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PMID: 8590478 Published · ppublish English Journal Article

The nuclear gene and cDNAs encoding cytosolic glyceraldehyde-3-phosphate dehydrogenase from the marine red alga Gracilaria verrucosa: cloning, characterization and phylogenetic analysis.

Current genetics ·Vol. 28 ·No. 4 ·1995-09-00 ·Pages 324-32

Zhou YH, Ragan MA

Abstract

We have cloned and sequenced the single-copy nuclear gene (GapC) encoding the complete 335-amino acid cytosolic glyceraldehyde-3-phosphate dehydrogenase (GAPC) from the red alga Gracilaria verrucosa. The proline residue which contributes to the specificity of NAD+ binding in other GAPC-like proteins is present. Putative regulatory regions, including GC-rich regions, a GATA element, and 11-base T- and T/G-clusters, but excluding TATA- and CCAAT-boxes, were identified upstream. Two types of GapC cDNAs differing in polyadenylation site were characterized. An 80-bp phase-two spliceosomal intron was identified in a novel position interrupting the highly conserved cofactor-coding region I. The G. verrucosa GAPC was easily aligned with other known GAPC-type sequences. Inferred phylogenetic trees place red algae among the eukaryote crown taxa, although with modest bootstrap support and without stable resolution among related GAPC lineages.

