Abstract
This article reports the cloning of the genes encoding the Arabidopsis and rice class III ADH enzymes, members of the alcohol dehydrogenase or medium chain reductase/dehydrogenase superfamily of proteins with glutathione-dependent formaldehyde dehydrogenase activity (GSH-FDH). Both genes contain eight introns in exactly the same positions, and these positions are conserved in plant ethanol-active Adh genes (class P). These data provide further evidence that plant class P genes have evolved from class III genes by gene duplication and acquisition of new substrate specificities. The position of introns and similarities in the nucleic acid and amino acid sequences of the different classes of ADH enzymes in plants and humans suggest that plant and animal class III enzymes diverged before they duplicated to give rise to plant and animal ethanol-active ADH enzymes. Plant class P ADH enzymes have gained substrate specificities and evolved promoters with different expression properties, in keeping with their metabolic function as part of the alcohol fermentation pathway.
Full Text
The Full Text of this article is available as a PDF (3.2 MB).
Selected References
These references are in PubMed. This may not be the complete list of references from this article.
- Andrews D. L., MacAlpine D. M., Johnson J. R., Kelley P. M., Cobb B. G., Drew M. C. Differential induction of mRNAs for the glycolytic and ethanolic fermentative pathways by hypoxia and anoxia in maize seedlings. Plant Physiol. 1994 Dec;106(4):1575–1582. doi: 10.1104/pp.106.4.1575. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Chang C., Meyerowitz E. M. Molecular cloning and DNA sequence of the Arabidopsis thaliana alcohol dehydrogenase gene. Proc Natl Acad Sci U S A. 1986 Mar;83(5):1408–1412. doi: 10.1073/pnas.83.5.1408. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Dennis E. S., Gerlach W. L., Pryor A. J., Bennetzen J. L., Inglis A., Llewellyn D., Sachs M. M., Ferl R. J., Peacock W. J. Molecular analysis of the alcohol dehydrogenase (Adh1) gene of maize. Nucleic Acids Res. 1984 May 11;12(9):3983–4000. doi: 10.1093/nar/12.9.3983. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Dennis E. S., Sachs M. M., Gerlach W. L., Finnegan E. J., Peacock W. J. Molecular analysis of the alcohol dehydrogenase 2 (Adh2) gene of maize. Nucleic Acids Res. 1985 Feb 11;13(3):727–743. doi: 10.1093/nar/13.3.727. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Dolferus R., Jacobs M., Peacock W. J., Dennis E. S. Differential interactions of promoter elements in stress responses of the Arabidopsis Adh gene. Plant Physiol. 1994 Aug;105(4):1075–1087. doi: 10.1104/pp.105.4.1075. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Dolferus R., Jacobs M. Polymorphism of alcohol dehydrogenase in Arabidopsis thaliana (L.) Heynh.: genetical and biochemical characterization. Biochem Genet. 1984 Oct;22(9-10):817–838. doi: 10.1007/BF00499475. [DOI] [PubMed] [Google Scholar]
- Dolferus R., Van den Bossche D., Jacobs M. Sequence analysis of two null-mutant alleles of the single Arabidopsis Adh locus. Mol Gen Genet. 1990 Nov;224(2):297–302. doi: 10.1007/BF00271565. [DOI] [PubMed] [Google Scholar]
