Recombination in mitochondrial DNA of European mussels Mytilus

Journal of Molecular Evolution

Volumn 67, Issue 4, 2008, Pages 377-388

  Filipowicz, Monika ^a   Burzyński, Artur ^a   Śmietanka, Beata ^a   Wenne, Roman ^a  

^a INSTITUTE OF OCEANOLOGY   (Poland)

Author keywords

Control region; D loop; Doubly uniparental inheritance; MtDNA recombination

Indexed keywords

MITOCHONDRIAL DNA;

AMINO ACID SEQUENCE; ANIMAL EXPERIMENT; ARTICLE; CONTROLLED STUDY; DNA RECOMBINATION; DNA STRUCTURE; GENOME ANALYSIS; GEOGRAPHIC DISTRIBUTION; HAPLOTYPE; MYTILUS; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION;

ANIMALS; BLOTTING, SOUTHERN; DNA, MITOCHONDRIAL; EUROPE; EVOLUTION, MOLECULAR; FEMALE; GENOME; GEOGRAPHY; HAPLOTYPES; MALE; MYTILUS; PHYLOGENY; RECOMBINATION, GENETIC; SEX DISTRIBUTION;

MYTILIDAE; MYTILUS; MYTILUS EDULIS; MYTILUS GALLOPROVINCIALIS; MYTILUS TROSSULUS;

EID: 54349087275     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00239-008-9157-6     Document Type: Article

References (68)

