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Applied and Environmental Microbiology, January 2005, p. 207-213, Vol. 71, No. 1
0099-2240/05/$08.00+0 doi:10.1128/AEM.71.1.207-213.2005
Copyright © 2005, American Society for Microbiology. All Rights Reserved.
áková,1
Miroslav Pátek,1*
Ji
í Holátko,1
Jan Ne
vera,1
Damien Leyval,2
Jean-Louis Goergen,3 and
Stéphane Delaunay2
Institute of Microbiology, Academy of Sciences of the Czech Republic, Prague, Czech Republic,1 Laboratoire Bioprocédés Agro-Alimentaires, ENSAIA,2 Laboratoire des Sciences du Génie Chimique-CNRS, Institut National Polytechnique de Lorraine, Vandoeuvre-lès-Nancy, France3
Received 11 February 2004/ Accepted 14 August 2004
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ilvA
panB ilvNM13 strain formed 90 mM valine within 48 h of cultivation in minimal medium. The same strain harboring the plasmid pECKAilvBNC produced as much as 130 mM valine under the same conditions. |
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FIG. 1. Biosynthesis of valine and isoleucine. Enzymes and the corresponding genes: AHAS (ilvB and ilvN), acetohydroxy acid synthase; TD (ilvA), threonine dehydratase; AHAIR (ilvC), acetohydroxy acid isomeroreductase; DHAD (ilvD), dihydroxyacid dehydratase; TA (ilvE), transaminase.
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The C. glutamicum ilvBNC operon was cloned (8) and, together with ilvD, has recently been used for construction of valine- and pantothenate-producing strains (20). Further improvement of the valine-producing strain was achieved by deletion of the panBC genes, thus making more pyruvate available for valine synthesis (18). Since the inhibition of AHAS reached a maximum of only about 50% in enzyme activity assays in the presence of valine, isoleucine, and leucine, it was thought that resistance of AHAS to feedback inhibition would not provide a substantial improvement in valine production. However, chemical mutagenesis and selection with amino acid analogues led to the isolation of C. glutamicum leucine and valine producers in which AHAS activity was desensitized to valine, isoleucine, and leucine (24, 25). In Streptomyces cinnamonensis, chemical mutagenesis produced strains that were feedback resistant to valine and that overproduced the immediate valine precursor, 2-ketoisovalerate (16).
In this work, we constructed feedback-resistant mutants of AHAS by site-directed mutagenesis of ilvN, encoding the regulatory subunit of C. glutamicum AHAS. The mutated ilvN allele was cloned in the newly constructed plasmid pECKA together with other genes of the ilvBNC operon, and the most favorable mutation was also introduced into the C. glutamicum chromosome. We have shown that strains carrying the mutation ilvNM13 produced markedly higher amounts of valine.
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(3) was used for cloning. The C. glutamicum strains and plasmids used are listed in Table 1. The primers are listed in Table 2. E. coli was cultivated in Luria-Bertani medium (21) at 37°C, and C. glutamicum was cultivated in 2x YT complete medium (21) or CGXII minimal medium (8) at 30°C. Kanamycin (20 µg/ml) was added to selective media. |
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TABLE 1. Strains and plasmids
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TABLE 2. Oligonucleotide primers
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Construction of plasmid pECKA and cloning of the ilvBNC operon.
The shuttle vector pECKA (replicating in E. coli and C. glutamicum) was constructed on the basis of the E. coli vector pK19 (17) and the replicon of the C. glutamicum cryptic plasmid pBL1 (22) from pEC71 (15). First, the recognition site for restriction enzyme BglII was removed from vector pK19. Plasmid pK19 was digested with BglII, blunt ended with the Klenow enzyme, and religated, giving rise to pK19B. Next, a HindII fragment (2.7 kb) of the plasmid pEC71 was cloned into the NheI site of pK19B after blunting the ends. The resulting plasmid vector, pECKA (5.4 kb), replicates in E. coli and C. glutamicum and provides seven unique cloning sites (HindII, SalI, BamHI, SmaI, KpnI, SacI, and EcoRI), a kanamycin resistance marker, and
-complementation of ß-galactosidase for cloning in E. coli. A 5.7-kb fragment of the C. glutamicum chromosome carrying the ilvBNC operon was obtained by digestion of plasmid pKK5 with SspI and BamHI. The fragment was ligated with HindII- and BamHI-digested vector pECKA, and the resulting construct was identified in the E. coli transformants. The structure of the constructed plasmid pECKAilvBNC (11.1 kb) was confirmed by restriction analysis. The restriction and genetic maps of pECKAilvBNC are shown in Fig. 2.