MeSH Terms
Amino Acid Sequence Base Sequence Blotting, Southern Cloning, Molecular DNA, Complementary Exons/genetics Gene Dosage Glyceraldehyde-3-Phosphate Dehydrogenases/chemistry,genetics Introns/genetics Isoenzymes/chemistry,genetics Molecular Sequence Data Phylogeny Polymerase Chain Reaction Restriction Mapping Rhodophyta/classification,enzymology,genetics Sequence Alignment
Chemicals
DNA, Complementary Isoenzymes Glyceraldehyde-3-Phosphate Dehydrogenases
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Zhou Y H
Institute for Marine Biosciences, National Research Council of Canada, Halifax, Nova Scotia, Canada.
Ragan M A
References (48)
48 references, click to expand
  1. A glyceraldehyde-3-phosphate dehydrogenase with eubacterial features in the amitochondriate eukaryote, Trichomonas vaginalis.
    J Mol Evol. 1993 Dec;37(6):631-43 PMID: 8114116
  2. Origin of the algae.
    Nature. 1989 May 11;339(6220):142-4 PMID: 2716835
  3. Cryptomonad algae are evolutionary chimaeras of two phylogenetically distinct unicellular eukaryotes.
    Nature. 1991 Mar 14;350(6314):148-51 PMID: 2005963
  4. Hypomethylated sequences: characterization of the duplicate soybean genome.
    Mol Gen Genet. 1994 Sep 28;244(6):638-45 PMID: 7969033
  5. Sequence analysis of the glyceraldehyde-3-phosphate dehydrogenase genes from the basidiomycetes Schizophyllum commune, Phanerochaete chrysosporium and Agaricus bisporus.
    Curr Genet. 1992 Dec;22(6):447-54 PMID: 1473176
  6. Improved tools for biological sequence comparison.
    Proc Natl Acad Sci U S A. 1988 Apr;85(8):2444-8 PMID: 3162770
  7. cDNA cloning and characterization of the nuclear gene encoding chloroplast glyceraldehyde-3-phosphate dehydrogenase from the marine red alga Gracilaria verrucosa.
    Curr Genet. 1993 May-Jun;23(5-6):483-9 PMID: 7916671
  8. The evolutionary origin of red algae as deduced from the nuclear genes encoding cytosolic and chloroplast glyceraldehyde-3-phosphate dehydrogenases from Chondrus crispus.
    J Mol Evol. 1994 Apr;38(4):319-27 PMID: 8007000
  9. Evidence for a chimeric nature of nuclear genomes: eubacterial origin of eukaryotic glyceraldehyde-3-phosphate dehydrogenase genes.
    Proc Natl Acad Sci U S A. 1993 Sep 15;90(18):8692-6 PMID: 8378350
  10. Structure, evolution and anaerobic regulation of a nuclear gene encoding cytosolic glyceraldehyde-3-phosphate dehydrogenase from maize.
    J Mol Biol. 1989 Aug 20;208(4):551-65 PMID: 2810356
  11. Isolation and characterization of the glyceraldehyde-3-phosphate dehydrogenase gene of Aspergillus nidulans.
    Gene. 1988 Sep 15;69(1):49-57 PMID: 3066699
  12. Simple and efficient system for synthesis of non-radioactive nucleic acid hybridization probes using PCR.
    Nucleic Acids Res. 1991 May 25;19(10):2790 PMID: 2041759
  13. A molecular phylogeny of the marine red algae (Rhodophyta) based on the nuclear small-subunit rRNA gene.
    Proc Natl Acad Sci U S A. 1994 Jul 19;91(15):7276-80 PMID: 8041780
  14. Evolution of glycolysis.
    Prog Biophys Mol Biol. 1993;59(2):105-235 PMID: 8426905
  15. Isolation and complete sequence of a functional human glyceraldehyde-3-phosphate dehydrogenase gene.
    J Biol Chem. 1988 Oct 25;263(30):15335-41 PMID: 3170585
  16. Five identical intron positions in ancient duplicated genes of eubacterial origin.
    Nature. 1994 Jan 27;367(6461):387-9 PMID: 8114942
  17. Cloning and sequence analysis of cDNAs encoding the cytosolic precursors of subunits GapA and GapB of chloroplast glyceraldehyde-3-phosphate dehydrogenase from pea and spinach.
    Plant Mol Biol. 1989 Jul;13(1):81-94 PMID: 2562762
  18. Prokaryotic features of a nucleus-encoded enzyme. cDNA sequences for chloroplast and cytosolic glyceraldehyde-3-phosphate dehydrogenases from mustard (Sinapis alba).
    Eur J Biochem. 1986 Sep 1;159(2):323-31 PMID: 3530755
  19. Nucleotide sequence of the cox3 gene from Chondrus crispus: evidence that UGA encodes tryptophan and evolutionary implications.
    Nucleic Acids Res. 1994 Apr 25;22(8):1400-3 PMID: 8190631
  20. Intron-dependent evolution: preferred types of exons and introns.
    FEBS Lett. 1987 Apr 6;214(1):1-7 PMID: 3552723
  21. Improvement of PCR amplified DNA sequencing with the aid of detergents.
    Nucleic Acids Res. 1990 Mar 11;18(5):1309 PMID: 2320432
  22. Evolutionary relationship of archaebacteria, eubacteria, and eukaryotes inferred from phylogenetic trees of duplicated genes.
    Proc Natl Acad Sci U S A. 1989 Dec;86(23):9355-9 PMID: 2531898