1. CL Abbott MC Double JWH Trueman A Robinson A Cockburn 2005 An unusual source of apparent mitochondrial heteroplasmy: duplicate mitochondrial control regions in Thalassarche albatrosses Mol Ecol 14 3605 3613
2. N Bierne P Borsa C Daguin D Jollivet F Viard F Bonhomme P David 2003 Introgression patterns in the mosaic hybrid zone between Mytilus edulis and M. galloprovincialis Mol Ecol 2 447 461
3. JK Bonfield KF Smith R Staden 1995 A new DNA sequence assembly program Nucleic Acids Res 24 4992 4999
4. MF Boni D Posada MW Feldman 2007 An exact nonparametric method for inferring mosaic structure in sequence triplets Genetics 176 1035 1047
5. S Breton G Burger DT Stewart PU Blier 2006 Comparative analysis of Gender-associated complete mitochondrial genomes in marine mussel (Mytilus spp) Genetics 172 1107 1119
6. A Burzyński 2007 Two events are responsible for an insertion in a paternally inherited mitochondrial genome of the mussel Mytilus galloprovincialis Genetics 175 959 962
7. A Burzyński M Zbawicka DOF Skibinski R Wenne 2003 Evidence for recombination of mtDNA in the marine mussel Mytilus trossulus from the Baltic Mol Biol Evol 20 388 392
8. A Burzyński M Zbawicka DOF Skibinski R Wenne 2006 Doubly uniparental inheritance is associated with high polymorphism for rearranged and recombinant control region haplotypes in Baltic Mytilus trossulus Genetics 174 1081 1094
9. L Cao E Kenchington E Zouros GC Rodakis 2004 Evidence that the large noncoding sequence is the main control region of maternally and paternally transmitted mitochondrial genomes of the marine mussel (Mytilus spp.) Genetics 167 835 850
10. L Cao E Kenchington E Zouros 2004 Differerential segregation patterns of sperm mitochondria in embryos of the blue mussel (Mytilus edulis) Genetics 166 883 894
11. JP Curole TD Kocher 2005 Evolution of a unique mitotype-specific protein-coding extension of the cytochrome c oxidase II gene in freshwater mussels (Bivalvia: Unionoida) J Mol Evol 61 381 389
12. JR Eberhard TF Wright E Bermingham 2001 Duplication and concerted evolution of the mitochondrial control region in the parrot genus Amazona Mol Biol Evol 18 1330 1342
13. B Ewing L Hillier MC Wendl P Green 1998 Base-calling of automated sequencer traces using phred. I Accuracy assessment. Genome Res 8 175 85
14. C Fisher DOF Skibinski 1990 Sex-biased mitochondrial DNA heteroplasmy in the marine mussel Mytilus Proc R Soc Lond Ser B 242 149 156
15. MH Gach WM Brown 1997 Characteristics and distribution of large tandem duplications in brook stickeback (Culaea inconstans) mitochondrial DNA Genetics 145 383 394
16. B Gantenbein V Fret IA Gantenbein-Ritter F Balloux 2004 Evidence for recombination in scorpion mitochondrial DNA (Scorpiones: Buthidae) Proc R Soc Lond Ser B 272 697 704
17. MA Garrido-Ramos DT Stewart BW Sutherland E Zouros 1998 The distribution of male-transmitted mitochondrial DNA types in somatic tissues of blue mussels: implications for the operation of doubly uniparental inheritance of mitochondrial DNA Genome 41 818 824
18. MJ Gibbs JS Armstrong AJ Gibbs 2000 Sister-scanning: a Monte Carlo procedure for assessing signals in recombinant sequences Bioinformatics 16 573 582
19. U Gyllensten D Wharton A Josefsson AC Wilson 1991 Paternal inheritance of mitochondrial DNA in mice Nature 352 255 257
20. DG Higgins PM Sharp 1989 Fast and sensitive multiple sequence alignments on a microcomputer Comput Appl Biosci 5 151 153
21. G Hoarau S Holla R Lescasse WT Stam JL Olsen 2002 Heteroplasmy and evidence for recombination in the mitochondrial control region of the flatfish Platichthys flesus Mol Biol Evol 12 2261 2264
22. WR Hoeh DT Stewart BW Sutherland E Zouros 1996 Multiple origins of gender-associated mitochondrial DNA lineages in bivalves (Mollusca: Bivalvia) Evolution 50 2276 2286
23. WR Hoeh DT Stewart C Saavedra BW Sutherland E Zouros 1997 Phylogenetic evidence for role-reversals of gender-associated mitochondrial DNA in Mytilus (Bivalvia: Mytilidae) Mol Biol Evol 14 959 967
24. WR Hoeh DT Stewart SI Guttman 2002 High fidelity of mitochondrial genome transmission under the doubly uniparental mode of inheritance in freshwater mussels (Bivalvia: Unionoida) Evolution 56 2252 2261
25. R Kondo Y Satta ET Matsuura H Ishiwa N Takahatat SI Chigusa 1990 Incomplete maternal transmission of mitochondrial DNA in Drosophila Genetics 126 657 663
26. Y Kraytsberg M Schwartz TA Brown K Ebralidse WS Kunz DA Clayton J Vissing K Khrapko 2004 Recombination of human mitochondrial DNA Science 304 981
27. S Kumar K Tamura M Nei 2004 MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment Brief Bioinform 5 150 163
28. Y Kumazawa H Ota M Nishida T Ozawa 1996 Gene rearrangements in snake mitochondrial genomes: highly concerted evolution of control-region-like sequences duplicated and inserted into a tRNA cluster Mol Biol Evol 13 1242 1254
29. L Kvist J Martens AA Nazarenko M Orell 2003 Paternal leakage of mitochondrial DNA in the great tit (Parus major) Mol Biol Evol 20 243 247
30. ED Ladoukakis E Zouros 2001 Direct evidence for homologous recombination in mussel (Mytilus galloprovincialis) mitochondrial DNA Mol Biol Evol 18 1168 1175
31. ED Ladoukakis C Saavaedra A Magoulas E Zouros 2002 Mitochondrial DNA variation in a species with two mitochondrial genomes: the case of Mytilus galloprovinicialis from the Atlantic, the Mediterranean and the Black Sea Mol Ecol 11 759 769
32. DV Lavrov JL Boore WM Brown 2002 Complete mtDNA sequences of two millipedes suggest a new model for mitochondrial gene rearrangements: duplication and nonrandom loss Mol Biol Evol 19 163 169
33. H Liu JB Mitton S 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
