Method for producing lysine by utilizing adsorption and immobilized fermentation of recombinant corynebacterium glutamicum
11098331 · 2021-08-24
Assignee
Inventors
- Hanjie Ying (Jiangsu, CN)
- Dong LIU (Jiangsu, CN)
- Yong Chen (Jiangsu, CN)
- Pingkai Ouyang (Jiangsu, CN)
- Qingguo Liu (Jiangsu, CN)
- Huanqing Niu (Jiangsu, CN)
- Bin Yu (Jiangsu, CN)
- Xiwei Peng (Jiangsu, CN)
- Ming Lei (Jiangsu, CN)
- Xingyuan Cao (Jiangsu, CN)
Cpc classification
C12N11/14
CHEMISTRY; METALLURGY
C12N2310/20
CHEMISTRY; METALLURGY
C12N9/22
CHEMISTRY; METALLURGY
C12P13/08
CHEMISTRY; METALLURGY
International classification
C12P13/08
CHEMISTRY; METALLURGY
C12N9/22
CHEMISTRY; METALLURGY
C12N11/14
CHEMISTRY; METALLURGY
Abstract
The invention discloses a method for producing lysine by utilizing adsorption and immobilized fermentation of a recombinant Corynebacterium glutamicum, wherein the recombinant Corynebacterium glutamicum is constructed by simultaneously overexpressing an adenosine triphosphate ATPase while knocking out an extracellular nuclease ExeR in a Corynebacterium glutamicum. The recombinant Corynebacterium glutamicum can effectively improve eDNA secretion of the Corynebacterium glutamicum and reduce eDNA degradation of the Corynebacterium glutamicum, so that the Corynebacterium glutamicum can be more easily adsorbed on a surface of a solid carrier for immobilized fermentation, such that a yield of continuous immobilized fermentation of the Corynebacterium glutamicum is increased by 49.67% than that of free fermentation of an original bacterium, and a fermentation cycle is shortened by 29.17%.
Claims
1. A method for producing lysine, comprising utilizing fermentation of a recombinant Corynebacterium glutamicum, wherein an extracellular nuclease ExeR of the recombinant Corynebacterium glutamicum is inactivated, and meanwhile, expression of an adenosine triphosphate ATPase is enhanced, a nucleotide sequence of the extracellular nuclease ExeR is shown in SEQ ID NO:1, and a nucleotide sequence of the adenosine triphosphate ATPase is shown in SEQ ID NO:2.
2. The method according to claim 1, wherein the fermentation is immobilized fermentation.
3. The method according to claim 2, wherein the recombinant Corynebacterium glutamicum is fermented in a medium containing a solid carrier to obtain a lysine fermentation broth.
4. The method according to claim 3, wherein the solid carrier is any one or a combination of several of cotton fiber fabric, non-woven fabric, polyester fiber, polyvinyl alcohol fiber, zeolite, bacterial cellulose membrane, silk, bagasse, corn straw, activated carbon, plastic and glass.
5. The method according to claim 3, wherein a dosage of the solid carrier in the fermentation medium is 1 to 100 g/L.
6. The method according to claim 3, wherein concentrations of constituents in the medium are: 80 to 300 g/L glucose, 30 to 50 g/L ammonium sulfate, 0.5 to 1.5 g/L magnesium sulfate, 10 to 25 g/L molasses, 10 to 25 g/L corn steep liquor, 1 to 5 g/L potassium dihydrogen phosphate, 100 to 300 mg/L ferrous sulfate, 100 to 200 mg/L manganese sulfate, 40 to 80 mg/L nicotinamide, 5 to 15 mg/L calcium pantothenate, 5 to 15 mg/L VB1, 0.5 to 2 mg/L copper sulfate, 0.5 to 2 mg/L zinc sulfate, 0.5 to 2 mg/L biotin, and 10 to 50 g/L calcium carbonate, and water is used as a solvent.
7. The method according to claim 3, wherein, after each batch of fermentation, the obtained fermentation broth is replaced with a new fermentation medium for cultivation until sugar is exhausted to obtain the lysine fermentation broth.
8. The method according to claim 3, wherein the fermentation is performed at 28 to 34° C. and 200 to 250 rpm for 20 to 90 hours.