  23. A naturally occurring horizontal gene transfer from a eukaryote to a prokaryote.
    J Mol Evol. 1990 Nov;31(5):383-8 PMID: 2124629
  24. Origin and evolution of organisms as deduced from 5S ribosomal RNA sequences.
    Mol Biol Evol. 1987 Sep;4(5):445-72 PMID: 2452957
  25. Endosymbiotic origin and codon bias of the nuclear gene for chloroplast glyceraldehyde-3-phosphate dehydrogenase from maize.
    J Mol Evol. 1987;26(4):320-8 PMID: 3131533
  26. Intron-dependent evolution of chicken glyceraldehyde phosphate dehydrogenase gene.
    Nature. 1985 Feb 7-13;313(6002):498-500 PMID: 3969156
  27. Genome analysis of imperfect fungi: electrophoretic karyotyping and characterization of the nuclear gene coding for glyceraldehyde-3-phosphate dehydrogenase (gpd) of Curvularia lunata.
    Curr Genet. 1991 Jul;20(1-2):151-5 PMID: 1934112
  28. Evidence in favor of the symbiotic origin of chloroplasts: primary structure and evolution of tobacco glyceraldehyde-3-phosphate dehydrogenases.
    Cell. 1986 Oct 10;47(1):73-80 PMID: 3757034
  29. Photoregulated gene expression may involve ubiquitous DNA binding proteins.
    EMBO J. 1990 Nov;9(11):3415-27 PMID: 2209551
  30. Selfish DNA and the origin of introns.
    Nature. 1985 May 23-29;315(6017):283-4 PMID: 2987701
  31. The cytosolic and glycosomal isoenzymes of glyceraldehyde-3-phosphate dehydrogenase in Trypanosoma brucei have a distant evolutionary relationship.
    Eur J Biochem. 1991 Jun 1;198(2):421-8 PMID: 2040303
  32. Disparate evolution of yeasts and filamentous fungi indicated by phylogenetic analysis of glyceraldehyde-3-phosphate dehydrogenase genes.
    Proc Natl Acad Sci U S A. 1989 Sep;86(18):7063-6 PMID: 2674943
  33. Molecular considerations in the evolution of bacterial genes.
    J Mol Evol. 1991 Sep;33(3):241-50 PMID: 1757995
  34. Probing the coenzyme specificity of glyceraldehyde-3-phosphate dehydrogenases by site-directed mutagenesis.
    Biochemistry. 1990 Jul 31;29(30):7101-6 PMID: 2223764
  35. Cloning and chromosomal mapping of nuclear genes encoding chloroplast and cytosolic glyceraldehyde-3-phosphate-dehydrogenase from Arabidopsis thaliana.
    Gene. 1991 Aug 15;104(2):133-8 PMID: 1916285
  36. The essentials of DNA methylation.
    Cell. 1992 Jul 10;70(1):5-8 PMID: 1377983
  37. Isolation and characterization of a Ustilago maydis glyceraldehyde-3-phosphate dehydrogenase-encoding gene.
    Gene. 1990 Sep 1;93(1):111-7 PMID: 2227419
  38. Origin of introns--early or late?
    Nature. 1994 Jun 16;369(6481):526; author reply 527-8 PMID: 8202152
  39. Cloning and characterization of the nuclear gene encoding plastid glyceraldehyde-3-phosphate dehydrogenase from the marine red alga Gracilaria verrucosa.
    Curr Genet. 1994 Jul;26(1):79-86 PMID: 7954900
  40. Implications of RNA-RNA splicing in evolution of eukaryotic cells.
    Science. 1978 Dec 22;202(4374):1257-60 PMID: 364651
  41. Chimeric conundra: are nucleomorphs and chromists monophyletic or polyphyletic?
    Proc Natl Acad Sci U S A. 1994 Nov 22;91(24):11368-72 PMID: 7972066
  42. Structure of the Cochliobolus heterostrophus glyceraldehyde-3-phosphate dehydrogenase gene.
    Curr Genet. 1992 Jul;22(1):29-35 PMID: 1339326
  43. ASF-2: a factor that binds to the cauliflower mosaic virus 35S promoter and a conserved GATA motif in Cab promoters.
    Plant Cell. 1989 Dec;1(12):1147-56 PMID: 2535536
  44. Why genes in pieces?
    Nature. 1978 Feb 9;271(5645):501 PMID: 622185
  45. Multiple sequence alignment with hierarchical clustering.
    Nucleic Acids Res. 1988 Nov 25;16(22):10881-90 PMID: 2849754
  46. Amino acid substitutions in structurally related proteins. A pattern recognition approach. Determination of a new and efficient scoring matrix.
    J Mol Biol. 1988 Dec 20;204(4):1019-29 PMID: 3221397
  47. DNA methylation: evolution of a bacterial immune function into a regulator of gene expression and genome structure in higher eukaryotes.
    Philos Trans R Soc Lond B Biol Sci. 1990 Jan 30;326(1235):179-87 PMID: 1968655
  48. Splice junctions: association with variation in protein structure.
    Science. 1983 Jun 10;220(4602):1125-9 PMID: 6344214
Article Info
Journal
Current genetics
Abbr.
Curr Genet
ISSN
0172-8083
DOI
10.1007/BF00326430
Published
1995-09-00
Pages
324-32
Language
English
Region
United States
NLM ID
8004904
Subset
IM
Databases
GENBANK
L38661
External Links
PubMed source DOI: 10.1007/BF00326430 View journal details
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