1. Genes can be transcribed into mRNA for protein-coding genes or RNA for genes such as ribosomal or transfer RNAs. Define a gene. Describe how a complex transcription unit can be alternatively processed to generate a variety of mRNAs and ultimately proteins.
2. Sequencing of the human genome has revealed much about the organization of genes. Describe the differences between single genes, gene families, pseudogenes, and tandemly repeated genes.
3. Much of the human genome consists of repetitive DNA. Describe the difference between microsatellite and minisatellite DNA. How is this repetitive DNA useful for identifying individuals by the technique of DNA fingerprinting?
4. Mobile DNA elements that can move or transpose to a new site directly as DNA are called DNA transposons. Describe the mechanism by which a bacterial insertion sequence can transpose.
5. Retrotransposons are a class of mobile elements that use a RNA intermediate. Contrast the mechanism of transposition between retrotransposons that contain and those that lack long terminal repeats (LTRs).
6. Describe the role that mobile DNA elements may have played in the evolution of modern organisms. What is the process known as exon shuffling, and what role do mobile DNA elements play in this process?
7. DNA in a cell associates with proteins to form chro-matin. What is a nucleosome? What role do histones play in nucleosomes? How are nucleosomes arranged in condensed 30-nm fibers?
8. Describe the general organization of a eukaryotic chromosome. What structural role do scaffold associated regions (SARs) or matrix attachment regions (MARs) play? Where are genes primarily located relative to chromosome structure?
9. Metaphase chromosomes can be identified by characteristic banding patterns. What are G bands and R bands? What is chromosome painting, and how is this technique useful?
10. Replication and segregation of eukaryotic chromosomes require three functional elements: replication origins, a centromere, and telomeres. Describe how these three elements function. What is the role of telomerase in maintaining chromosome structure? What is a yeast artificial chromosome (YAC)?
11. Mitochondria contain their own DNA molecules. Describe the types of genes encoded in the mitochondrial genome. How do the mitochondrial genomes of plants, fungi, and animals differ?
12. Mitochondria and chloroplasts are thought to have evolved from symbiotic bacteria present in nucleated cells. Review the experimental evidence that supports this hypothesis.
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