4.  Functional genomics and experimental design:

Design an experiment to discover all the genes in Saccharomyces  cerevisiae  that encode proteins that are essential for sporulation. Discuss any difficulties or constraints you envision with your approach.

Modify the experiment to discover genes encoding proteins that are needed for sporulation, but for which there maybe functional redundancy. Discuss any further difficulties.

Figure  A

organism 2 --ATA--------------------------------------------------------- CAGCTCTTCTGA--AATGTAT–TGAA 163

organism 3 --TTGG---------------------------------------------- ATTGCAGCTCTICTGA—AATGCAT–TGAA 163

organism 6 GATTGA  -------------------------------------------------------- TTAGCAGCTCTTCTGA—AATGCAT–TGAA 163

organism 5 GATTGAAGTCAGAGATTACTCTCTGATGAATTAGCAGCTCTTCTGA--AATGCAT–TGAA 163
organism 4                 –GA--------------------------------------------- TTAGCAGCTCTTCTGA--AATGCAT–TGAA 163

organism 1 ---CGC --------------------------------------------------------- CCGCCGGCCGAGCGTAGTAGTTTACATGAA 163

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organism2 ATGCGATAACTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACCTT 223 organism3 ATGCGATAACTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACCTT 223 organism 6 ATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACCTT 223 organism 5 ATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACCTT 223 organism4 ATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACCTT 223 organism1 ATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATT 223

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organism 2 GCGCCCT–TTGG--------------------------------------- CTTTGCCTTCTCTTGAAGAG—AGATAACTATGC 266

organism 3 GCGCCCT–TTGGTACTICACGGCTCCCTTTGTGITCTCTCCTAGGG—AGATACCTATGC 280

organism 6 GCGCTCC–TTGG----------------------------------------- TATTCC----GAGGA--GCATGCCTGTTT 257

organism 5 GCGCTCCACCCGC---------------------------------------- TGAACT----TAAGC--ATATCAATAAGC 259

organism 4 GCGCCCT–TTGGCA--------------------------------------- TTCCGACCTCAAATCGGGTGAGACTACCCGCT 268

organism 1 GCGCCCG–CCAGTA--------------------------------------- TTAAAAGCCTTATTTTACCCAAGGTTGACCT–C 268

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