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PMID: 1657415 Published · ppublish English Journal Article

Nucleotide sequence of the COX1 gene in Kluyveromyces lactis mitochondrial DNA: evidence for recent horizontal transfer of a group II intron.

Current genetics ·Vol. 20 ·No. 1-2 ·1991-07-00 ·Pages 99-114

Hardy CM, Clark-Walker GD

Abstract

The cytochrome oxidase subunit 1 gene (COX1) in K. lactis K8 mtDNA spans 8,826 bp and contains five exons (termed E1-E5) totalling 1,602 bp that show 88% nucleotide base matching and 91% amino acid homology to the equivalent gene in S. cerevisiae. The four introns (termed K1 cox1.1-1.4) contain open reading frames encoding proteins of 786, 333, 319 and 395 amino acids respectively that potentially encode maturase enzymes. The first intron belongs to group II whereas the remaining three are group I type B. Introns K1 cox1.1, 1.3, and 1.4 are found at identical locations to introns Sc cox1.2, 1.5 a, and 1.5 b respectively from S. cerevisiae. Horizontal transfer of an intron between recent progenitors of K. lactis and S. cerevisiae is suggested by the observation that K1 cox1.1 and Sc cox1.2 show 96% base matching. Sequence comparisons between K1 cox1.3/Sc cox1.5 a and K1 cox1.4/Sc cox1.5 b suggest that these introns are likely to have been present in the ancestral COX1 gene of these yeasts. Intron K1 cox1.2 is not found in S. cerevisiae and appears at an unique location in K. lactis. A feature of the DNA sequences of the group I introns K1 cox1.2, 1.3, and 1.4 is the presence of 11 GC-rich clusters inserted into both coding and noncoding regions. Immediately downstream of the COX1 gene is the ATPase subunit 8 gene (A8) that shows 82.6% base matching to its counterpart in S. cerevisiae mtDNA.

Related Genes
COX1
MeSH Terms
Amino Acid Sequence Base Composition Base Sequence Biological Evolution Codon DNA, Fungal DNA, Mitochondrial/genetics Electron Transport Complex IV/genetics Exons Introns Kluyveromyces/enzymology,genetics Molecular Sequence Data Mutation Nucleic Acid Conformation RNA, Fungal Recombination, Genetic Restriction Mapping Saccharomyces cerevisiae/genetics Sequence Alignment
Chemicals
Codon DNA, Fungal DNA, Mitochondrial RNA, Fungal Electron Transport Complex IV
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Hardy C M
Molecular and Population Genetics Group, Research School of Biological Sciences, Australian National University, Canberra.
Clark-Walker G D
References (68)
