Home LiteratureArticle Details
PMID: 7896710 Published · ppublish English Journal Article Research Support, U.S. Gov't, Non-P.H.S.

In vivo definition of an archaeal promoter.

Journal of bacteriology ·Vol. 177 ·No. 7 ·1995-04-00 ·Pages 1844-9

Palmer JR, Daniels CJ

Abstract

We have used a plasmid-based transcriptional reporter system to examine the transcriptional effects of 33 single point mutations in the box A region (TATA-like sequence) of the Haloferax volcanii tRNA(Lys) promoter. The most pronounced effects on transcriptional efficiency were found when the nucleotides corresponding to the TATA-like region were altered. Promoters with wild-type or higher levels of transcriptional activity conformed to the general archaeal box A consensus, 5'-T/CTTAT/AA-3'. The preference for a pyrimidine residue in the 5' position of this region and the exclusion of guanine and cytosine in the next four positions in the 3' direction are defining characteristics shared by all efficient archaeal promoters. We have also observed that replacement of a 10-nucleotide purine-rich sequence, located 5' of the H. volcanii tRNA(Lys) box A element, completely abolished transcription from this promoter. These data show that the H. volcanii tRNA(Lys) promoter is dependent on two separate, and essential, sequence elements. The possible functions of these sequences, in view of the recent descriptions of eucaryal-like transcription factors for Archaea, are discussed.

