Organization and variation of angiosperm mitochondrial genome

Physiologia Plantarum

Volumn 129, Issue 1, 2007, Pages 6-13

  Kubo, Tomohiko ^a   Mikami, Tetsuo ^a  

^a HOKKAIDO UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

BIODIVERSITY; CELL MEMBRANES; DNA; GENETIC ENGINEERING; PLANTS (BOTANY);

ANGIOSPERM MITOCHONDRIAL GENOMES; ANGIOSPERMS; OPEN READING FRAMES (ORF); PLANT SPECIES;

GENES;

DICOTYLEDONEAE; MAGNOLIOPHYTA;

EID: 33845679903     PISSN: 00319317     EISSN: 13993054     Source Type: Journal    
DOI: 10.1111/j.1399-3054.2006.00768.x     Document Type: Conference Paper

References (55)

1. Abdelnoor RV, Yule R, Elo A, Christensen AC, Meyer-Gauen G, Mackenzie SA (2003) Substoichiometric shifting in the plant mitochondrial genome is influenced by a gene homologous to MutS. Proc Natl Acad Sci USA 100: 5968-5973
2. Allen JO (2005) Effect of teosinte cytoplasmic genomes on maize phenotype. Genetics 169: 863-880
3. Ariizumi T, Hatakeyama K, Hinata K, Inatsugi R, Nishida I, Sato S, Kato T, Tabata S, Toriyama K (2004) Disruption of the novel plant protein NEF1 affects lipid accumulation in the plastid of the tapetum and exine formation of pollen, resulting in male sterility in Arabidopsis thaliana. Plant J 39: 170-181
4. Bartoszewski G, Katzir N, Harvey MJ (2004) Organization of repetitive DNAs and the genomic regions carrying ribosomal RNA, cob, and atp9 genes in the cucurbit mitochondrial genomes. Theor Appl Genet 108: 982-992
5. Bentolila S, Chateigner-Boutin A-L, Hanson MR (2005) Ecotype allelic variation in C-to-U editing extent of a mitochondrial transcript identifies RNA-editing quantitative trait loci in Arabidopsis. Plant Physiol 139: 2006-2016
6. Bergthorsson U, Adams KL, Thomason B, Palmer JD (2003) Widespread horizontal transfer of mitochondrial genes in flowering plants. Nature 424: 197-201
7. Bergthorsson U, Richardson AO, Young GJ, Goertzen LR, Palmer JD (2004) Massive horizontal transfer of mitochondrial genes from diverse land plant donors to the basal angiosperm Amborella. Proc Natl Acad Sci USA 101: 17747-17752
8. Bock H, Brennicke A, Schuster W (1994) Rps3 and rpl16 genes do not overlap in Oenothera mitochondria: GTG as a potential translation initiation codon in plant mitochondria? Plant Mol Biol 24: 811-818
9. Brown GG (1999) Unique aspects of cytoplasmic male sterility and fertility restoration in Brassica napus. J Hered 90: 351-356
10. Bullerwell CE, Gray MW (2004) Evolution of the mitochondrial genome: protist connections to animals, fungi and plants. Curr Opin Microbiol 7: 528-534
11. Cho Y, Qiu Y-L, Kuhlman P, Palmer JD (1998) Explosive invasion of plant mitochondria by a group I intron. Proc Natl Acad Sci USA 95: 14244-14249
12. Clifton SW, Minx P, Fauron CM, Gibson M, Allen JO, et al. (2004) Sequence and comparative analysis of the maize NB mitochondrial genome. Plant Physiol 136: 3486-3503
13. Cummings MP, Nugent JM, Olmstead RG, Palmer JD (2003) Phylogenetic analysis reveals five independent transfers of the chloroplast gene rbcL to the mitochondrial genome in angiosperms. Curr Genet 43: 131-138
14. Davis CC, Wurdack KJ (2004) Host-to-parasite gene transfer in flowering plants: phylogenetic evidence from Malpighiales. Science 305: 676-678
15. Dombrovska O, Qiu Y-L (2004) Distribution of introns in the mitochondrial gene nad1 in land plants: phylogenetic and molecular evolutionary implications. Mol Phylogenet Evol 32: 246-263
16. Duchene A-M, Marechal-Drouard L (2001) The chloroplast-derived twnW and trnM-e genes are not expressed in Arabidopsis mitochondria. Biochem Biophys Res Commun 285: 1213-1216