68 references, click to expand
  1. Making ends meet: a model for RNA splicing in fungal mitochondria.
    Nature. 1982 Dec 23;300(5894):719-24 PMID: 6757759
  2. Novel features of animal mtDNA evolution as shown by sequences of two rat cytochrome oxidase subunit II genes.
    Proc Natl Acad Sci U S A. 1982 May;79(10):3246-50 PMID: 6285344
  3. Putative target sites for mobile G + C rich clusters in yeast mitochondrial DNA: single elements and tandem arrays.
    Mol Gen Genet. 1989 Aug;218(2):272-83 PMID: 2674655
  4. A novel reverse transcriptase activity associated with mitochondrial plasmids of Neurospora.
    Cell. 1988 Nov 18;55(4):693-704 PMID: 2460246
  5. Internuclear transfer of genetic information in kar1-1/KAR1 heterokaryons in Saccharomyces cerevisiae.
    Mol Cell Biol. 1981 Mar;1(3):245-53 PMID: 6765600
  6. Sequence organization of the mitochondrial genome of yeast--a review.
    Gene. 1985;37(1-3):1-17 PMID: 3902568
  7. Mitochondrial DNA of the yeast Kluyveromyces: guanine-cytosine rich sequence clusters.
    Nucleic Acids Res. 1988 Sep 12;16(17):8433-42 PMID: 2843818
  8. Comparison of fungal mitochondrial introns reveals extensive homologies in RNA secondary structure.
    Biochimie. 1982 Oct;64(10):867-81 PMID: 6817818
  9. Group II intron self-splicing. Alternative reaction conditions yield novel products.
    J Biol Chem. 1988 Mar 5;263(7):3432-9 PMID: 2830285
  10. Kluyveromyces lactis maintains Saccharomyces cerevisiae intron-encoded splicing signals.
    Mol Cell Biol. 1989 May;9(5):2208-13 PMID: 2664472
  11. The GC clusters of the mitochondrial genome of yeast and their evolutionary origin.
    Gene. 1986;41(1):1-22 PMID: 3009268
  12. Multiple exon-binding sites in class II self-splicing introns.
    Cell. 1987 Jul 3;50(1):17-29 PMID: 3297351
  13. Integration of group II intron bI1 into a foreign RNA by reversal of the self-splicing reaction in vitro.
    Cell. 1990 Feb 23;60(4):629-36 PMID: 2406027
  14. Determination of functional domains in intron bI1 of yeast mitochondrial RNA by studies of mitochondrial mutations and a nuclear suppressor.
    EMBO J. 1983;2(11):2047-52 PMID: 6357781
  15. Site-specific DNA endonuclease and RNA maturase activities of two homologous intron-encoded proteins from yeast mitochondria.
    Cell. 1989 Feb 10;56(3):431-41 PMID: 2536593
  16. An additional class II intron with homology to reverse transcriptase in rapidly senescing Podospora anserina.
    Curr Genet. 1986;10(12):915-22 PMID: 2452024
  17. Divergence of the mitochondrial leucyl tRNA synthetase genes in two closely related yeasts Saccharomyces cerevisiae and Saccharomyces douglasii: a paradigm of incipient evolution.
    Mol Gen Genet. 1988 Aug;213(2-3):297-309 PMID: 3054483
  18. Conservation of RNA secondary structures in two intron families including mitochondrial-, chloroplast- and nuclear-encoded members.
    EMBO J. 1983;2(1):33-8 PMID: 11894905
  19. Double stranded DNA sequencing as a choice for DNA sequencing.
    Nucleic Acids Res. 1988 Feb 11;16(3):1220 PMID: 3344219
  20. Partial duplication of the large ribosomal RNA sequence in an inverted repeat in circular mitochondrial DNA from Kloeckera africana. Implications for mechanisms of the petite mutation.
    J Mol Biol. 1981 Apr 15;147(3):399-415 PMID: 7198150
  21. Reverse self-splicing of group II intron RNAs in vitro.
    Nature. 1990 Jan 25;343(6256):383-6 PMID: 1689013
  22. A group II intron in the Neurospora mitochondrial coI gene: nucleotide sequence and implications for splicing and molecular evolution.
    Nucleic Acids Res. 1989 Nov 25;17(22):9087-99 PMID: 2531370
  23. Structure-function relationships in a self-splicing group II intron: a large part of domain II of the mitochondrial intron aI5 is not essential for self-splicing.
    Nucleic Acids Res. 1989 Jun 12;17(11):4205-16 PMID: 2472604
  24. Defective karyogamy in meiotic segregants of a Candida utilis-Saccharomyces cerevisiae hybrid.
    Curr Genet. 1986;10(8):639-42 PMID: 3327615
  25. The mitochondrial genome of the fission yeast Schizosaccharomyces pombe. The cytochrome b gene has an intron closely related to the first two introns in the Saccharomyces cerevisiae cox1 gene.
    J Mol Biol. 1985 Aug 5;184(3):353-66 PMID: 4046021
  26. Protein encoded by the third intron of cytochrome b gene in Saccharomyces cerevisiae is an mRNA maturase. Analysis of mitochondrial mutants, RNA transcripts proteins and evolutionary relationships.
    J Mol Biol. 1989 Jan 20;205(2):275-89 PMID: 2538624
  27. Analysis of the regions coding for transfer RNAs in Kluyveromyces lactis mitochondrial DNA.
    Nucleic Acids Res. 1989 Jun 26;17(12):4485-91 PMID: 2748331
  28. The intron of the mitochondrial 21S rRNA gene: distribution in different yeast species and sequence comparison between Kluyveromyces thermotolerans and Saccharomyces cerevisiae.