MeSH Terms
Archaea/genetics Base Sequence Molecular Sequence Data Promoter Regions, Genetic RNA, Transfer, Lys/genetics TATA Box Transcription, Genetic
Chemicals
RNA, Transfer, Lys
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Palmer J R
Department of Microbiology, Ohio State University, Columbus 43210.
Daniels C J
References (50)
50 references, click to expand
  1. Mevinolin-resistant mutations identify a promoter and the gene for a eukaryote-like 3-hydroxy-3-methylglutaryl-coenzyme A reductase in the archaebacterium Haloferax volcanii.
    J Biol Chem. 1992 Mar 25;267(9):5829-34 PMID: 1556098
  2. The primary structure of a procaryotic glycoprotein. Cloning and sequencing of the cell surface glycoprotein gene of halobacteria.
    J Biol Chem. 1987 Jul 15;262(20):9724-9 PMID: 3036870
  3. Specific transcription of cloned Methanobacterium thermoautotrophicum transcription units by homologous RNA polymerase in vitro.
    Nucleic Acids Res. 1990 Mar 25;18(6):1441-6 PMID: 2183193
  4. Elements of an archaeal promoter defined by mutational analysis.
    Nucleic Acids Res. 1992 Oct 25;20(20):5423-8 PMID: 1279520
  5. An expression vector for the archaebacterium Haloferax volcanii.
    J Bacteriol. 1990 Dec;172(12):7104-10 PMID: 1701429
  6. Multiple promoters for the transcription of the ribosomal RNA gene cluster in Halobacterium cutirubrum.
    J Mol Biol. 1985 Nov 20;186(2):457-61 PMID: 2418207
  7. Analysis of transcription in the archaebacterium Sulfolobus indicates that archaebacterial promoters are homologous to eukaryotic pol II promoters.
    Nucleic Acids Res. 1988 Jan 11;16(1):1-19 PMID: 2829113
  8. Construction and use of halobacterial shuttle vectors and further studies on Haloferax DNA gyrase.
    J Bacteriol. 1991 Jun;173(12):3807-13 PMID: 1711028
  9. Characterization of paralogous and orthologous members of the superoxide dismutase gene family from genera of the halophilic archaebacteria.
    J Bacteriol. 1993 Mar;175(6):1561-71 PMID: 8449865
  10. Compilation and analysis of eukaryotic POL II promoter sequences.
    Nucleic Acids Res. 1986 Dec 22;14(24):10009-26 PMID: 3808945
  11. Expression and regulation of Halobacterium halobium phage phi H genes.
    Can J Microbiol. 1989 Jan;35(1):182-8 PMID: 2720493
  12. Complete nucleotide sequence of an archaeal (Pyrococcus woesei) gene encoding a homolog of eukaryotic transcription factor IIB (TFIIB).
    Nucleic Acids Res. 1993 Jun 25;21(12):2942 PMID: 8332505
  13. The sequence, and its evolutionary implications, of a Thermococcus celer protein associated with transcription.
    Proc Natl Acad Sci U S A. 1994 Apr 26;91(9):3854-6 PMID: 8171001
  14. In vitro transcription of two rRNA genes of the archaebacterium Sulfolobus sp. B12 indicates a factor requirement for specific initiation.
    Proc Natl Acad Sci U S A. 1990 Aug;87(15):5851-5 PMID: 2116009
  15. Control regions of an archaeal gene. A TATA box and an initiator element promote cell-free transcription of the tRNA(Val) gene of Methanococcus vannielii.
    J Mol Biol. 1991 Dec 5;222(3):495-508 PMID: 1748992
  16. Halobacterial S9 operon. Three ribosomal protein genes are cotranscribed with genes encoding a tRNA(Leu), the enolase, and a putative membrane protein in the archaebacterium Haloarcula (Halobacterium) marismortui.
    J Biol Chem. 1991 Dec 25;266(36):24573-9 PMID: 1840597
  17. Characterization of the L11, L1, L10 and L12 equivalent ribosomal protein gene cluster of the halophilic archaebacterium Halobacterium cutirubrum.
    EMBO J. 1989 Apr;8(4):1225-35 PMID: 2743981
  18. Characterization of a halobacterial gene affecting bacterio-opsin gene expression.
    Nucleic Acids Res. 1984 Oct 25;12(20):7949-59 PMID: 6093059
  19. Purification and characterization of a general transcription factor, aTFB, from the archaeon Methanococcus thermolithotrophicus.
    J Biol Chem. 1993 Nov 15;268(32):24047-52 PMID: 8226949
  20. The halo-opsin gene. II. Sequence, primary structure of halorhodopsin and comparison with bacteriorhodopsin.
    EMBO J. 1987 Jan;6(1):265-73 PMID: 15981336
  21. Expression of the major gas vesicle protein gene in the halophilic archaebacterium Haloferax mediterranei is modulated by salt.
    Mol Gen Genet. 1990 Jul;222(2-3):225-32 PMID: 1703266
  22. An archaebacterial cell-free transcription system. The expression of tRNA genes from Methanococcus vannielii is mediated by a transcription factor.
    Nucleic Acids Res. 1990 Mar 25;18(6):1361-7 PMID: 2326183
  23. Cell-free transcription of the nifH1 gene of Methanococcus thermolithotrophicus indicates that promoters of archaeal nif genes share basic features with the methanogen consensus promoter.
    Mol Gen Genet. 1992 Jan;231(2):286-95 PMID: 1736098
  24. The fdx gene encoding the [2Fe--2S] ferredoxin of Halobacterium salinarium (H. halobium).
    Mol Gen Genet. 1993 May;239(1-2):66-71 PMID: 8510664
  25. Halobacterial flagellins are encoded by a multigene family. Characterization of five flagellin genes.