Description
BRIEF DESCRIPTION OF THE DRAWINGS
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DETAILED DESCRIPTION
(7) The present invention may be better understood from the following embodiments. However, those skilled in the art will easily understand that the contents described in the embodiments are only used to illustrate the present invention, and should not and will not limit the present invention described in detail in the claims.
(8) Plasmids pJYS3_crtYf and pXMJ19 used in the following embodiments were purchased from Wuhan MIAOLING Biotech Co., Ltd. Unless otherwise specified, all enzymes were purchased from TAKARA, plasmid extraction and gel recovery kits were purchased from TAKARA, and one-step cloning kits were purchased from Nanjing Vazyme Biotech Co., Ltd. The original Corynebacterium glutamicum strain (hereinafter abbreviated as original bacterium) for producing L-lysine was Corynebacterium glutamicum ATCC31269, which was purchased from American Type Culture Collection (ATCC) with a trade number ATCC31269.
Embodiment 1: Construct Extracellular Nuclease ExeR Knockout Plasmid
(9) A chromosome of an original Corynebacterium glutamicum was used for performing PCR, and two gene fragments upstream and downstream an Exer gene knockout site, named ExeR-R and Exer-L, were amplified. Specifically, the PCR was carried out on the sequence ExeR-R by using the following primers 1 and 2 under the following reaction conditions: denaturating at 94° C. for 30 seconds, annealing at 55° C. for 30 seconds, extending at 72° C. for 1 minute, and repeating for 30 cycles. A gene segment (SEQ ID NO:3) of 1048 bp was amplified. The PCR was carried out on the sequence ExeR-L by using the following primers 3 and 4 under the following reaction conditions: denaturating at 94° C. for 30 seconds, annealing at 55° C. for 30 seconds, extending at 72° C. for 1 minute, and repeating for 30 cycles. A gene segment (SEQ ID NO:4) of 1035 bp was amplified.
(10) A reaction system of the PCR amplification was as follows, a total system was μL (unless otherwise specified, all other PCR reactions were subject to this system).
(11) TABLE-US-00001 Buffer 20 μL dNTP 10 μL Template 2 μL Primer 1 2 μL Primer 2 2 μL PrimeSTAR 2 μL DdH.sub.2O 62 μL
(12) A plasmid pJYS3_crtYf was subjected to PCR, and a crRNA sequence was amplified. A primer 5 and a primer 6 were used to replace an original recognition sequence (SEQ ID NO:23) on the plasmid, i.e., a 21 bp CRISPR-cpf1 recognition sequence on a crtYf gene, with a 21 bp CRISPR-cpf1 recognition sequence (SEQ ID NO:22) selected at a knockout site of an ExeR genome, i.e., a 21 bp CRISPR-cpf1 recognition sequence on an ExeR gene. The replaced sequence was named ExeR-1. Specifically, the PCR was carried out on the sequence ExeR-1 by using the following primers 5 and 6 under the following reaction conditions: denaturating at 94° C. for 30 seconds, annealing at 55° C. for 30 seconds, extending at 72° C. for 10 seconds, and repeating for 30 cycles. A gene segment (SEQ ID NO:5) of 110 bp was amplified.
(13) The sequences ExeR-R, ExeR-L and ExeR-1 were cloned to a pJYS3_crtYf plasmid digested by ApaI/SwaI to obtain a knockout plasmid pJYS3_ExeR. An agarose gel electrophoresis was shown in
(14) The amplified ExeR-R sequence contained a 20 bp sequence homologous to the carrier and a 30 bp sequence homologous to the ExeR-L. In addition, the primer 1 had restriction enzyme recognition sites of ApaI. The amplified ExeR-L sequence contained a 30 bp sequence homologous to the ExeR-R and a 25 bp sequence homologous to the ExeR-L. The amplified ExeR-1 sequence contained a 25 bp sequence homologous to the ExeR-L and a 16 bp sequence homologous to the carrier. In addition, the primer 6 had restriction enzyme recognition sites of SwaI. The restriction enzyme recognition sites were marked in bold.