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FIG. 2. Map of plasmid pECKAilvBNC. The pBL1 replicon is shown as an empty box, the pK19B part is depicted as a thin line, and the cloned fragment with the ilvBNC operon is shown as a filled box.
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Construction of chromosomal mutation and deletions.
Mutation ilvNM13 and deletions in the genes ilvN, ilvA, and panB in the chromosome were constructed by using PCR-generated fragments cloned in the vector pK18mobsacB (23). The mutation or deletion was introduced into the fragment by the method of Horton (4). The oligonucleotide primers used are listed in Table 2. DNA fragments (about 600 bp) located upstream and downstream of the internal gene region to be deleted (100 to 368 bp), extended by complementary sequences of 20 bp, were amplified. The fragments were purified and mixed, and a single large fragment (about 1.2 kb) was amplified by using the outer primers with the EcoRI or PstI sites attached. The resulting products with the deletions were digested with EcoRI or PstI and cloned into pK18mobsacB. The constructs were transferred to C. glutamicum by electrotransformation, and the clones in which the double recombination event occurred were identified by positive selection based on the conditional lethal effect of the sacB gene in C. glutamicum (7). The clones, free of the vector sequences and carrying the mutation or deletion, were confirmed by PCR and sequencing.
Determination of AHAS activity.
C. glutamicum clones were cultivated in CGXII medium to an optical density at 600 nm of 4. The cells were washed with 2% KCl at 4°C and disrupted by sonication for 30 min on ice (0.5-s pulses; amplitude, 100%) with an Ikasonic U50 sonicator (IKA Labortechnik, Staufen, Germany). The specific AHAS activity in the cell extract was determined as described previously (11). The reaction mixture (1 ml) contained 100 mM phosphate buffer (pH 7.3), 10 mM MgCl2, 100 µM thiamine pyrophosphate, 100 µM flavin adenine dinucleotide, and 50 mM pyruvate. The reaction was started by adding 100 µl of cell extract and was stopped by adding 100 µl of 50% H2SO4, which also converts acetolactate to acetoin. The concentration of acetoin was determined by the method of Westerfeld (30). The specific AHAS activity was expressed in units per milligram of protein (micromoles of acetolactate per minute per milligram of protein).
Determination of valine production.
Valine-producing strains were cultivated for 48 h in CGXII medium (60 ml in 500-ml flasks, 30°C, 120 rpm). L-Isoleucine (0.9 mM) and D-pantothenate (0.5 µM) were added to the cultures of strains with deletions
ilvA and
panB. A 1 ml aliquot of supernatant harvested from a culture was used for determination of the valine concentration. The valine concentration in the medium was determined by reversed-phase high-pressure liquid chromatography (HP1090; Hewlett-Packard, Waldbronn, Germany) with fluorimetric detection (excitation at 230 nm and emission at 450 nm) after automatic precolumn derivatization with ortho-phthaldialdehyde (12). A Hypersil octyldecyl silane column was used (particle size, 5 µm; 200 by 2.1 mm; Thermo Electron). The buffer gradient consisted of a polar phase (0.05 M sodium acetate, pH 7.2) and a nonpolar phase (methanol). Quantification was done by calculation of the valine concentration from a calibration curve. Cultivations of each clone and valine determinations were performed at least three times. Since the final optical densities at 600 nm of the cultures were similar (about 40), we could rule out an influence of the amount of biomass on valine production.
