Molecular evolution and recombination in gender-associated mitochondrial DNAs of the manila clam Tapes philippinarum

Genetics

Volumn 164, Issue 2, 2003, Pages 603-611

  Passamonti, Marco ^a,b   Boore, Jeffrey L ^b,c   Scali, Valerio ^a  

^a UNIVERSITY OF BOLOGNA   (Italy)

^b LAWRENCE BERKELEY NATIONAL LABORATORY   (United States)

^c NONE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

MITOCHONDRIAL DNA; RIBOSOME RNA;

ANIMAL; ARTICLE; BIOLOGICAL MODEL; CLAM; DNA RECOMBINATION; DNA SEQUENCE; EXTRACHROMOSOMAL INHERITANCE; FEMALE; GENDER; GENE SEQUENCE; GENETIC ANALYSIS; GENETIC COMPATIBILITY; GENETIC POLYMORPHISM; GENETIC RECOMBINATION; GENETIC VARIABILITY; GENETICS; GENOME; HETEROPLASMY; INHERITANCE; MALE; METABOLISM; MITOCHONDRIAL GENETICS; MITOCHONDRIAL RESPIRATION; MOLECULAR EVOLUTION; MOLECULAR GENETICS; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; SEX DIFFERENCE; TAPES PHILIPPINARUM; TISSUE SPECIFICITY; UNIPARENTAL DISOMY;

ANIMALS; BASE SEQUENCE; BIVALVIA; DNA, MITOCHONDRIAL; EVOLUTION, MOLECULAR; EXTRACHROMOSOMAL INHERITANCE; FEMALE; GENOME; MALE; MODELS, GENETIC; MOLECULAR SEQUENCE DATA; POLYMERASE CHAIN REACTION; POLYMORPHISM, GENETIC; RECOMBINATION, GENETIC; RNA, RIBOSOMAL; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, NUCLEIC ACID; SEX FACTORS; VARIATION (GENETICS);

ANIMALIA; BIVALVIA; VENERIDAE; VENERUPIS (RUDITAPES) PHILIPPINARUM;

EID: 0038463662     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (51)