(15) TABLE-US-00002 TABLE 1 Primer 1 5′~aagtagaacaactgttcaccgggcccacggaatcatctacc~3′ (SEQ ID NO: 7) Primer 2 5′~ggcgtgctggagtcggttccggcaggatta~3′ (SEQ ID NO: 8) Primer 3 5′~taatcctgccggaaccgactccagcacgcc~3′ (SEQ ID NO: 9) Primer 4 5′~tgagctagctgtcaatctagagcgtcgaattcggt~3′ (SEQ ID NO: 10) Primer 5 5′~acgctctagattgacagctagctca~3′ (SEQ ID NO: 11) Primer 6 5′~ctgagcctttcgttttatttaaatgtaacgctccaaccgtcgaggatctacaacagtaga~3′ (SEQ ID NO: 12)
Embodiment 2: Construct Adenosine Triphosphate ATPase Overexpression Plasmid
(16) A chromosome of an original Corynebacterium glutamicum was used for PCR, and an ATPase gene was amplified.
(17) Specifically, the PCR was carried out by using the following primers 7 and 8 under the following reaction conditions: denaturating at 94° C. for 30 seconds, annealing at 55° C. for 30 seconds, extending at 72° C. for 1 minute, and repeating for 30 cycles. A gene segment (SEQ ID NO:6) of 1186 bp was amplified.
(18) The amplified sequence contained an ATPase coding sequence and a 20 bp sequence homologous to the carrier. In addition, the primer 7 had restriction enzyme recognition sites of BamHI, and the primer 8 had restriction enzyme recognition sites of BamHI. The restriction enzyme recognition sites of the BamHI were marked in bold.
(19) TABLE-US-00003 TABLE 2 Primer 7 5′~gcctgcaggtcgactctagaggatccatgactgac attgatctggt~3′ (SEQ ID NO: 13) Primer 8 5′~aattcgagctcggtacccggggatccctagggcat aaaccatgcct~3′ (SEQ ID NO: 14)
(20) The obtained polynucleotide and the pXMJ19 plasmid treated by the restriction enzyme BamHI were cloned in one step to obtain a recombinant plasmid pXMJ19/*ATP for overexpressing the adenosine triphosphate ATPase. An agarose gel electrophoresis was shown in
Embodiment 3: Construct Strain Simultaneously Overexpressing Adenosine Triphosphate ATPase While Inactivating Extracellular Nuclease ExeR Gene
(21) The obtained pJYS3_ExeR recombinant plasmid was introduced into a competent cell of an original Corynebacterium glutamicum, and screened on an LB plate containing 25 ug/mL kanamycin. After culturing for 2 to 3 days, transformants were picked out, colony PCR was used to verify whether the ExeR gene on a genome was lost. A primer 9 and a primer 10 were used to carry out PCR on a genome of a knockout strain, a PCR product of an ExeR gene on a successfully knocked out genome of a mutant strain was 1494 bp (SEQ ID NO:25), while that of a control wild strain was 2619 bp (SEQ ID NO:26). An agarose gel electrophoresis was shown in
(22) The obtained pXMJ19/*ATP recombinant plasmid was introduced into a competent cell of the ΔExeR strain, and screened on an LB plate containing 6.5 ug/mL chloramphenicol. After culturing for 2 to 3 days, transformants were picked out, and then colony PCR verification was carried out, to obtain the recombinant strain simultaneously overexpressing the adenosine triphosphate ATPase while knocking out the extracellular nuclease ExeR gene, which was named ΔExeR+ATP strain, namely, the recombinant bacteria of the patent. A primer 11 and a primer 12 were used to carry out PCR, to verify whether the gene was inserted into the recombinant plasmid.
(23) TABLE-US-00004 TABLE 3 Primer 9 5′~gtgagaccaaaggtgaactg~3′ (SEQ ID NO: 15) Primer 10 5′~gtaggttctgcaggatcagt~3′ (SEQ ID NO: 16) Primer 11 5′~ggaattgtgagcggataaca~3′ (SEQ ID NO: 17) Primer 12 5′~gtatcaggctgaaaatcttc~3′ (SEQ ID NO: 18)
(24) 96-well plate and SEM experiments were carried out on the modified strain was successfully constructed. Data of the 96-well plate experiment was shown in
Embodiment 4: Production of Lysine by Immobilized Fermentation of Recombinant Bacterium on Different Carriers
(25) An activation medium was composed of: 10 g/L glucose, 10 g/L peptone, 5 g/L yeast powder and 10 g/L sodium chloride.
