Question

10. I am interested in cloning the "hox" gene in my favorite non-model organism - clam shrimp. I make a cDNA plasmid library from adult females, plate it, and Sanger sequence 60,000 random clones. Since clam shrimp likely only have about 20,000 genes, I expect to sequence the hox gene roughly 3X. Is this a reasonable research strategy?

A. No, a cDNA library will not contain hox genes, they are non-transcribed DNA elements B. Yes. The probability of getting the hox gene is pretty high given that you have 3X

sequencing coverage of the library.
C. No, the probability of any given clone being a hox gene is NOT 1/20,000. It is

proportional to the expression level of the gene (and that could be low).
D. No, the probability of getting a hox gene is proportional to its length, and hox genes are

short

11. If I said I was going to sequence your genome using an "assembly by reference" approach, what does this mean?

A. I would make an Illumina gDNA library of your genome, Illumina sequence it, and assemble your genome using sequence overlaps

B. I would make a plasmid gDNA library of your genome, Sanger sequence it, and assemble your genome using sequence overlaps

C. I would make an Illumina cDNA library of your genome, Illumina sequence it, and identify mutations in promoters

D. I would make an Illumina gDNA library of your genome, Illumina sequence it, and identify variants by aligning the reads to a "reference" human genome

Explanation would be greatly appreciated! Final in two hours so plez help