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TABLE 3. Inhibition of activity of C. glutamicum wild-type AHAS by branched-chain amino acids
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FIG. 3. Design of mutations within C. glutamicum IlvN. The N-terminal parts of the regulatory subunits of AHAS are shown. Amino acids whose substitution decreased inhibition of AHAS by valine in E. coli (25) or S. cinnamonensis (7) are shaded, and those which are identical in two or all three sequences are in boldface. Amino acids replaced in mutants of C. glutamicum AHAS are boxed. Mutation in E. coli, 14G D; mutations in S. cinnamonensis, 16G D, 17V D, 18L F, and 30F L.
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ilvN was constructed in the C. glutamicum chromosome. Since the 100-bp deletion (coordinates 1340019 to 130118) included the ilvN initiation codon, no regulatory subunit of chromosomal origin could be formed. The C. glutamicum
ilvN strain grew extremely slowly in the minimal medium and was nearly auxotrophic for valine, isoleucine, leucine, and pantothenate. This deficiency was complemented by plasmid pECKAilvBNC. Using the C. glutamicum
ilvN strain, the specific activity of AHAS coded by genes of the wild type or carrying the mutation M8, M11, or M13 in ilvN (on plasmid pECKAilvBNC in all cases) was measured. The values obtained in the absence of amino acids (shown as 100% in Table 5) were 0.11 U (mg of protein)1 in the case of the wild-type ilvN and 0.04 to 0.06 U (mg of protein)1 in the cases of the mutated ilvN. As shown in Table 5, mutations M8 and M13 caused complete resistance to inhibition by any of the three branched-chain amino acids, while in mutant M11, inhibition by isoleucine and leucine decreased only slightly and inhibition by valine even increased. The most favorable mutation (M13) was chosen for further work. |
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TABLE 4. Mutations in the C. glutamicum AHAS
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TABLE 5. Inhibition of AHAS activity by branched-chain amino acids in the C. glutamicum ilvN strain harboring pECKAilvBNC with mutations
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ilvN sequence for the complete ilvN sequence with the M13 mutation. The correct clone was selected according to its growth on minimal medium. The exchanged region within the chromosome was then amplified by PCR and checked by sequencing. Specific activities of AHAS of the wild type and with the mutation were determined (Table 6). As expected, the activity of the enzyme with the M13 mutation was not inhibited by any of the branched-chain amino acids at 10 mM. Moreover, in the presence of 10 mM valine, the specific activity of the mutated enzyme was 76% higher than that of the wild type [0.017 U (mg of protein)1 for the wild type and 0.030 U (mg of protein)1 for the mutant] (Fig. 4A). Whereas only traces of valine (1 mM) were detected in minimal medium after 48 h of cultivation of the wild-type strain of C. glutamicum, the ilvNM13 mutant formed 15.3 mM valine under the same conditions (Fig. 4B). |
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TABLE 6. Inhibition of AHAS activity by branched-chain amino acids in plasmid-free strains
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FIG. 4. AHAS activity and valine production in C. glutamicum strains. The means of data obtained from at least three independent cultivations are shown. Error bars show standard deviations. (A) AHAS activity without valine (open bars) and with 10 mM valine (shaded bars). (B) Valine production after 48-h cultivations in minimal medium. WT, wild type.
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ilvA
panB strain is auxotrophic for isoleucine and pantothenate. The ilvNM13 mutation was used for further development of valine-producing strains. We used the wild-type, ilvNM13,
ilvA
panB, and
ilvA
panB ilvNM13 C. glutamicum strains as hosts for plasmids pECKAilvBNC and pECKAilvBNM13C to construct various valine producers.
Determination of AHAS activity and valine production.
The AHAS activity, its inhibition by valine, and valine production measured in various C. glutamicum strains, as described in Materials and Methods, are shown in Fig. 4. No inhibition of AHAS activity by valine was found in all strains synthesizing only the mutated regulatory AHAS subunit (Fig. 4A). The strains carrying the ilvNM13 mutation in the chromosome produced much more valine than their wild-type counterparts, which proved a positive effect of feedback-resistant AHAS on valine production (Fig. 4B). The highest production of valine (130 mM within 48 h of cultivation) was detected in C. glutamicum
ilvA
panB ilvNM13(pECKAilvBNC) cultures. The best plasmidless strain, C. glutamicum
ilvA
panB ilvNM13, produced 90 mM valine. The profiles of valine accumulation and AHAS activity in the course of the batch cultivation of C. glutamicum
ilvA
panB ilvNM13(pECKAilvBNC) were also determined (Fig. 5). As shown in Fig. 5, valine was formed in parallel to the growth of the culture, and linear accumulation of valine continued even in stationary phase.