(26) A seed medium was composed of: 25 g/L sucrose, 10 g/L peptone, 5 g/L yeast powder, 5 g/L ammonium sulfate, 1 g/L magnesium sulfate heptahydrate, 5 g/L potassium dihydrogen phosphate, 12 g/L dipotassium hydrogen phosphate and 5 g/L urea.
(27) A formula of a fermentation medium comprised: 100 g/L glucose, 40 g/L ammonium sulfate, 1 g/L magnesium sulfate, 20 g/L molasses, 20 g/L corn steep liquor, 1 g/L potassium dihydrogen phosphate, 150 mg/L ferrous sulfate, 100 mg/L manganese sulfate, 50 mg/L nicotinamide, 10 mg/L calcium pantothenate, 10 mg/L VB1, 1 mg/L copper sulfate, 1 mg/L zinc sulfate, 2 mg/L biotin, and 40 g/L calcium carbonate.
(28) 5 mL activation culture medium was added into every 50 mL centrifuge tube, inoculated with the recombinant bacterium prepared in Embodiment 3, and activated at 30° C. and 220 rpm for 20 hours.
(29) After activation, the mixture was poured into 500 mL shake flask filled with 50 mL seed medium, and cultured at 30° C. and 220 rpm for 12 hours.
(30) 50 mL fermentation medium was poured into every 500 mL shake flask, and a carrier shown in Table 4 was also put into the fermentation medium for sterilization together at 115° C. for 15 minutes. Preferably, a dosage of the carrier was 30 g/L.
(31) 5 mL seed solution was inoculated to the fermentation medium, and fermented at 30° C. and 220 rpm for 72 hours.
(32) Continuous immobilized fermentation: during fermentation, the bacterium was already adsorbed on the immobilization carrier in a first batch; at the moment, the shake flask cultivation had passed for about 72 hours; in a second batch, a fermentation broth was dumped, the immobilization carrier adsorbed with the bacterium was left, and then 50 mL new fermentation medium was poured into the shake flask for cultivation until sugar was exhausted, which lasted for about 60 hours, wherein the carbohydrate was a combination of glucose, molasses and sucrose. Data of a fermentation cycle and a yield of the lysine were measured. This method was adopted in continuous immobilized fermentation in subsequent batches. Data of the continuous fermentation in the last ten batches was shown in Table 4.
(33) TABLE-US-00005 TABLE 4 Continuous immobilized fermentation (immobilization of recombinant bacterium) of different carriers in 10 batches Immobilization Mean fermentation Mean yield (g/L) materials cycle (h) of lysine Cotton fiber fabric 51 30.15 Non-woven fabric 59 25.51 Polyester fiber 53 28.17 Polyvinyl alcohol fiber 54 26.78 Zeolite 72 19.80 Bacterial cellulose 68 24.21 membrane Silk 70 21.56 Bagasse 69 22.84 Corn straw 71 26.59 Activated carbon 68 28.89 Plastic 72 21.65 Glass 72 20.54
(34) It can be seen from Table 4 that the cotton fiber is most conducive to the continuous immobilized fermentation, so the cotton fiber was used as an immobilization carrier in the subsequent continuous immobilized fermentation.
Embodiment 5: Lysine Fermentation Experiment of Recombinant Bacterium (Immobilization of Recombinant Bacterium on Cotton Fiber Carrier)
(35) An activation medium was composed of: 10 g/L glucose, 10 g/L peptone, 5 g/L yeast powder and 10 g/L sodium chloride.
(36) A seed medium was composed of: 25 g/L sucrose, 10 g/L peptone, 5 g/L yeast powder, 5 g/L ammonium sulfate, 1 g/L magnesium sulfate heptahydrate, 5 g/L potassium dihydrogen phosphate, 12 g/L dipotassium hydrogen phosphate and 5 g/L urea.
(37) A formula of a fermentation medium comprised: 100 g/L glucose, 40 g/L ammonium sulfate, 1 g/L magnesium sulfate, 20 g/L molasses, 20 g/L corn steep liquor, 1 g/L potassium dihydrogen phosphate, 150 mg/L ferrous sulfate, 100 mg/L manganese sulfate, 50 mg/L nicotinamide, 10 mg/L calcium pantothenate, 10 mg/L VB1, 1 mg/L copper sulfate, 1 mg/L zinc sulfate, 2 mg/L biotin, and 40 g/L calcium carbonate. 5 mL activation culture medium was added into every 50 mL centrifuge tube, inoculated with the recombinant bacterium prepared in Embodiment 3, and activated at 30° C. and 220 rpm for 20 hours.