- Duester G., Smith M., Bilanchone V., Hatfield G. W. Molecular analysis of the human class I alcohol dehydrogenase gene family and nucleotide sequence of the gene encoding the beta subunit. J Biol Chem. 1986 Feb 15;261(5):2027–2033. [PubMed] [Google Scholar]
- Eklund H., Horjales E., Vallee B. L., Jörnvall H. Computer-graphics interpretations of residue exchanges between the alpha, beta and gamma subunits of human-liver alcohol dehydrogenase class I isozymes. Eur J Biochem. 1987 Sep 1;167(2):185–193. doi: 10.1111/j.1432-1033.1987.tb13322.x. [DOI] [PubMed] [Google Scholar]
- Eklund H., Müller-Wille P., Horjales E., Futer O., Holmquist B., Vallee B. L., Hög J. O., Kaiser R., Jörnvall H. Comparison of three classes of human liver alcohol dehydrogenase. Emphasis on different substrate binding pockets. Eur J Biochem. 1990 Oct 24;193(2):303–310. doi: 10.1111/j.1432-1033.1990.tb19337.x. [DOI] [PubMed] [Google Scholar]
- Freeling M., Schwartz D. Genetic relationships between the multiple alcohol dehydrogenases of maize. Biochem Genet. 1973 Jan;8(1):27–36. doi: 10.1007/BF00485554. [DOI] [PubMed] [Google Scholar]
- Frischauf A. M., Lehrach H., Poustka A., Murray N. Lambda replacement vectors carrying polylinker sequences. J Mol Biol. 1983 Nov 15;170(4):827–842. doi: 10.1016/s0022-2836(83)80190-9. [DOI] [PubMed] [Google Scholar]
- Garlick P. B., Radda G. K., Seeley P. J. Studies of acidosis in the ischaemic heart by phosphorus nuclear magnetic resonance. Biochem J. 1979 Dec 15;184(3):547–554. doi: 10.1042/bj1840547. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Gaut B. S., Morton B. R., McCaig B. C., Clegg M. T. Substitution rate comparisons between grasses and palms: synonymous rate differences at the nuclear gene Adh parallel rate differences at the plastid gene rbcL. Proc Natl Acad Sci U S A. 1996 Sep 17;93(19):10274–10279. doi: 10.1073/pnas.93.19.10274. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Giese M., Bauer-Doranth U., Langebartels C., Sandermann H., Jr Detoxification of Formaldehyde by the Spider Plant (Chlorophytum comosum L.) and by Soybean (Glycine max L.) Cell-Suspension Cultures. Plant Physiol. 1994 Apr;104(4):1301–1309. doi: 10.1104/pp.104.4.1301. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Gilbert W., Marchionni M., McKnight G. On the antiquity of introns. Cell. 1986 Jul 18;46(2):151–153. doi: 10.1016/0092-8674(86)90730-0. [DOI] [PubMed] [Google Scholar]
- Gregerson R., McLean M., Beld M., Gerats A. G., Strommer J. Structure, expression, chromosomal location and product of the gene encoding ADH1 in Petunia. Plant Mol Biol. 1991 Jul;17(1):37–48. doi: 10.1007/BF00036804. [DOI] [PubMed] [Google Scholar]
- Gutheil W. G., Holmquist B., Vallee B. L. Purification, characterization, and partial sequence of the glutathione-dependent formaldehyde dehydrogenase from Escherichia coli: a class III alcohol dehydrogenase. Biochemistry. 1992 Jan 21;31(2):475–481. doi: 10.1021/bi00117a025. [DOI] [PubMed] [Google Scholar]
- HAGEMAN R. H., FLESHER D. The effect of an anaerobic environment on the activity of alcohol dehydrogenase and other enzymes of corn seedings. Arch Biochem Biophys. 1960 Apr;87:203–209. doi: 10.1016/0003-9861(60)90161-2. [DOI] [PubMed] [Google Scholar]
- Hochachka P. W., Mommsen T. P. Protons and anaerobiosis. Science. 1983 Mar 25;219(4591):1391–1397. doi: 10.1126/science.6298937. [DOI] [PubMed] [Google Scholar]
