + strand Forward primer sequencing reaction CCTT 5’ 3’generates - strand tagc ggaa Reverse primer sequencing reaction dye blobs