Chapter 15, Problem 8P

Suppose you are characterizing the DNA of a diploid plant species that had never been analyzed previously. You purify all the DNA that can be isolated from a seedling, and subject this DNA to high-throughput sequencing involving millions of reads of random DNA fragments.

a.	If you obtained on average 100 reads of a given single-copy nuclear DNA sequence, about how many reads would you obtain for mtDNA? For cpDNA? (Assume each mitochondrion has 10 genome copies and that each choloroplast has 20 genome copies. Assume also that the average cell of this plant species has 1000 mitochondria and 50 chloroplasts.)
b.	Beyond the number of reads, what other criteria would allow you to conclude whether a particular read was of nuclear DNA, mtDNA, or cpDNA?