1. Chapter 11 Outline 11.1 Large Amounts of DNA Are Packed into a Cell, 286 11.2 A Bacterial Chromosome Consists of a Single Circular DNA Molecule, 287 11.3 Eukaryotic Chromosomes Are DNA Complexes to Histone Proteins, 288 11.4 Eukaryotic DNA Contains Several Classes of Sequence Variation, 295

2. Chapter 11 Outline 11.5 Transposable Elements Are DNA Sequences Capable of Moving, 297 11.6 Different Types of Transposable Elements Have Characteristic Structures, 302 11.7 Several Hypotheses Have Been Proposed to Explain the Evolutional Significance of Transposable Elements, 308

3. 11.1 Large Amounts of DNA Are Packed into a Cell Supercoiling Positive supercoiling Negative supercoiling Topoisomerase: the enzyme responsible for adding and removing turns in the coil

7. Concept Check 2 A DNA molecule 300 bp long has 20 complete rotations. This DNA molecule is: a.positively supercoiled. b.negatively supercoiled. c.relaxed.

8. Concept Check 2 A DNA molecule 300 bp long has 20 complete rotations. This DNA molecule is: a.positively supercoiled. b.negatively supercoiled. c.relaxed.

10. 11.3 Eukaryotic Chromosomes Are DNA Complexes to Histone Proteins

11. Chromatin Structure Euchromatin Regions of DNA that are transcribed Heterochromatin Regions of DNA that remain compacted at all times Histone proteins Positively charged proteins that bind to negatively charged DNA to aid in the compaction

13. Chromatin Structure Nucleosome –DNA wrapped around Histones Chromatosome –Nucleosome plus H1 “connector” Linker DNA –DNA between chromatosomes High-order chromatin structure Extra coiling and compaction of chromatin

15. Changes in Chromatin Structure Compaction has to be undone to allow transcription This can be seen in extreme circumstances as DNA puffs Can be determined enzymatically by Dnase sensitivity profiles Highly compacted DNA is protected

17. Changes in Chromatin Structure Polytene chromosome Chromosomal puffs

19. Changes in Chromatin Structure Centromere structure Specific repetitive sequences Bound by special proteins Telomere sequences Protect ends of chromosomes Repetitive sequences (CCCTAA) Shorten each replication Tuck into protective structure

23. Concept Check 3 Neutralizing their positive charges would have which effect on the histone proteins? a.They would bind the DNA tighter. b.They would separate from the DNA. c.They would no longer be attracted to each other. d.They would cause supercoiling of the DNA.

24. Concept Check 3 Neutralizing their positive charges would have which effect on the histone proteins? a.They would bind the DNA tighter. b.They would separate from the DNA. c.They would no longer be attracted to each other. d.They would cause supercoiling of the DNA.

25. 11.4 Eukaryotic DNA Contains Several Classes of Sequence Variation Denaturation Melting temperature Renaturation

26. Types of DNA Sequences in Eukaryotes Unique sequence DNA Gene family: similar but not identical copies of unique DNA sequences that arose through duplication of an existing gene

27. Types of DNA sequences in Eukaryotes Repetitive DNA Moderately repetitive DNA: 150 ~ 300 bp long Tandem repeat sequences Interspersed repeat sequences Short interspersed elements: SINEs: Alu element Long interspersed elements: LINEs

28. Types of DNA Sequences in Eukaryotes Repetitive DNA Highly repetitive DNA: less than 10 bp long Microsatellite DNA

29. 11.5 Transposable Elements Are DNA Sequences Capable of Moving Either exit current location and move to new location or duplicate self into new location. Results in insertions in DNA sequences

30. General characteristics of transposable elements Flanking direct repeats Terminal inverted repeats

33. The Mechanisms of Transposition Replicative transposition Nonreplicative transposition Transposition through an RNA intermediate

37. The Mutagenic Effects of Transposition Transposon can disrupt gene by insertion Loss of expression of protein Can also affect normal regulation

42. The Regulation of Transposition Limiting the production of the transposase enzyme High levels of transposition in new cells Decreases as the number of transposons increases Reaches steady state Some regulation of transcription of transposase, but most regulation is at translation

43. Transposable elements in bacteria Insertion sequences Minimal sequences with inverted repeats Composite transposons Have extra genes along with inverted repeats Noncomposite transposons No inverted repeats but still produce direct repeats

49. Transposable elements in bacteria Ty elements in yeast Ac Ds elements in maize Transposable elements in humans LINEs or SINEs

57. 11.7 Several Hypotheses Have Been Proposed to Explain the Evolutional Significance of Transposable Elements Cellular function hypothesis Genetic variation hypothesis Selfish-DNA hypothesis