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FIG. 5. Growth, AHAS activity, and valine production during the batch cultivation of C. glutamicum ilvA panB ilvNM13(pECKAilvBNC). OD600, optical density at 600 nm.
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The 25-fold increase of valine production in the
ilvA strain was probably caused by blocking of the pathway to isoleucine and by growth limitation. In the
ilvA strains, no 2-ketobutyrate is formed (Fig. 1). It has been reported that 2-ketobutyrate strongly affects the C. glutamicum AHAS activity. Eggeling et al. (1) showed that AHAS activity increased 10-fold after addition of 50 mM 2-ketobutyrate. Keilheuer et al. (8) proved that it is the higher transcription of the ilvBNC operon which is responsible for this increase. It was assumed that in the presence of a high concentration of 2-ketobutyrate, highly preferred synthesis of isoleucine resulted in a valine and leucine deficiency in the cell, which in turn derepressed the ilvBNC expression. However, under conditions of valine and leucine starvation, at most a 2.2-fold increase of AHAS activity was demonstrated (14). We have shown that the lack of 2-ketobutyrate in the cell (in
ilvA strains) resulted in a drop in AHAS activity. When the
ilvA strain was cultivated in the presence of 1 mM 2-ketobutyrate, AHAS activity increased by 50% (data not shown). Since we have also observed an increase of AHAS activity in the presence of 2-ketobutyrate in cells producing valine, the positive effect of 2-ketobutyrate on AHAS activity cannot be explained only by valine and leucine deficiency. Apparently, still another mechanism of induction of ilvBN transcription by 2-ketobutyrate is involved. This control may be mediated by binding of a regulatory molecule at the sequence upstream of the ilvB promoter (14).
Growth inhibition, a 2.5-fold increase of the ilvBN transcript level, and a 3.5-fold increase of specific AHAS activity were shown in
ilvA strains in the presence of 40 mM valine (10). These consequences of a high valine concentration in the medium were attributed to the competition of valine with isoleucine for uptake by the cells and resulting isoleucine starvation (10). In the C. glutamicum
ilvA
panB ilvNM13(pECKAilvBNC) strain, we found that the specific AHAS activity was nearly twofold higher after 28 h of cultivation than after 12 h of cultivation (Fig. 5). At this point, about 30 mM valine accumulated in the medium and growth slowed, probably due to the isoleucine limitation. However, during the stationary phase, the concentration of valine in the medium increased further linearly, whereas AHAS activity dropped to the value measured after 12 h.
Since C. glutamicum AHAS can be inhibited at most to about 50% (1), it was believed that a feedback-resistant AHAS mutant could not increase valine formation in the producing strains. In this respect, our results, showing the positive effect of a feedback-resistant mutation in the regulatory AHAS subunit on valine production, are unexpected. The C. glutamicum
ilvA
panB ilvNM13 strain may be used as a basis for new generation of plasmid-free producers. The use of a producer strain which carries all modifications within the chromosome would decrease a theoretical hazard connected with plasmids carrying antibiotic resistance markers and other heterologous genes, which might be disseminated in the environment.
il for valuable advice, and Dana Lukavská for excellent technical assistance. This work was supported by grants 525/01/0916 and 525/04/0548 from the Grant Agency of the Czech Republic, by a grant from the EU (VALPAN, QLK3-2000-00497), by Institutional Research Concept no. AV0Z5020903, and by the French Embassy in Prague.
ská 1083, CZ-14220 Prague 4, Czech Republic. Phone: (420) 24106 2398. Fax: (420)241722257. E-mail: patek{at}biomed.cas.cz. |
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vera. 1993. Production of threonine by Brevibacterium flavum containing threonine biosynthesis genes from Escherichia coli. Fol. Microbiol. 38:355-359.
il, S., J. Kopecky, V. P
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