1. ARCTANDER, P., 1999 Mitochondrial recombination? Science 284: 2090-2091.
2. AWADALLA, P., A. EYRE-WALKER and J. MAYNARD-SMITH, 1999 Linkage disequilibrium and recombination in hominid mitochondrial DNA. Science 286: 2524-2525.
3. BETRÁN, E., J. ROZAS, A. NAVARRO and A. BARBADILLA, 1997 The estimation of the number and the length distribution of gene conversion tracts from population DNA sequence data. Genetics 146: 89-99.
4. BOORE, J. L., 1999 Animal mitochondrial genomes. Nucleic Acids Res. 27: 1767-1780.
5. BOORE, J. L., and W. M. BROWN, 1994 Complete DNA sequence of the mitochondrial genome of the black chiton, Katharina tunicata. Genetics 138: 423-443.
6. BOORE, J. L., and W. M. BROWN, 1995 Complete DNA sequence of the mitochondrial genome of the annelid worm, Lumbricus terrestris. Genetics 141: 305-319.
7. BOORE, J. L., and W. M. BROWN, 2000 Mitochondrial genomes of Galatheotinum, Helobdella, and Platynereis: sequence and gene arrangement comparisons show that Pogonophora is not a Phylum and Annelida and Arthropoda are not sister taxa. Mol. Biol. Evol. 17: 305-319.
8. BROOKFIELD, J. F. Y., and P. M. SHARP, 1994 Neutralism and selectionism face up to DNA data. Trends Genet. 10: 485-488.
9. DALZIEL, A. C., and D. T. STEWART, 2002 Tissue-specific expression of male-transmitted mitochondrial DNA and its implications for rates of molecular evolution in Mytilus mussels (Bivalvia: Mytilidae). Genome 45: 348-355.
10. DEAN, F. B., J. R. NELSON, T. L. GIESLER and R. S. LASKEN, 2001 Rapid amplification of plasmid and phage DNA using Phi29 DNA polymerase and multiply-primed rolling circle amplification. Genet. Res. 11: 1095-1099.
11. ELSON, J. L., R. M. ANDREWS, P. F. CHINNERY, R. N. LIGHTOWLERS, D. M. TURNBULL et al., 2001 Analysis of European mtDNAs for recombination. Am. J. Hum. Genet. 68: 145-153.
12. EYRE-WALKER, A., and P. AWADALLA, 2001 Does human mtDNA recombine? J. Mol. Evol. 53: 430-435.
13. EYRE-WALKER, A., N. H. SMITH and J. MAYNARD-SMITH, 1999 How clonal are human mitochondria? Proc. R. Soc. Lond. B Biol. Sci. 266: 477-483.
14. FISCHER-PIETTE, E., and B. METIVIER, 1971 Révision des Tapetinae (Mollusques Bivalves). Memoires du Museum National d'Histoire Naturelle, Paris.
15. FOLMER, O., M. BLACK, W. HOEH, R. LUTZ and R. VRIJENHOEK, 1994 DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates. Mol. Marine Biol. Biotechnol. 3: 294-299.
16. HAGELBERG, E., N. GOLDMAN, P. LIÓ, S. WHELAN, W. SCHIEFENHÖVEL et al., 1999 Evidence for mitochondrial DNA recombination in a human population of island Melanesia. Proc. R. Soc. Lond. B Biol. Sci. 266: 485-492.
17. HOEH, W. R., D. T. STEWART, B. W. SUTHERLAND and E. ZOUROS, 1996 Cytochrome c oxidase sequence comparisons suggest an unusually high rate of mitochondrial DNA evolution in Mytilus (Mollusca: Bivalvia). Mol. Biol. Evol. 13: 418-421.
18. HOEH, W. R., D. T. STEWART, C. SAAVEDRA, B. W. SUTHERLAND and E. ZOUROS, 1997 Phylogenetic evidence of role-reversals of gender-associated mitochondrial DNA in Mytilus (Bivalvia: Mytilidae). Mol. Biol. Evol. 14: 959-967.
19. HOFFMANN, R. J., J. L. BOORE and W. M. BROWN, 1992 A novel mitochondrial genome organization for the blue mussel, Mytilus edulis. Genetics 131: 397-412.
20. INGMAN, M., H. KAESSMANN, S. PÄÄBO and U. GYLLENSTEN, 2000 Mitochondrial genome variation and the origin of modern humans. Nature 408: 708-713.
21. JANSEN, R. P., J. A. BARRIT, C. A. BRENNER, S. WILLADSEN, J. COHEN et al., 2000 Germline passage of mitochondria: quantitative considerations and possible embryological sequelae. Hum. Reprod. 15 (Suppl. 2): 112-128.
22. KAJANDER, O. A., A. T. ROVIO, K. MAJAMAA, J. POULTON, J. N. SPELBRINK et al., 2000 Human mtDNA sublimons resemble rearranged mitochondrial genomes found in pathological states. Hum. Mol. Genet. 9: 2821-2835.
23. KIVISILD, T. R., and R. VILLEMS, 2000 Questioning evidence for recombination in human mitochondrial DNA. Science 288:1931.
24. KUMAR, S., K. TAMURA, I. B. JAKOBSEN and M. NEI, 2001 MEGA2: Molecular Evolutionary Genetics Analysis. Arizona State University, Tempe, AZ.