(38) After activation, the mixture was poured into 500 mL shake flask filled with 50 mL seed medium, and cultured at 30° C. and 220 rpm for 12 hours.
(39) 50 mL fermentation medium was poured into every 500 mL shake flask, and a pro-treated cotton fiber carrier was also put into the fermentation medium for sterilization together at 115° C. for 15 minutes.
(40) 5 mL seed solution was inoculated to the fermentation medium, and fermented at 30° C. and 220 rpm for 72 hours.
(41) Continuous immobilized fermentation: during fermentation, the bacterium was already adsorbed on the immobilization carrier in a first batch; at the moment, the shake flask cultivation had passed for about 72 hours; in a second batch, a fermentation broth was dumped, the immobilization carrier adsorbed with the bacterium was left, and then 50 mL new fermentation medium was poured into the shake flask for cultivation until sugar is exhausted, which lasted for about 60 hours, wherein the sugar was a combination of glucose, molasses and sucrose. Data of a fermentation cycle measured was shown in
(42) Pre-treatment of cotton fiber carrier material: a cotton fiber carrier was cut into a square of 5 cm×5 cm, washed with pure water, dried, soaked in ethanol for 1 hour, then washed twice with pure water, bathed in boiling water for 20 minutes, put into an oven for drying, weighed to be 1.5 g, and then put into a shake flask filled with the fermentation broth for sterilization together at 115° C. for 15 minutes.
Comparative Example 1: Immobilization (Original Bacterium) of Original Bacterium
(43) The recombinant bacterium inoculated in Embodiment 5 was replaced with an original bacterium, and other steps were the same as those in Embodiment 5. Data of a fermentation cycle measured was shown in
Comparative Example 2: Free Fermentation (Recombinant Bacterium) of Recombinant Bacterium
(44) No carrier was added into a fermentation medium, and other steps were the same as those in Embodiment 5. Data of a fermentation cycle measured was shown in
Comparative Example 3: Free Fermentation (Original Bacterium) of Original Bacterium
(45) The recombinant bacterium inoculated in Embodiment 5 was replaced with an original bacterium, no carrier was added into a fermentation medium and, and other steps were the same as those in Embodiment 5. Data of a fermentation cycle measured was shown in
(46) It can be seen from
Comparative Example 4: Construct Strain with Inactivated Exer Gene in Corynebacterium glutamicum
(47) The obtained pJYS3_ExeR recombinant plasmid was introduced into a competent cell of an original Corynebacterium glutamicum, and screened on an LB plate containing 25 ug/mL kanamycin. After culturing for 2 to 3 days, transformants were picked out, colony PCR was used to verify whether the ExeR gene on a genome was lost. A primer 9 and a primer 10 were used to carry out PCR on a genome of a knockout strain, a PCR product of an ExeR gene on a successfully knocked out genome of a mutant strain was 1494 bp (SEQ ID NO:25), while that of a control wild strain was 2619 bp (SEQ ID NO:26). An agarose gel electrophoresis was shown in
Comparative Example 5: Construct Strain Overexpressing Adenosine Triphosphate Atpase in Corynebacterium glutamicum
(48) The obtained pXMJ19/*ATP recombinant plasmid was introduced into a competent cell of an original Corynebacterium glutamicum, and screened on an LB plate containing 6.5 ug/mL chloramphenicol. After culturing for 2 to 3 days, transformants were picked out, and then colony PCR verification was carried out, to obtain a recombinant strain simultaneously overexpressing the adenosine triphosphate ATPase, which was named ATP strain.