    Mol Gen Genet. 1983;192(3):487-99 PMID: 6361491
  29. Structural conventions for group I introns.
    Nucleic Acids Res. 1987 Sep 25;15(18):7217-21 PMID: 3658691
  30. Group I introns as mobile genetic elements: facts and mechanistic speculations--a review.
    Gene. 1989 Oct 15;82(1):91-114 PMID: 2555264
  31. Reverse self-splicing of the tetrahymena group I intron: implication for the directionality of splicing and for intron transposition.
    Cell. 1989 Apr 21;57(2):335-45 PMID: 2702692
  32. A maturase-like coding sequence downstream of the OXI2 gene of yeast mitochondrial DNA is interrupted by two GC clusters and a putative end-of-messenger signal.
    Curr Genet. 1984 May;8(4):307-17 PMID: 24177800
  33. Three nuclear genes suppress a yeast mitochondrial splice defect when present in high copy number.
    Curr Genet. 1987;12(7):503-9 PMID: 2452028
  34. Origin and evolution of retroelements based upon their reverse transcriptase sequences.
    EMBO J. 1990 Oct;9(10):3353-62 PMID: 1698615
  35. DNA sequencing with chain-terminating inhibitors.
    Proc Natl Acad Sci U S A. 1977 Dec;74(12):5463-7 PMID: 271968
  36. Assembly of the mitochondrial membrane system. Structure and nucleotide sequence of the gene coding for subunit 1 of yeast cytochrme oxidase.
    J Biol Chem. 1980 Dec 25;255(24):11927-41 PMID: 6254986
  37. DNA sequence analysis of the 24.5 kilobase pair cytochrome oxidase subunit I mitochondrial gene from Podospora anserina: a gene with sixteen introns.
    Curr Genet. 1989 Dec;16(5-6):381-406 PMID: 2558809
  38. Independent evolution of structural and coding regions in a Neurospora mitochondrial intron.
    Nature. 1988 Apr 14;332(6165):654-6 PMID: 2965793
  39. Deletions and rearrangements in Kluyveromyces lactis mitochondrial DNA.
    Curr Genet. 1989 Dec;16(5-6):419-27 PMID: 2692854
  40. Two intron sequences in yeast mitochondrial COX1 gene: homology among URF-containing introns and strain-dependent variation in flanking exons.
    Cell. 1983 Feb;32(2):379-89 PMID: 6297792
  41. KGB: a single buffer for all restriction endonucleases.
    Nucleic Acids Res. 1988 Jan 11;16(1):364 PMID: 2893340
  42. Similarity of reverse transcriptase-like sequences of viruses, transposable elements, and mitochondrial introns.
    Mol Biol Evol. 1988 Nov;5(6):675-90 PMID: 2464735
  43. Location and structure of the var1 gene on yeast mitochondrial DNA: nucleotide sequence of the 40.0 allele.
    Cell. 1982 Sep;30(2):617-26 PMID: 6754087
  44. Nuclear pre-mRNA splicing in the fission yeast Schizosaccharomyces pombe strictly requires an intron-contained, conserved sequence element.
    EMBO J. 1987 Jun;6(6):1757-63 PMID: 3649292
  45. Comparative and functional anatomy of group II catalytic introns--a review.
    Gene. 1989 Oct 15;82(1):5-30 PMID: 2684776
  46. The estimate of total nucleotide substitutions from pairwise differences is biased.
    Philos Trans R Soc Lond B Biol Sci. 1986 Jan 29;312(1154):317-24 PMID: 2870524
  47. Universal code equivalent of a yeast mitochondrial intron reading frame is expressed into E. coli as a specific double strand endonuclease.
    Cell. 1986 Feb 28;44(4):521-33 PMID: 3004738
  48. Sequence requirements for branch formation in a group II self-splicing intron.
    Nucleic Acids Res. 1989 Jan 11;17(1):335-54 PMID: 2643082
  49. Mitochondrial class II introns encode proteins related to the reverse transcriptases of retroviruses.
    Nature. 1985 Aug 15-21;316(6029):641-3 PMID: 2412125
  50. The mosaic cox1 gene in the mitochondrial genome of Schizosaccharomyces pombe: minimal structural requirements and evolution of group I introns.