25. LAUDOKAKIS, E. D., and E. ZOUROS, 2001a Direct evidence for homologous recombination in mussel (Mytilus galloprovincialis) mitochondrial DNA. Mol. Biol. Evol. 18: 1168-1175.
26. LAUDOKAKIS, E. D., and E. ZOUROS, 2001b Recombination in animal mitochondrial DNA: evidence from published sequences. Mol. Biol. Evol. 18: 2127-2131.
27. LIU, H. P., J. B. MITTON and S. K. WU, 1996 Paternal mitochondrial DNA differentiation far exceeds maternal mitochondrial DNA and allozyme differentiation in the freshwater mussel, Anodonta grandis grandis. Evolution 50: 952-957.
28. LOWE, T. M., and S. R. EDDY, 1997 tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res. 25: 955-964.
29. MCDONALD, J. H., and M. KREITMAN, 1991 Adaptive protein evolution at the Adh locus in Drosophila. Nature 351: 652-654.
30. MERRIWEATHER, A., and A. F. KAESTLE, 1999 Mitochondrial recombination? Science 285: 835.
31. NEI, M., and S. KUMAR, 2001 Molecular Evolution and Phylogenetics. Oxford University Press, New York.
32. OHTA, T., 1972 Population size and rate of evolution. J. Mol. Evol. 1: 305-314.
33. OHTA, T., 1992 The nearly neutral theory of molecular evolution. Annu. Rev. Ecol. Syst. 23: 263-286.
34. OHTA, T., 1996 The current significance and standing of neutral and nearly neutral theories. Bioessays 18: 673-677.
35. PÄÄBO, S., D. M. IRWING and R. G. HARRISON, 1990 DNA damage promotes jumping between templates during enzymatic amplification. J. Biol. Chem. 265: 4718-4721.
36. PALUMBI, S., A. MARTIN, S. ROMANO, W. O. MCMILLAN, L. STICE et al., 1991 The Simple Fool's Guide to PCR. Department of Zoology and Kewalo Marine Laboratory, University of Hawaii, Honolulu.
37. PASSAMONTI, M., and V. SCALI, 2001 Gender-associated mitochondrial DNA heteroplasmy in the venerid clam Tapes philippinarum (Mollusca: Bivalvia). Curr. Genet. 39: 117-124.
38. PREISS, A., D. A. HARTLEY and S. ARTAVANIS-TSAKONAS, 1988 Molecular genetics of enhancer of split, a gene required for embryotic neural development in Drosophila. EMBO J. 12: 3917-3927.
39. QUESADA, H., M. WARREN and D. O. F. SKIBINSKI, 1998 Nonneutral evolution and differential mutation rate of gender-associated mitochondrial DNA lineages in the marine mussel Mytilus. Genetics 149: 1511-1526.
40. RAWSON, P. D., and T.J. HILBISH, 1995 Evolutionary relationships among the male and female mitochondrial DNA lineages in the Mytilus edulis species complex. Mol. Biol. Evol. 12: 893-901.
41. ROZAS, J., and R. ROZAS, 1999 DnaSP version 3: an integrated program for molecular population genetics and molecular evolution analysis. Bioinformatics 15: 174-175.
42. SHOUBRIDGE, E. A., 2000 Mitochondrial DNA segregation in the developing embryo. Hum. Reprod. 15 (Suppl. 2): 229-234.
43. SKIBINSKI, D. O. F., C. GALLAGHER and C. M. BEYSON, 1994a Mitochondrial DNA inheritance. Nature 368: 817-818.
44. SKIBINSKI, D. O. F., C. GALLAGHER and C. M. BEYNON, 1994b Sex-limited mitochondrial DNA transmission in the marine mussel Mytilus edulis. Genetics 138: 801-809.
45. SKIBINSKI, D. O. F., C. GALLAGHER and U. QUESADA, 1999 On the roles of selection, mutation and drift in the evolution of mitochondrial DNA diversity in British Mytilus edulis (Mytilidae; Mollusca) populations. Biol. J. Linn. Soc. 68: 195-213.
46. STEWART, D. T., E. R. KENCHINGTON, R. K. SIGH and E. ZOUROS, 1996 Degree of selective constraint as an explanation of the different rates of evolution of gender-specific mitochondrial DNA lineages in the mussel Myfilus. Genetics 123: 585-595.
47. THYAGARAJAN, B., R. A. PADUA and C. CAMPBELL, 1996 Mammalian mitochondria possess homologous DNA recombination activity. J. Biol. Chem. 271: 27536-27543.
48. WOLSTENHOLME, D. R., 1992 Animal mitochondrial DNA: structure and evolution. Int. Rev. Cytol. 141: 173-216.
49. ZHANG, J., S. KUMAR and M. NEI, 1997 Small-sample tests of episodic adaptive evolution: a case study of primate lysozymes. Mol. Biol. Evol. 14: 1335-1338.
50. ZOUROS, E., B. A. OBERHAUSER, C. SAAVEDRA and K. R. FREEMAN, 1994a Mitochondrial DNA inheritance. Nature 368: 817-818.
51. ZOUROS, E., B. A. OBERHAUSER, C. SAAVEDRA and K. R. FREEMAN, 1994b An unusual type of mitochondrial DNA inheritance in the blue mussel Mytilus. Proc. Natl. Acad. Sci. USA 91: 7463-7467.