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Mobile DNA III / editor in chief, Nancy L. Craig ; editors, Michael Chandler ... [et al.]. -- Washington, DC : ASM Press, 2015. – (58.174252/M687/3) |
Contents
Contributors xi
Preface xxi
I. INTRODUCTION
1. A Moveable Feast: An Introduction to Mobile
DNA
II. CONSERVATIVE
SITE-SPECIFIC RECOMBINATION
2. An Overview of Tyrosine Site-specific
Recombination: From an Flp Perspective
43
3. The Serine Recombinases 73
4. The λ, Integrase Site-specific Recombination
Pathway
5. Cre Recombinase 119
6. The Integron: Adaptation On Demand 139
7. Xer Site-Specific Recombination: Promoting
Vertical and Horizontal Transmission of Genetic Information 163
8. The Integration and Excision of CTnDOT 183
9. Site-specific DNA Inversion by Serine
Recombinases 199
10. Serine Resolvases 237
11. Phage-encoded Serine Integrases and Other
Large Serine Recombinases 253
12. Hairpin Telomere Resolvases 273
13. Biology of Three ICE Families: SXT/R391,
ICEBsl, and ICEStl/ICESt3 289
III. PROGRAMMED
REARRANGEMENTS
14. V(D)J Recombination: Mechanism, Errors, and
Fidelity 313
15. Related Mechanisms of Antibody Somatic
Hypermutation and Class Switch Recombination
325
16. Programmed Genome Rearrangements in
Tetrahymena 349
17. Programmed Rearrangement in Ciliates:
Paramecium 369
18. Programmed Genome Rearrangements in the
Ciliate Oxytricha 389
19. DNA Recombination Strategies During Antigenic
Variation in the African Trypanosome
409
20. Recombination and Diversification of the
Variant Antigen Encoding Genes in the Malaria Parasite Plasmodium
falciparum 437
21. Mobile DNA in the Pathogenic Neisseria 451
22. vls Antigenic Variation Systems of Lyme
Disease Borrelia: Eluding Host Immunity through both Random, Segmental Gene
Conversion and Framework Heterogeneity
471
23. Mating-type Gene Switching in Saccharomyces
cerevisiae 491
24. A Unique DNA Recombination Mechanism of the
Mating/Cell-type Switching of Fission Yeasts: a Review 515
IV. DNA-ONLY TRANSPOSONS
25. Mechanisms of DNA Transposition 531
26. Everyman's Guide to Bacterial Insertion
Sequences 555
27. Copy-out-Paste-in Transposition of IS911: A
Major Transposition Pathway 591
28. The IS200f1S605 Family and "Peel and
Paste" Single-strand Transposition Mechanism 609
29. Transposons TnlO and Tn5 631
30. Tn7
647
31. Transposable Phage Mu 669
32. The Tn3-family of Replicative Transposons 693
33. P Transposable Elements in Drosophila and
other Eukaryotic Organisms 727
34. Mariner and the ITm Superfamily of
Transposons 753
V. LTR
RETROTRANSPOSONS
35. bAT Transposable Elements 775
36. Mutator and MULE Transposons 803
37. Adeno-associated Virus as a Mammalian DNA
Vector 829
38. Sleeping Beauty Transposition 853
39. piggyBac Transposon 875
40. Helitrons, the Eukaryotic Rolling-circle
Transposable Elements 893
41. Tyl LTR-retrotransposon of Budding Yeast,
Saccharomyces cerevisiae 927
42. Ty3, a Position-specific Retrotransposon in
Budding Yeast 965
43. The Long Terminal Repeat Retrotransposons Tfl
and Tf2 of Schizosaccharomyces pombe
997
44. Retroviral Integrase Structure and DNA
Recombination Mechanism 1011
45. Host Factors in Retroviral Integration and
Selection of Integration Target Sites
1035
46. Reverse Transcription of Retroviruses and LTR
Retrotransposons
47. Mammalian Endogenous Retroviruses 1079
48. Retroviral DNA Transposition: Themes and
Variations 1101
VI. NON-LTR RETROTRANSPOSONS
49. Integration, Regulation, and Long-Term
Stability of R2 Retrotransposons 1127
50. Site-Specific non-LTR retrotransponsons 1147
51. The Influence of LINE-1 and SINE
Retrotransposons on Mammalian Genomes
1165
52. Mobile Bacterial Group II Introns at the Crux
of Eukaryotic Evolution 1209
53. Diversity-generating Retroelements in Phage
and Bacterial Genomes 1237
54. An Unexplored Diversity of Reverse
Transcriptases in Bacteria 1253
55. Tyrosine Recombinase Retrotransposons and
Transposons 1271
Index 1293
