Phytase mutant
11214776 · 2022-01-04
Assignee
Inventors
Cpc classification
International classification
Abstract
Provided are phytase mutants, preparation methods therefor and uses thereof, DNA molecule encoding each of the phytase mutants, a vector comprising the DNA molecule, and a host cell comprising the vector.
Claims
1. A phytase mutant, comprising an amino acid sequence having at least 70% sequence identity to the amino acid sequence of SEQ ID NO: 1, which comprises substitutions of the amino acids at positions 46, 62, 70, 73, 75, 80, 114, 137, 142, 146, 159, 161, 176, 187, 255 and 380 and further comprises one or two substitutions at positions 126 and 211.
2. The phytase mutant of claim 1, wherein the amino acid substitution at position 46 is from Trp to Glu, at position 62 is from Gln to Trp, at position 70 is from Gly to Glu, at position 73 is from Ala to Pro, at position 75 is from Lys to Cys, at position 80 is from Ser to Pro, at position 114 is from Thr to His, at position 137 is from Asn to Val, at position 142 is from Asp to Arg, at position 146 is from Ser to Glu, at position 159 is from Arg to Tyr, at position 161 is from Thr to Pro, at position 176 is from Asn to Pro, at position 187 is from Ser to Pro, at position 255 is from Tyr to Asp, and at position 380 is from Ala to Pro.
3. The phytase mutant of claim 1, wherein the amino acid substitution at position 126 is from Asn to Asp and at position 211 is from Val to Trp.
4. The phytase mutant of claim 1, comprising the amino acid sequence of SEQ ID NO: 5.
5. The phytase mutant of claim 1, comprising the amino acid sequence of SEQ ID NO: 7.
6. The phytase mutant of claim 1, comprising the amino acid sequence of SEQ ID NO: 9.
7. A nucleic acid comprising a polynucleotide sequence encoding the phytase mutant of claim 1.
8. The nucleic acid of claim 7, wherein the polynucleotide sequence comprises the sequence of SEQ ID NO: 6.
9. The nucleic acid of claim 7, wherein the polynucleotide sequence comprises the sequence of SEQ ID NO: 8.
10. The nucleic acid of claim 7, wherein the polynucleotide sequence comprises the sequence of SEQ ID NO: 10.
11. An expression vector comprising a polynucleotide sequence encoding the phytase mutant of claim 1.
12. A host cell comprising the expression vector of claim 11.
13. A method of producing a phytase mutant comprising: Step 1: obtain a nucleic acid comprising a polynucleotide sequence encoding a phytase mutant comprising an amino acid sequence having at least 70% sequence identity to the amino acid sequence of SEQ ID NO: 1, which comprises amino acid substitutions at positions 46, 62, 70, 73, 75, 80, 114, 137, 142, 146, 159, 161, 176, 187, 255 and 380 and further comprises one or two substitutions at positions 126 and 211; Step 2: fuse the nucleic acid obtained by step 1 to an expression vector, construct recombinant expression vector, and transform the recombinant expression vector into a host cell; and Step 3: induce the host cell comprising recombinant expression vector to express the phytase mutant, and then isolate and purify the phytase mutant.
14. The method of claim 13, wherein the phytase mutant comprises the amino acid sequence of SEQ ID NO: 5, 7, or 9.
15. The method o claim 13, wherein the polynucleotide sequence comprises the sequence of SEQ ID NO: 6, 8, or 10.
Description
BRIEF DESCRIPTION OF THE DRAWINGS
(1)
EXAMPLES
(2) In order to improve the thermostability of wild phytase APPA (the amino acid sequence shown as SEQ ID NO: 1, and the polynucleotide sequence shown as SEQ ID NO: 2), 16 amino acid substitutions (W46E, Q62W, G70E, A73P, K75C, S80P, T114H, N137V, D142R, S146E, R159Y, T161P, N176P, S187P, Y255D and A380P) were introduced into APPA. The phytase mutant obtained was named PHY6, of which the amino acid sequence was SEQ ID NO: 3 and the encoding polynucleotide sequence was SEQ ID NO: 4. Compared with APPA, the heat resistance of PHY6 was significantly improved. (This part of contents has been described in details in Chinese application No. 201510532520.1, named “Phytase mutants”, filed on Aug. 26, 2015.)