Comparative Example 6: Immobilized Fermentation of ΔExeR Strain
(49) The recombinant bacterium inoculated in Embodiment 5 was replaced with a ΔExeR strain (knocking out an ExeR gene in an original Corynebacterium glutamicum), and other steps were the same as those in Embodiment 5. Data of a fermentation cycle measured was shown in
Comparative Example 7: Immobilized Fermentation of Atp Strain
(50) The recombinant bacterium inoculated in Embodiment 5 was replaced with an ATP strain (overexpressing an ATPase gene in an original Corynebacterium glutamicum), and other steps were the same as those in Embodiment 5. Data of a fermentation cycle measured was shown in
(51) By comparing the fermentation data of the original bacterium, the recombinant bacterium, the ΔExeR strain and the ATP strain, it can be seen that knocking out the ExeR gene alone or overexpressing the ATPase gene alone can improve a fermentation yield and shorten a fermentation cycle, and, in terms of the yield of the lysine, an effect of knocking out the ExeR gene alone is slightly better than overexpressing the ATPase gene alone in terms of the yield of the lysine. It can be known from
Embodiment 6: Determination Method of Reducing Sugar
(52) DNS (dinitrosalicylic acid) was used to carry out a redox reaction with reducing sugar in an alkaline condition to produce 3-amino-5-nitrosalicylic acid. The product was brown-red when boiled, and a color of the product was proportional to a content of the reducing sugar in a certain concentration range. The content of the reducing sugar was determined by a ultraviolet spectrophotometer (OD.sub.540).
(53) A sample was properly diluted to an estimated sugar content ranging from 0.1 mg/mL to 1.0 mg/mL. 0.5 mL diluted sample was added into a 10 mL graduated test tube, and then 0.5 mL DNS was added. The mixture was boiled in boiling water for 5 minutes, and then immediately cooled for 5 minutes. 8 mL pure water was added in the mixture to blend. Moreover, 0.5 mL pure water and 0.5 mL DNS sample were set as blank samples. A standard content curve of the DNS reducing sugar used in this experiment was prepared in advance, and an absorption value was detected by an ultraviolet spectrophotometer at 540 nm and used as a magnitude of the content of the reducing sugar.
Embodiment 7: Determination of Content of Lysine
(54) 100 μL fermentation broth was sampled from each flask and diluted 50 times with 0.1 M hydrochloric acid solution, then 400 μL diluent was taken from each sample, followed by PITC precolumn derivatization. A content of the lysine was detected by an RP-HPLC method, and a concentration of the lysine in each sample was calculated.
(55) Continuous immobilized fermentation experiments were performed with an original bacterium and the recombinant bacterium constructed by the present invention. 10 batches of fermentation experiments were performed, and fermentation results were shown in Table 5. It can be seen from
(56) TABLE-US-00006 TABLE 5 Yield of lysine (g/L) of immobilized bacterium subjected to continuous fermentation in 10 batches Batch First Second Third Fourth Fifth Sixth Seventh Eighth Ninth Tenth Immobi- 25.79 25.18 25.73 26.12 25.47 25.91 26.55 26.01 27.51 26.37 lization of original bacterium Immobi- 32.18 32.84 33.16 33.34 31.92 33.85 32.86 33.71 33.89 33.75 lization of recombinant bacterium
Embodiment 8: Semi-Quantitative Measurement of Biofilm Quantity by Crystal Violet Staining
(57) 200 uL fermentation medium (without immobilization carrier and calcium carbonate) was added into a colorless 96-well plate, and then 20 uL original bacterium and recombinant bacterium were added respectively. After culturing for 12 hours, 24 hours, 36 hours and 48 hours, and then, OD values at 570 nm were measured by crystal violet staining method and a microplate reader. It can be seen from
(58) The present invention provides the Corynebacterium glutamicum simultaneously overexpressing the adenosine triphosphate ATPase while knocking out the extracellular nuclease ExeR and the constructing method thereof as well as the application ideas and methods in producing the lysine. There are many methods and ways to realize the technical solutions. The above is only the preferred embodiments of the present invention. It should be pointed out that those of ordinary skills in the art can make some improvements and embellishments without departing from the principle of the present invention, and these improvements and embellishments should also be regarded as falling with the scope of protection of the present invention. All the unspecified components in the embodiments can be realized by the prior art.
REFERENCES TO THE SEQUENCE LISTING
(59) Applicant hereby makes reference to the sequence listing that is submitted in electronic format. The Sequence Listing is provided as a file entitled 49374_SEQLIST.txt, created on Feb. 4, 2021 which is 71,454 bytes in size. The information in the electronic format of the sequence listing is incorporated herein by reference in its entirety.