34. A Magoulas E Zouros 1993 Restriction-site heteroplasmy in anchovy (Engraulis encrasicolus) indicates incidental biparental inheritance of mitochondrial DNA Mol Biol Evol 10 319 325
35. DP Martin D Posada KA Crandall C Williamson 2005 A modified bootscan algorithm for automated identification of recombinant sequences and recombination breakpoints AIDS Res Hum Retroviruses 21 98 102
36. DP Martin C Williamson D Posada 2005 RDP2: recombination detection and analysis from sequence alignments Bioinformatics 21 260 262
37. J Maynard Smith 1992 Analyzing the mosaic structure of genes J Mol Evol 34 126 129
38. MS Meusel RF Moritz 1993 Transfer of paternal mitochondrial DNA during fertilization of honeybee (Apis mellifera L.) eggs Curr Genet 24 539 543
39. A Mizi E Zouros N Moschonas GC Rodakis 2005 The complete maternal and paternal mitochondrial genomes of the Mediterranean mussel Mytilus galloprovincialis: implications for the doubly uniparental inheritance mode of mtDNA Mol Biol Evol 22 952 967
40. RL Mueller JL Boore 2005 Molecular mechanisms of extensive mitochondrial gene rearrangement in plethodontid salamanders Mol Biol Evol 22 2104 2112
41. M Padidam S Sawyer CM Fauquet 1999 Possible emergence of new geminiviruses by frequent recombination Virology 265 218 225
42. M Passamonti V Scali 2001 Gender-associated mtDNA heteroplasmy in the venerid clam Tapes philippinarum (Mollusca Bivalvia) Curr Genet 39 117 124
43. G Piganeau M Gardner A Eyre-Walker 2004 A broad survey of recombination in animal mitochondria Mol Biol Evol 21 2319 2325
44. D Posada KA Crandall 1998 Modeltest: testing the model of DNA substitution Bioinformatics 14 817 818
45. D Posada KA Crandall 2001 Evaluation of methods for detecting recombination from DNA sequences: computer simulations Proc Natl Acad Sci USA 98 13757 13762
46. H Quesada H Stuckas DOF Skibinski 2003 Heteroplasmy suggests paternal co-transmission of multiple genomes and pervasive reversion of maternally into paternally transmitted genomes of mussel (Mytilus) mitochondrial DNA J Mol Evol 57 1 10
47. PD Rawson 2005 Nonhomologous recombination between the large unassigned region of the male and female mitochondrial genomes in the mussel, Mytilus trossulus J Mol Evol 61 717 732
48. C Rayssiguier DS Thayler M Radman 1989 The barrier to recombination between Eschericha coli and Salmonella typhymurium disrupted in mismatch-repair mutants Nature 342 396 401
49. P Rice I Longden A Bleasby 2000 EMBOSS: the European molecular biology open software suite Trends Genet 16 276 277
50. DA Roff P Bentzen 1989 The statistical analysis of mitochondrial DNA polymorphisms: chi-square and the problem of small samples Mol Biol Evol 6 539 545
51. F Ronquist JP Huelsenbeck 2003 MrBayes 3: Bayesian phylogenetic inference under mixed models Bioinformatics 19 1572 1574
52. Sambrock J, Fritsch EF, Maniatis T (1989) Molecular cloning: a laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
53. N Sano M Obata A Komaru 2007 Quantitation of the male and female types of mitochondrial DNA in a blue mussel, Mytilus galloprovincialis, using real-time polymerase chain reaction assay Dev Growth Differ 49 67 72
54. M Schwartz J Vissing 2002 Paternal inheritance of mitochondrial DNA N Engl J Med 347 576 580
55. R Shao SC Barker H Mitani Y Aoki M Fukunaga 2004 Evolution of duplicate control regions in the mitochondrial genomes of metazoa: a case study with Australasian Ixodes ticks Mol Biol Evol 22 620 629
56. R Shao H Mitani SC Barker M Takahashi M Fukunaga 2005 Novel mitochondrial gene content and gene arrangement indicate illegitimate inter-mtDNA recombination in the chigger mite, Leptotrombidium pallidum J Mol Evol 60 764 773
57. DOF Skibinski C Gallagher CM Beynon 1994 Mitochondrial DNA inheritance Nature 368 817 818
58. B Śmietanka M Zbawicka M Wołowicz R Wenne 2004 Mitochondrial DNA lineages in the European populations of mussels Mytilus Mar Biol 146 79 92
59. DJ Stanton LL Daehler CC Moritz WM Brown 1994 Sequences with the potential to form stem-and-loop structures are associated with coding-region duplications in animal mitochondrial DNA Genetics 137 233 241
60. B Sutherland D Stewart ER Kenchington E Zouros 1998 The fate of paternal mitochondrial DNA in developing female mussels, Mytilus edulis: implications for the mechanism of doubly uniparental inheritance of mitochondrial DNA Genetics 148 341 348
61. Swofford DL (2003) PAUP*: Phylogenetic analysis using parsimony and other methods. Version 4. Sinauer Associates, Sunderland, MA
62. I Theologidis S Fodelianakis MB Gaspar E Zouros 2008 Doubly uniparental inheritance (DUI) of mitochondrial DNA in Donax trunculus (Bivalvia: Donacidae) and the problem of its sporadic detection in Bivalvia Evolution 62 959 970
63. JD Thompson DG Higgins TJ Gibson 1994 CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice Nucleic Acids Res 22 4673 4680
64. AD Tsaousis DP Martin ED Ladoukakis D Posada E Zouros 2005 Widespread recombination in published animal mtDNA sequences Mol Biol Evol 22 925 933
65. C Venetis I Theologidis E Zouros GC Rodakis 2007 A mitochondrial genome with a reversed transmission route in the Mediterranean mussel Mytilus galloprovincialis Gene 406 79 90
66. C Wiuf T Christensen J Hein 2001 a simulation study of the reliability of recombination detection methods Mol Biol Evol 18 1929 1939
67. E Zouros AO Ball C Saavedra KR Freeman 1994 Mitochondrial DNA inheritance Nature 368 818
68. G Zsurka Y Kraytsberg T Kudina C Kornblum CE Elger K Khrapko W Kunz 2005 Recombination of mitochondrial DNA in skeletal muscle of individuals with multiple mitochondrial DNA heteroplasmy Nat Genet 37 873 877