- Holmquist B., Vallee B. L. Human liver class III alcohol and glutathione dependent formaldehyde dehydrogenase are the same enzyme. Biochem Biophys Res Commun. 1991 Aug 15;178(3):1371–1377. doi: 10.1016/0006-291x(91)91045-e. [DOI] [PubMed] [Google Scholar]
- Hur M. W., Edenberg H. J. Cloning and characterization of the ADH5 gene encoding human alcohol dehydrogenase 5, formaldehyde dehydrogenase. Gene. 1992 Nov 16;121(2):305–311. doi: 10.1016/0378-1119(92)90135-c. [DOI] [PubMed] [Google Scholar]
- Hurley T. D., Bosron W. F., Stone C. L., Amzel L. M. Structures of three human beta alcohol dehydrogenase variants. Correlations with their functional differences. J Mol Biol. 1994 Jun 10;239(3):415–429. doi: 10.1006/jmbi.1994.1382. [DOI] [PubMed] [Google Scholar]
- Hög J. O., Eklund H., Jörnvall H. A single-residue exchange gives human recombinant beta beta alcohol dehydrogenase gamma gamma isozyme properties. Eur J Biochem. 1992 Apr 15;205(2):519–526. doi: 10.1111/j.1432-1033.1992.tb16808.x. [DOI] [PubMed] [Google Scholar]
- Jacobs M., Dolferus R., Van den Bossche D. Isolation and biochemical analysis of ethyl methanesulfonate-induced alcohol dehydrogenase null mutants of arabidopsis thaliana (L.) Heynh. Biochem Genet. 1988 Feb;26(1-2):105–122. doi: 10.1007/BF00555492. [DOI] [PubMed] [Google Scholar]
- Kaiser R., Holmquist B., Hempel J., Vallee B. L., Jörnvall H. Class III human liver alcohol dehydrogenase: a novel structural type equidistantly related to the class I and class II enzymes. Biochemistry. 1988 Feb 23;27(4):1132–1140. doi: 10.1021/bi00404a009. [DOI] [PubMed] [Google Scholar]
- Kaiser R., Holmquist B., Vallee B. L., Jörnvall H. Characteristics of mammalian class III alcohol dehydrogenases, an enzyme less variable than the traditional liver enzyme of class I. Biochemistry. 1989 Oct 17;28(21):8432–8438. doi: 10.1021/bi00447a024. [DOI] [PubMed] [Google Scholar]
- Koivusalo M., Baumann M., Uotila L. Evidence for the identity of glutathione-dependent formaldehyde dehydrogenase and class III alcohol dehydrogenase. FEBS Lett. 1989 Oct 23;257(1):105–109. doi: 10.1016/0014-5793(89)81797-1. [DOI] [PubMed] [Google Scholar]
- Laemmli U. K. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature. 1970 Aug 15;227(5259):680–685. doi: 10.1038/227680a0. [DOI] [PubMed] [Google Scholar]
- Mitchell L. E., Dennis E. S., Peacock W. J. Molecular analysis of an alcohol dehydrogenase (Adh) gene from chromosome 1 of wheat. Genome. 1989 Jun;32(3):349–358. doi: 10.1139/g89-454. [DOI] [PubMed] [Google Scholar]
- Newman T., de Bruijn F. J., Green P., Keegstra K., Kende H., McIntosh L., Ohlrogge J., Raikhel N., Somerville S., Thomashow M. Genes galore: a summary of methods for accessing results from large-scale partial sequencing of anonymous Arabidopsis cDNA clones. Plant Physiol. 1994 Dec;106(4):1241–1255. doi: 10.1104/pp.106.4.1241. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Persson B., Zigler J. S., Jr, Jörnvall H. A super-family of medium-chain dehydrogenases/reductases (MDR). Sub-lines including zeta-crystallin, alcohol and polyol dehydrogenases, quinone oxidoreductase enoyl reductases, VAT-1 and other proteins. Eur J Biochem. 1994 Nov 15;226(1):15–22. doi: 10.1111/j.1432-1033.1994.tb20021.x. [DOI] [PubMed] [Google Scholar]
