|
|
||||||||
Genetics and Molecular Biology |
Department of Chemical Engineering, University of California, Berkeley, CA 94720-1462, USA1
Department of Biological Sciences, Purdue University, West Lafayette, IN 47907, USA2
Author for correspondence: Jay D. Keasling. Tel: +1 510 642 4862. Fax: +1 510 643 1228. e-mail: keasling{at}socrates.berkeley.edu
| ABSTRACT |
|---|
|
|
|---|
Keywords: arabinose transport system, regulatable gene expression, Red recombination, GFP fusions, FACS analysis
| INTRODUCTION |
|---|
|
|
|---|
Recently, the araCPBAD system has been introduced into both Gram-positive and Gram-negative bacterial hosts (Ben-Samoun et al., 1999
; Newman & Fuqua, 1999
; Sukchawalita et al., 1999
). In Agrobacterium tumefaciens, the level of control afforded is significant, although less stringent than that observed in E. coli (Newman & Fuqua, 1999
). In Corynebacterium glutamicum, PBAD requires both arabinose and araC, indicating that E. coli AraC is capable of interacting with C. glutamicum RNA polymerase to induce transcription, but not the CRP protein, as it does in E. coli (Ben-Samoun et al., 1999
). Given this high degree of flexibility, this broad-host-range promoter is attractive for genetic and metabolic engineering of several different bacteria, since one could make a single genetic construct and use it in several organisms.
Unfortunately, the araCPBAD system and the associated high-capacity, low-affinity L-arabinose transporter AraE display autocatalytic behaviour and suffer from all-or-none expression in E. coli (Siegele & Hu, 1997
). Rather than varying the level of gene expression in individual cells of the culture, the concentration of arabinose in the medium changes the fraction of cells that are fully induced. Recently, we showed that expression of araE from an arabinose-independent (IPTG-inducible) promoter allows regulatable gene expression control from PBAD in individual cells (Khlebnikov et al., 2000
). In this paper we show that expression of araE from constitutive promoters of various strengths on medium-copy plasmids or on the chromosome allows homogeneous expression from PBAD and that the level of araE expression affects the level of expression from PBAD at a given inducer concentration.
| METHODS |
|---|
|
|
|---|
|
The araE gene was amplified from genomic DNA of E. coli W3110 using PCR and the primers for the 5'-end of the gene (5'-CGTGAATTCGTCTTACTCTCTGTCGGCAG-3') and the 3'-end of the gene (5'-CTACGATCGAACGGCCAAGTGCCCAATCT-3'), and then digested with EcoRI and PvuI. The medium-copy number vectors pJAT8, pJAT13 and pJAT18 were digested with EcoRI and PvuI, and ligated with the EcoRIPvuI PCR fragment, resulting in plasmids pJAT8araE, pJAT13araE and pJAT18araE.
Construction of strains that express araE constitutively from the chromosome.
E. coli encodes both a high-affinity arabinose transporter (encoded by the araFGH operon) and a low-affinity arabinose transporter (encoded by araE) whose synthesis is inducible by arabinose. In order to uncouple the expression of these transporters from this autocatalytic behaviour, new E. coli strains were constructed in which the araFGH genes are deleted and araE is constitutively expressed. Both of these modifications were facilitated by using Red technology (Datsenko & Wanner, 2000
) and appropriate PCR products. The DE(araFGH) mutation was made by synthesizing a PCR product on pKD83 as template with the primers 5'-TGCACGTTCTCACTGTAATTCTGCGATGTGATA-TTG/CACGTCTTGAGCGATTGTGT-3' and 5'-GAAAAAACGCTAAATTGTTGCAGAAAAAAGCATCAG/ATTCCGGGGATCCGTCGACC-3', in which bases preceding a slash correspond to homology extensions (H1 or H2) for corresponding priming sites (P1 or P4) as shown in Fig. 1
. pKD83 is similar to pKD13 (Datsenko & Wanner, 2000
), except pKD83 has the kanamycin resistance gene (kan903) from Tn903 (K. A. Datsenko & B. L. Wanner, unpublished results). The DE(araFGH) mutation was recombined into the chromosome and verified as described in Fig. 1
. Strains carrying this deletion with or without the kan903 gene are described in Table 1
.
|
|
|
Culture OD600 was measured in a Beckman DU 640 spectrophotometer (Beckman Instruments) and fluorescence was measured in a Versafluor Fluorimeter (Bio-Rad) with 360/40 nm excitation and 510/10 nm emission filters. Flow cytometry was performed on a Beckman-Coulter EPICS XL flow cytometer (Beckman Instruments) equipped with an argon laser (emission at 488 nm/15 mW) and a 525 nm band pass filter. The sampled cells were diluted to an OD600 of 0·050·1 and kept on ice prior to analysis. For each sample, 30000 events were collected at a rate between 500 and 1000 events per second.