17. Duchene A-M, Giritch A, Hoffmann B, Cognat V, Lancelin D, et al. (2005) Dual targeting is the rule for organellar aminoacyl-tRNA synthetases in Arabidopsis thaliana. Proc Natl Acad Sci USA 102: 16484-16489
18. Dyall SD, Brown MT, Johnson PJ (2004) Ancient invasions: from endosymbionts to organelles. Science 304: 253-257
19. Giege P, Brennicke A (1999) RNA editing in Arabidopsis mitochondria effects 441 C to U changes in ORFs. Proc Natl Acad Sci USA 96: 15324-15329
20. Hagihara E, Matsuhira H, Ueda M, Mikami T, Kubo T (2005) Sugar beet BAC library construction and assembly of a contig spanning Rf1, a restorer-of-fertility gene for Owen cytoplasmic male sterility. Mol Genet Genomics 274: 316-323
21. Handa H (2003) The complete nucleotide sequence and RNA editing content of the mitochondrial genome of rapeseed (Brassica napus L.): comparative analysis of the mitochondrial genomes of rapeseed and Arabidopsis thaliana. Nucleic Acids Res 31: 5907-5916
22. Handa H, Itani K, Sato H (2002) Structural features and expression analysis of a linear mitochondrial plasmid in rapeseed (Brassica napus L.). Mol Genet Genomics 267: 797-805
23. Hanson MR, Bentolila S (2004) Interaction of mitochondrial and nuclear genes that affect male gametophyte development. Plant Cell 16: S154-S169
24. Knoop V (2004) The mitochondrial DNA of land plants: peculiarities in phylogenetic perspective. Curr Genet 46: 123-139
25. Knoop V, Altwasser M, Brennicke A (1997) A tripartite group II intron in mitochondria of an angiosperm plant. Mol Gen Genet 255: 269-276
26. Cys(GCA). Nucleic Acids Res 28: 2571-2576
27. Kudla J, Albertazzi FJ, Blazevic D, Hermann M, Bock R (2002) Loss of the mitochondrial cox2 intron 1 in a family of monocotyledonous plants and utilization of mitochondrial intron sequences for the construction of a nuclear intron. Mol Genet Genomics 267: 223-230
28. Kuzmin EV, Duvick DN, Newton KJ (2005) A mitochondrial mutator system in maize. Plant Physiol 137: 779-789
29. Leon P, Walbot V, Bedinger P (1989) Molecular analysis of the 2.3 kb plasmid of maize mitochondria: apparent capture of tRNA genes. Nucleic Acids Res 17: 4089-4099
30. Lilly JW, Harvey MJ (2001) Small, repetitive DNAs contribute significantly to the expanded mitochondrial genome of cucumber. Genetics 159: 317-328
31. Marienfeld J, Unseld M, Brennicke A (1999) The mitochondrial genome of Arabidopsis is composed of both native and immigrant information. Trends Plant Sci 4: 495-502
32. Mower JP, Stefanovic S, Young GJ, Palmer JD (2004) Gene transfer from parasitic to host plants. Nature 432: 165-166
33. Nakazono M, Nishiwaki S, Tsutsumi N, Hirai A (1996) A chloroplast-derived sequence is utilized as a source of promoter sequences for the gene for subunit 9 of NADH dehydrogenase (nad9) in rice mitochondria. Mol Gen Genet 252: 371-378
34. Notsu Y, Masood S, Nishikawa T, Kubo N, Akiduki G, et al. (2002) The complete sequence of the rice (Oryza sativa L.) mitochondrial genome: frequent DNA sequence acquisition and loss during the evolution of flowering plants. Mol Genet Genomics 268: 434-445
35. Oda K, Yamato K, Ohta E, Nakamura Y, Takemura M, et al. (1992) Gene organization deduced from the complete sequence of liverwort Marchantia polymorpha mitochondrial DNA. J Mol Biol 223: 1-7
36. Ogihara Y, Yamazaki Y, Murai K, Kanno A, Terachi T, et al. (2005) Structural dynamics of cereal mitochondrial genomes as revealed by complete nucleotide sequencing of the wheat mitochondrial genome. Nucleic Acids Res 33: 6235-6250