- Rogers J. H. How were introns inserted into nuclear genes? Trends Genet. 1989 Jul;5(7):213–216. doi: 10.1016/0168-9525(89)90084-x. [DOI] [PubMed] [Google Scholar]
- Rosario Fernández M., Jörnvall H., Moreno A., Kaiser R., Parés X. Cephalopod alcohol dehydrogenase: purification and enzymatic characterization. FEBS Lett. 1993 Aug 16;328(3):235–238. doi: 10.1016/0014-5793(93)80934-m. [DOI] [PubMed] [Google Scholar]
- Sachs M. M., Freeling M., Okimoto R. The anaerobic proteins of maize. Cell. 1980 Jul;20(3):761–767. doi: 10.1016/0092-8674(80)90322-0. [DOI] [PubMed] [Google Scholar]
- Sandermann H., Jr Plant metabolism of xenobiotics. Trends Biochem Sci. 1992 Feb;17(2):82–84. doi: 10.1016/0968-0004(92)90507-6. [DOI] [PubMed] [Google Scholar]
- Sasnauskas K., Jomantiene R., Januska A., Lebediene E., Lebedys J., Janulaitis A. Cloning and analysis of a Candida maltosa gene which confers resistance to formaldehyde in Saccharomyces cerevisiae. Gene. 1992 Dec 1;122(1):207–211. doi: 10.1016/0378-1119(92)90052-q. [DOI] [PubMed] [Google Scholar]
- Uotila L., Koivusalo M. Purification of formaldehyde and formate dehydrogenases from pea seeds by affinity chromatography and S-formylglutathione as the intermediate of formaldehyde metabolism. Arch Biochem Biophys. 1979 Aug;196(1):33–45. doi: 10.1016/0003-9861(79)90548-4. [DOI] [PubMed] [Google Scholar]
- Wehner E. P., Rao E., Brendel M. Molecular structure and genetic regulation of SFA, a gene responsible for resistance to formaldehyde in Saccharomyces cerevisiae, and characterization of its protein product. Mol Gen Genet. 1993 Mar;237(3):351–358. doi: 10.1007/BF00279438. [DOI] [PubMed] [Google Scholar]
- Wolf A. E., Dietz K. J., Schröder P. Degradation of glutathione S-conjugates by a carboxypeptidase in the plant vacuole. FEBS Lett. 1996 Apr 8;384(1):31–34. doi: 10.1016/0014-5793(96)00272-4. [DOI] [PubMed] [Google Scholar]
- Xie Y., Wu R. Molecular analysis of an alcohol dehydrogenase-encoding genomic clone (adh2) from rice. Gene. 1990 Mar 15;87(2):185–191. doi: 10.1016/0378-1119(90)90300-g. [DOI] [PubMed] [Google Scholar]
- Xie Y., Wu R. Rice alcohol dehydrogenase genes: anaerobic induction, organ specific expression and characterization of cDNA clones. Plant Mol Biol. 1989 Jul;13(1):53–68. doi: 10.1007/BF00027335. [DOI] [PubMed] [Google Scholar]
- Yanisch-Perron C., Vieira J., Messing J. Improved M13 phage cloning vectors and host strains: nucleotide sequences of the M13mp18 and pUC19 vectors. Gene. 1985;33(1):103–119. doi: 10.1016/0378-1119(85)90120-9. [DOI] [PubMed] [Google Scholar]
- Yokoyama S., Yokoyama R., Kinlaw C. S., Harry D. E. Molecular evolution of the zinc-containing long-chain alcohol dehydrogenase genes. Mol Biol Evol. 1990 Mar;7(2):143–154. doi: 10.1093/oxfordjournals.molbev.a040593. [DOI] [PubMed] [Google Scholar]
- Yoshida A., Hsu L. C., Yasunami M. Genetics of human alcohol-metabolizing enzymes. Prog Nucleic Acid Res Mol Biol. 1991;40:255–287. doi: 10.1016/s0079-6603(08)60844-2. [DOI] [PubMed] [Google Scholar]
- de Bruxelles G. L., Peacock W. J., Dennis E. S., Dolferus R. Abscisic acid induces the alcohol dehydrogenase gene in Arabidopsis. Plant Physiol. 1996 Jun;111(2):381–391. doi: 10.1104/pp.111.2.381. [DOI] [PMC free article] [PubMed] [Google Scholar]