| RESULTS |
|---|
|
|
|---|
Expression of araE from plasmid-borne PCP promoters
Given the results from the previous experiments (the strength of the promoter controlling araE appears to affect culture homogeneity) flow cytometry experiments were conducted to examine the effect of araE expression from various constitutive promoters on gene expression from the arabinose-dependent PBAD promoter. These experiments were performed in the arabinose-transport-deficient strain E. coli CW2587 containing the arabinose-transport gene araE on the pJAT vectors (PCParaE) and gfp under control of PBAD on the high-copy plasmid pCSAK50 (PBADgfpuv).
All cultures containing the pJATaraE plasmids were induced homogeneously (Fig. 4
). The culture-averaged fluorescence (fluorescence/OD600) was highest with PCP18 but lower and approximately equal for PCP8 and PCP13 at all inducer concentrations (Fig. 5a
). All cultures except CW2587 harbouring pJAT18araE grew at approximately the same rate. Because CW2587 harbouring pJAT18araE grew much more slowly and reached a lower final density than all other CW2587 cultures the culture-averaged fluorescence was higher for that culture. At the highest arabinose concentration (2%) a decline in the culture-averaged fluorescence was observed, suggesting that the PBAD promoter was saturated. All control cultures without a functional arabinose transport system displayed a single non-fluorescent population and were not able to grow on arabinose as a carbon source.
|
|
All cultures containing the chromosomally integrated PCParaE were homogeneously induced (Fig. 4
, bottom three plots of right column), whereas the parental strain displayed a double population (Fig. 4
, top plot of right column). The culture-averaged fluorescence increased with inducer concentration (Fig. 5b
), although the difference between the induction at high and low inducer concentrations was less than with the plasmid-borne, constitutively expressed transport genes In contrast to the strains bearing the pJATaraE plasmids, the culture-averaged fluorescence was highest in cells carrying the chromosomal PCP8, was lower for PCP18, and was lowest for PCP13. Since these experiments were carried out using different strains than those above, differences are probably attributable to strain background or increased stability of the chromosomal constructs.
| DISCUSSION |
|---|
|
|
|---|
Expression of the gene encoding the low-affinity, high-capacity arabinose permease from constitutive promoters eliminated all-or-none induction of PBAD. In general, the level of induction from the PBAD promoter varied most with the concentration of inducer in the medium and slightly with the constitutive promoter strength controlling the arabinose transport gene, whether expressed from the medium-copy plasmids or from the single-copy chromosome. A relatively linear response in PBAD induction was observed over a 1000-fold range of inducer concentration.
These constructs and strains should prove useful for controlled production of regulatory proteins, where a consistent and regulatable response from all cells in a culture is desired, or for expression of genes involved in the synthesis of a secondary metabolite, where under- or overexpression of a given pathway could lead to inefficient production of the desired metabolite.
| ACKNOWLEDGEMENTS |
|---|
| REFERENCES |
|---|
|
|
|---|
Blattner, F. R., Plunkett, G., III, Bloch, C. A. & 14 other authors (1997). The complete genome sequence of Escherichia coli K-12. Science 277, 14531462.
Cherepanov, P. P. & Wackernagel, W. (1995). Gene disruption in Escherichia coli: TcR and KmR cassettes with the option of Flp-catalyzed excision of the antibiotic-resistance determinant. Gene 158, 9-14.[Medline]
Datsenko, K. A. & Wanner, B. L. (2000). One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc Natl Acad Sci USA 97, 6640-6645.
Guzman, L. M., Belin, D., Carson, M. J. & Beckwith, J. (1995). Tight regulation, modulation, and high-level expression by vectors containing the arabinose PBAD promoter. J Bacteriol 177, 4121-4130.
Helmstetter, C. E. (1968). DNA synthesis during the division cycle of rapidly growing Escherichia coli B/r. J Mol Biol 31, 507-518.[Medline]
Horazdovsky, B. F. & Hogg, R. W. (1989). Genetic reconstitution of the high-affinity L-arabinose transport system. J Bacteriol 171, 3053-3059.
Jensen, P. R. & Hammer, K. (1998a). The sequence of spacers between the consensus sequences modulates the strength of prokaryotic promoters. Appl Environ Microbiol 64, 82-87.