    J Biol Chem. 1988 Sep 15;263(26):13246-51 PMID: 3417656
  26. The TATA-binding protein: a general transcription factor in eukaryotes and archaebacteria.
    Science. 1994 May 27;264(5163):1326-9 PMID: 8191287
  27. Organization and nucleotide sequence of a gene cluster coding for eight ribosomal proteins in the archaebacterium Halobacterium marismortui.
    J Biol Chem. 1990 Feb 25;265(6):3034-9 PMID: 2406244
  28. A transcriptional reporter for in vivo promoter analysis in the archaeon Haloferax volcanii.
    Appl Environ Microbiol. 1994 Oct;60(10):3867-9 PMID: 7986055
  29. Analysis of insertion mutants reveals two new genes in the pNRC100 gas vesicle gene cluster of Halobacterium halobium.
    Nucleic Acids Res. 1989 Oct 11;17(19):7785-93 PMID: 2552415
  30. Expression of a yeast intron-containing tRNA in the archaeon Haloferax volcanii.
    J Bacteriol. 1994 Jun;176(12):3820-3 PMID: 8206862
  31. Transcription and excision of a large intron in the tRNATrp gene of an archaebacterium, Halobacterium volcanii.
    J Biol Chem. 1985 Mar 10;260(5):3132-4 PMID: 3844407
  32. Transcription at different salinities of Haloferax mediterranei sequences adjacent to partially modified PstI sites.
    Mol Microbiol. 1993 Aug;9(3):613-21 PMID: 8412707
  33. An archaebacterial promoter element for stable RNA genes with homology to the TATA box of higher eukaryotes.
    Nucleic Acids Res. 1988 Jan 11;16(1):151-63 PMID: 2448746
  34. The immunity-conferring plasmid p phi HL from the Halobacterium salinarium phage phi H: nucleotide sequence and transcription.
    Virology. 1992 Sep;190(1):45-54 PMID: 1529545
  35. Mutations in DNA gyrase result in novobiocin resistance in halophilic archaebacteria.
    J Bacteriol. 1991 Jan;173(2):642-8 PMID: 1846146
  36. Sequence, organization, transcription and evolution of RNA polymerase subunit genes from the archaebacterial extreme halophiles Halobacterium halobium and Halococcus morrhuae.
    J Mol Biol. 1989 Mar 5;206(1):1-17 PMID: 2495365
  37. Unusual evolution of a superoxide dismutase-like gene from the extremely halophilic archaebacterium Halobacterium cutirubrum.
    J Bacteriol. 1990 Jul;172(7):3725-9 PMID: 1694523
  38. The alpha-operon equivalent genome region in the extreme halophilic archaebacterium Haloarcula (Halobacterium) marismortui.
    J Biol Chem. 1992 Jun 15;267(17):12123-30 PMID: 1376318
  39. Bacterio-opsin mRNA in wild-type and bacterio-opsin-deficient Halobacterium halobium strains.
    Proc Natl Acad Sci U S A. 1984 Jan;81(1):125-9 PMID: 16593404
  40. The gene for a halophilic glutamate dehydrogenase: sequence, transcription analysis and phylogenetic implications.
    Mol Gen Genet. 1991 Dec;230(3):345-52 PMID: 1766432
  41. The RNA component of RNase P from the archaebacterium Haloferax volcanii.
    J Biol Chem. 1991 Mar 25;266(9):5689-95 PMID: 1706337
  42. Crystal structure of a yeast TBP/TATA-box complex.
    Nature. 1993 Oct 7;365(6446):512-20 PMID: 8413604
  43. Mutational analysis of an archaebacterial promoter: essential role of a TATA box for transcription efficiency and start-site selection in vitro.
    Proc Natl Acad Sci U S A. 1990 Dec;87(24):9509-13 PMID: 2124695
  44. Putative tfIIs gene of Sulfolobus acidocaldarius encoding an archaeal transcription elongation factor is situated directly downstream of the gene for a small subunit of DNA-dependent RNA polymerase.
    Nucleic Acids Res. 1993 May 11;21(9):2251 PMID: 8502569
  45. Isolation and characterization of the rRNA gene clusters of Halobacterium marismortui.
    J Bacteriol. 1989 Jun;171(6):3479-85 PMID: 2722756
  46. Characterization of pHV2 from Halobacterium volcanii and its use in demonstrating transformation of an archaebacterium.
    Proc Natl Acad Sci U S A. 1987 Dec;84(23):8530-4 PMID: 2825193
  47. Halobacterium halobium Mn-SOD gene: archaebacterial and eubacterial features.
    Free Radic Res Commun. 1991;12-13 Pt 1:443-9 PMID: 2071048
  48. Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya.
    Proc Natl Acad Sci U S A. 1990 Jun;87(12):4576-9 PMID: 2112744
  49. Transcription factor IID in the Archaea: sequences in the Thermococcus celer genome would encode a product closely related to the TATA-binding protein of eukaryotes.
    Proc Natl Acad Sci U S A. 1994 May 10;91(10):4180-4 PMID: 8183889
  50. Co-crystal structure of TBP recognizing the minor groove of a TATA element.
    Nature. 1993 Oct 7;365(6446):520-7 PMID: 8413605
Article Info
Journal
Journal of bacteriology
Abbr.
J Bacteriol
ISSN
0021-9193
DOI
10.1128/jb.177.7.1844-1849.1995
Published
1995-04-00
Pages
1844-9
Language
English
Region
United States
NLM ID
2985120R
PMCID
PMC176815
Subset
IM
External Links
PubMed source DOI: 10.1128/jb.177.7.1844-1849.1995 PMC Full Text View journal details
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com

Copyright © 2026.Genelibs Jinan Honghui Biotechnology Co., Ltd. 鲁ICP备20007159号-2