37. Ohtani K, Yamamoto, H, Akimitsu K (2002) Sensitivity to Alternaria alternata toxin in citrus because of altered mitochondrial RNA processing. Proc Natl Acad Sci USA 99: 2439-2444
38. Oldenburg DJ, Bendich AJ (1996) Size and structure of replicating mitochondrial DNA in cultured tobacco cells. Plant Cell 8: 447-461
39. Parkinson CL, Mower JP, Qiu, Y-L, Shirk AJ, Song K, et al. (2005) Multiple major increases and decreases in mitochondrial substitution rates in the plant family Geraniaceae. BMC Evol Biol 5: 73
40. Qiu Y-L, Palmer JD (2004) Many independent origins of trans splicing of a plant mitochondrial group II intron. J Mol Evol 59: 80-89
41. Qiu Y-L, Cho Y, Cox JC, Palmer JD (1998) The gain of three mitochondrial introns identifies liverworts as the earliest land plants. Nature 394: 671-674
42. Satoh M, Kubo T, Nishizawa S, Estiati A, Itchoda N, Mikami T (2004) The cytoplasmic male-sterile type and normal type mitochondrial genomes of sugar beet share the same complement of genes of known function but differ in the content of expressed ORFs. Mol Genet Genomics 272: 247-256
43. Satoh M, Kubo T, Mikami T (2006) The Owen mitochondrial genome in sugar beet (Beta vulgaris L.): possible mechanisms of extensive rearrangements and the origin of the mitotype-unique regions. Theor Appl Genet 113: 477-484
44. Scheffler IE (1999) Mitochondria. Wiley-Liss, New York
45. Shikanai T (2006) RNA editing in plant organelles: machinery, physiological function and evolution. Cell Mol Life Sci 63: 698-708
46. Soltis PS, Soltis DE, Chase MW (1999) Angiosperm phylogeny inferred from multiple genes as a tool for comparative biology. Nature 402: 402-404
47. Stupar RM, Lilly JW, Town CD, Cheng Z, Kaul S, et al. (2001) Complex mtDNA constitutes an approximate 620-kb insertion on Arabidopsis thaliana chromosome 2: implication of potential sequencing errors caused by large-unit repeats. Proc Natl Acad Sci USA 98: 5099-5103
48. Sugiyama Y, Watase Y, Nagase M, Makita N, Yagura S, et al. (2005) The complete nucleotide sequence and multipartite organization of the tobacco mitochondrial genome: comparative analysis of mitochondrial genomes in higher plants. Mol Genet Genomics 272: 603-615
49. Sunkel S, Brennicke A, Knoop V (1994) RNA editing of a conserved reading frame in plant mitochondria increases its similarity to two overlapping reading frames in Escherichia coli. Mol Gen Genet 242: 65-72
50. Thomson MC, Macfarlane JL, Beagley CT, Wolstenholme DR (1994) RNA editing of mat-r transcripts in maize and soybean increases similarity of the encoded protein to fungal and bryophyte group II intron maturases: evidence that mat-r encodes a functional protein. Nucleic Acids Res 22: 5745-5752
51. Timmis J, Ayliffe MA, Huang CY, Martin W (2004) Endosymbiotic gene transfer: organelle genomes forge eukaryotic chromosomes. Nat Rev Genet 5: 123-135
52. Unseld M, Marienfeld JR, Brandt P, Brennicke A (1997) The mitochondrial genome of Arabidopsis thaliana contains 57 genes in 366,924 nucleotides. Nat Genet 15: 57-61
53. Ward BL, Anderson RS, Bendich AJ (1981) The mitochondrial genome is large and variable in a family of plants (Cucurbitaceae). Cell 25: 793-803
54. Yamamoto MP, Kubo T, Mikami T (2005) The 5′-leader sequence of sugar beet mitochondrial atp6 encodes a novel polypeptide that is characteristic of the Owen cytoplasmic male sterility. Mol Gen Genomics 273: 342-349
55. Yamaoka M, Mikami T, Ono T, Nakada K, Hayashi J-I (2001) Mice with only rat mtDNA are required as models of mitochondrial diseases. Biochem Biophys Res Commun 282: 707-711