Jensen, P. R. & Hammer, K. (1998b). Artificial promoters for metabolic optimization. Biotechnol Bioeng 58, 191-195.[Medline]
Khlebnikov, A., Risa, O., Skaug, T., Carrier, T. A. & Keasling, J. D. (2000). A regulatable arabinose-inducible gene expression system with consistent control in all cells of a culture. J Bacteriol 182, 7029-7034.
Lim, H. K., Jung, K. H., Park, D. H. & Chung, S. I. (2000). Production characteristics of interferon-alpha using an L-arabinose promoter system in a high-cell-density culture. Appl Microbiol Biotechnol 53, 201-208.[Medline]
Newman, J. R. & Fuqua, C. (1999). Broad-host-range expression vectors that carry the L-arabinose-inducible Escherichia coli araBAD promoter and the araC regulator. Gene 227, 197-203.[Medline]
Sambrook, J., Fritsch, E. F. & Maniatis, T. (1989). Molecular Cloning: a Laboratory Manual. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory.
Siegele, D. A. & Hu, J. C. (1997). Gene expression from plasmids containing the araBAD promoter at subsaturating inducer concentrations represents mixed populations. Proc Natl Acad Sci USA 94, 8168-8172.
Sukchawalita, R., Vattanaviboona, P., Sallabhana, R. & Mongkolsuk, S. (1999). Construction and characterization of regulated L-arabinose-inducible broad host range expression vectors in Xanthomonas. FEMS Microbiol Lett 181, 217-223.[Medline]
Wanner, B. L. (1994). Gene expression in bacteria using TnphoA and TnphoA' elements to make and switch phoA gene, lacZ (op), and lacZ (pr) fusions. Methods Mol Genet 3, 291-310.
Received 12 April 2001;
revised 17 July 2001;
accepted 20 August 2001.
This article has been cited by other articles:
![]() |
J. A. Megerle, G. Fritz, U. Gerland, K. Jung, and J. O. Radler Timing and Dynamics of Single Cell Gene Expression in the Arabinose Utilization System Biophys. J., August 15, 2008; 95(4): 2103 - 2115. [Abstract] [Full Text] [PDF] |
||||
![]() |
M. R. Chenoweth and S. Wickner Complex Regulation of the DnaJ Homolog CbpA by the Global Regulators {sigma}S and Lrp, by the Specific Inhibitor CbpM, and by the Proteolytic Degradation of CbpM J. Bacteriol., August 1, 2008; 190(15): 5153 - 5161. [Abstract] [Full Text] [PDF] |
||||
![]() |
L. Kizer, D. J. Pitera, B. F. Pfleger, and J. D. Keasling Application of Functional Genomics to Pathway Optimization for Increased Isoprenoid Production Appl. Envir. Microbiol., May 15, 2008; 74(10): 3229 - 3241. [Abstract] [Full Text] [PDF] |
||||
![]() |
J. H. Sutherland, B. Cheng, I-F. Liu, and Y.-C. Tse-Dinh SOS Induction by Stabilized Topoisomerase IA Cleavage Complex Occurs via the RecBCD Pathway J. Bacteriol., May 1, 2008; 190(9): 3399 - 3403. [Abstract] [Full Text] [PDF] |
||||
![]() |
B. Cheng, E. P. Sorokin, and Y.-C. Tse-Dinh Mutation adjacent to the active site tyrosine can enhance DNA cleavage and cell killing by the TOPRIM Gly to Ser mutant of bacterial topoisomerase I Nucleic Acids Res., February 11, 2008; 36(3): 1017 - 1025. [Abstract] [Full Text] [PDF] |
||||
![]() |
E. Darmon, M. A. Lopez-Vernaza, A. C. Helness, A. Borking, E. Wilson, Z. Thacker, L. Wardrope, and D. R. F. Leach SbcCD Regulation and Localization in Escherichia coli J. Bacteriol., September 15, 2007; 189(18): 6686 - 6694. [Abstract] [Full Text] [PDF] |
||||
![]() |
L. Cheng, T. A. Naumann, A. R. Horswill, S.-J. Hong, B. J. Venters, J. W. Tomsho, S. J. Benkovic, and K. C. Keiler Discovery of antibacterial cyclic peptides that inhibit the ClpXP protease Protein Sci., August 1, 2007; 16(8): 1535 - 1542. [Abstract] [Full Text] [PDF] |
||||
![]() |