    Gene. 1986;45(3):289-97 PMID: 3026914
  51. Infectious introns.
    Cell. 1989 Feb 10;56(3):323-6 PMID: 2536590
  52. Mapping of mitochondrial DNA from Torulopsis glabrata : Location of ribosomal and transfer RNA genes.
    Curr Genet. 1980 Apr;1(3):209-17 PMID: 24189661
  53. Biogenesis of mitochondria: the mitochondrial gene (aap1) coding for mitochondrial ATPase subunit 8 in Saccharomyces cerevisiae.
    Nucleic Acids Res. 1983 Jul 11;11(13):4435-51 PMID: 6223276
  54. Analysis of class I introns in a mitochondrial plasmid associated with senescence of Podospora anserina reveals extraordinary resemblance to the Tetrahymena ribosomal intron.
    Curr Genet. 1985;10(1):69-79 PMID: 3940064
  55. Formation of intergeneric hybrids of yeast by protoplast fusion of Yarrowia and Kluyveromyces species.
    Curr Genet. 1984 Jan;8(1):49-55 PMID: 24177530
  56. Assembly of the mitochondrial membrane system. DNA sequence of subunit 2 of yeast cytochrome oxidase.
    J Biol Chem. 1979 Sep 25;254(18):9324-30 PMID: 225327
  57. The mitochondrial genome of the fission yeast Schizosaccharomyces pombe: highly homologous introns are inserted at the same position of the otherwise less conserved cox1 genes in Schizosaccharomyces pombe and Aspergillus nidulans.
    EMBO J. 1984 Sep;3(9):2129-36 PMID: 6092057
  58. A latent intron-encoded maturase is also an endonuclease needed for intron mobility.
    Cell. 1989 Feb 10;56(3):421-30 PMID: 2536592
  59. Three variant introns of the same general class in the mitochondrial gene for cytochrome oxidase subunit 1 in Aspergillus nidulans.
    EMBO J. 1984 Sep;3(9):2121-8 PMID: 6092056
  60. Rates of molecular evolution and the fraction of nucleotide positions free to vary.
    J Mol Evol. 1989 Aug;29(2):180-7 PMID: 2509718
  61. Assembly of the mitochondrial membrane system. DNA sequence and organization of the cytochrome b gene in Saccharomyces cerevisiae D273-10B.
    J Biol Chem. 1980 Oct 25;255(20):9828-37 PMID: 6253454
  62. Recognition and cleavage site of the intron-encoded omega transposase.
    Proc Natl Acad Sci U S A. 1988 Aug;85(16):6022-6 PMID: 2842757
  63. Cloning and sequencing of the gene for apocytochrome b of the yeast Kluyveromyces lactis strains WM27 (NRRL Y-17066) and WM37 (NRRL Y-1140).
    Yeast. 1989 May-Jun;5(3):209-18 PMID: 2735138
  64. Group II intron RNA-catalyzed recombination of RNA in vitro.
    Nucleic Acids Res. 1990 Nov 25;18(22):6545-51 PMID: 1701241
  65. RNA as an enzyme.
    Biochem Int. 1989 Jan;18(1):7-14 PMID: 2470377
  66. Codon recognition rules in yeast mitochondria.
    Proc Natl Acad Sci U S A. 1980 Jun;77(6):3167-70 PMID: 6997870
  67. Assessment of a model for intron RNA secondary structure relevant to RNA self-splicing--a review.
    Gene. 1984 Jun;28(3):277-91 PMID: 6086458
  68. Gene organization of the mitochondrial DNA of yeasts: Kluyveromyces lactis and Saccharomycopsis lipolytica.
    Curr Genet. 1981 May;3(2):157-62 PMID: 24190062
Article Info
Journal
Current genetics
Abbr.
Curr Genet
ISSN
0172-8083
DOI
10.1007/BF00312772
Published
1991-07-00
Pages
99-114
Language
English
Region
United States
NLM ID
8004904
Subset
IM
Databases
GENBANK
S60919, S60920, S65647, S65649, S65723, X57546, X64571, X64572, X64573, X64574
External Links
PubMed source DOI: 10.1007/BF00312772 View journal details
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