M. R. Chenoweth, N. Trun, and S. Wickner In Vivo Modulation of a DnaJ Homolog, CbpA, by CbpM J. Bacteriol., May 1, 2007; 189(9): 3635 - 3638. [Abstract] [Full Text] [PDF] |
||||
![]() |
P. P. Budde, B. M. Davis, J. Yuan, and M. K. Waldor Characterization of a higBA Toxin-Antitoxin Locus in Vibrio cholerae J. Bacteriol., January 15, 2007; 189(2): 491 - 500. [Abstract] [Full Text] [PDF] |
||||
![]() |
O. Rengby and E. S. J. Arner Titration and Conditional Knockdown of the prfB Gene in Escherichia coli: Effects on Growth and Overproduction of the Recombinant Mammalian Selenoprotein Thioredoxin Reductase Appl. Envir. Microbiol., January 1, 2007; 73(2): 432 - 441. [Abstract] [Full Text] [PDF] |
||||
![]() |
M. Heinemann and S. Panke Synthetic biology--putting engineering into biology Bioinformatics, November 15, 2006; 22(22): 2790 - 2799. [Abstract] [Full Text] [PDF] |
||||
![]() |
P. Srivastava, R. A. Fekete, and D. K. Chattoraj Segregation of the Replication Terminus of the Two Vibrio cholerae Chromosomes J. Bacteriol., February 1, 2006; 188(3): 1060 - 1070. [Abstract] [Full Text] [PDF] |
||||
![]() |
M. Osawa and H. P. Erickson Probing the domain structure of FtsZ by random truncation and insertion of GFP Microbiology, December 1, 2005; 151(12): 4033 - 4043. [Abstract] [Full Text] [PDF] |
||||
![]() |
B. Cheng, S. Shukla, S. Vasunilashorn, S. Mukhopadhyay, and Y.-C. Tse-Dinh Bacterial Cell Killing Mediated by Topoisomerase I DNA Cleavage Activity J. Biol. Chem., November 18, 2005; 280(46): 38489 - 38495. [Abstract] [Full Text] [PDF] |
||||
![]() |
S. K. Lee and J. D. Keasling A Propionate-Inducible Expression System for Enteric Bacteria Appl. Envir. Microbiol., November 1, 2005; 71(11): 6856 - 6862. [Abstract] [Full Text] [PDF] |
||||
![]() |
D. Pal, T. Venkova-Canova, P. Srivastava, and D. K. Chattoraj Multipartite Regulation of rctB, the Replication Initiator Gene of Vibrio cholerae Chromosome II J. Bacteriol., November 1, 2005; 187(21): 7167 - 7175. [Abstract] [Full Text] [PDF] |
||||
![]() |
O. L. Gurvich, P. V. Baranov, R. F. Gesteland, and J. F. Atkins Expression Levels Influence Ribosomal Frameshifting at the Tandem Rare Arginine Codons AGG_AGG and AGA_AGA in Escherichia coli J. Bacteriol., June 15, 2005; 187(12): 4023 - 4032. [Abstract] [Full Text] [PDF] |
||||
![]() |
S. D. Redick, J. Stricker, G. Briscoe, and H. P. Erickson Mutants of FtsZ Targeting the Protofilament Interface: Effects on Cell Division and GTPase Activity J. Bacteriol., April 15, 2005; 187(8): 2727 - 2736. [Abstract] [Full Text] [PDF] |
||||
![]() |
A. Hasona, Y. Kim, F. G. Healy, L. O. Ingram, and K. T. Shanmugam Pyruvate Formate Lyase and Acetate Kinase Are Essential for Anaerobic Growth of Escherichia coli on Xylose J. Bacteriol., November 15, 2004; 186(22): 7593 - 7600. [Abstract] [Full Text] [PDF] |
||||
![]() |
O. Rengby, L. Johansson, L. A. Carlson, E. Serini, A. Vlamis-Gardikas, P. Karsnas, and E. S. J. Arner Assessment of Production Conditions for Efficient Use of Escherichia coli in High-Yield Heterologous Recombinant Selenoprotein Synthesis Appl. Envir. Microbiol., September 1, 2004; 70(9): 5159 - 5167. [Abstract] [Full Text] [PDF] |
||||
![]() |
D. E. Anderson, F. J. Gueiros-Filho, and H. P. Erickson Assembly Dynamics of FtsZ Rings in Bacillus subtilis and Escherichia coli and Effects of FtsZ-Regulating Proteins J. Bacteriol., September 1, 2004; 186(17): 5775 - 5781. [Abstract] [Full Text] [PDF] |
||||
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| HOME | HELP | FEEDBACK | SUBSCRIPTIONS | ARCHIVE | SEARCH | TABLE OF CONTENTS |
| INT J SYST EVOL MICROBIOL | MICROBIOLOGY | J GEN VIROL |
| J MED MICROBIOL | ALL SGM JOURNALS | |