(3) The invention discloses a phytase mutant, a method of production and a use thereof, a DNA molecule encoding the mutant, a vector, and a host cells. The invention has described the method and application in the preferred embodiments, and technicians in this field can readily modify or appropriately modify and combine the methods and applications to realize and apply the invention without departing from the contents, spirit and scope of the invention.
(4) Conventional techniques and methods in the field of genetic engineering and molecular biology are used in the invention, for example, the methods recorded in MOLECULAR CLONING: A LABORATORY MANUAL, 3nd Ed. (Sambrook, 2001) and CURRENT PROTOCOLS IN MOLECULAR BIOLOGY (Ausubel, 2003). These general references provide one of skill in art with a general dictionary of many of the terms used in this invention. Based on the technical scheme described in the invention, all technical and scientific terms can choose other conventional methods, experimental programs and reagents to realize the invention, including, but not limited to that described in the embodiments of the invention. For example, the following experimental materials and reagents can be used in the invention:
(5) Strains and vectors: E. coli DH5α, Pichia pastoris strain GS115, vector pPIC9k, Amp and G418 were purchased from Invitrogen.
(6) Enzymes and Kits: PCR enzymes and ligases were purchased from Takara; restriction endonucleases were purchased from Fermentas; plasmid mini kit and gel extraction kit were purchased from Omega; geneMorph II random mutagenesis kit was purchased from MBL Beijing Biotech Co., Ltd.
(7) Medium Recipes:
(8) Lariant broth (LB medium): 0.5% yeast extract, 1% tryptone, 1% NaCl, pH7.0;
(9) LB-AMP medium: LB medium with 100 μg/mL ampicillin;
(10) Yeast extract peptone dextrose medium (YPD medium): 1% yeast extract, 2% tryptone, 2% glucose;
(11) Minimal dextrose medium (MD medium): 2% tryptone, 2% agar;
(12) BMGY medium: 2% tryptone, 1% yeast extract, 100 mM potassium phosphate buffer (pH 6.0), 1.34% YNB, 4×10.sup.−5 biotin, 1% glycerol;
(13) BMMY medium: 2% tryptone, 1% yeast extract, 100 mM potassium phosphate buffer (pH 6.0), 1.34% YNB, 4×10.sup.−5 biotin, 1% methanol.
(14) The invention is further illustrated by the following examples:
Example 1 Screening for Thermostable Mutants
(15) In order to improve the thermostability of phytase mutant PHY6, the protein structure of PHY6 (encoded by the polynucleotide sequence shown as SEQ ID NO: 4) was analyzed. There were two domains in the protein: domain I contained 134 amino acid residues at the N-terminus and 152 amino acid residues at C-terminus, while domain II contained the remaining 124 amino acid residues in the middle. The conserved sequences and activity center were all in domain I. Without destroying the secondary structure and activity center of the protein, further mutations of the amino acid residuals were carried out.
(16) 1.1 Design of PCR primers PHY6-F1 and PHY6-R1
(17) PHY6-F1: GGCGAATTC CAGTCAGAACCAGAGTTGAAGTT (Underlined is the recognition site of restriction endonuclease EcoRI), which is shown as SEQ ID NO: 11;
(18) PHY6-R1: ATAGCGGCCGCTTACAAGGAACAAGCAGGGAT (Underlined is the recognition site of restriction endonuclease NotI), which is shown as SEQ ID NO: 12;
(19) PHY6 gene (shown as SEQ ID NO: 4) was amplified using the primers above by a GeneMorph II random mutagenesis kit (Stratagene). After being recovered, the amplification products were digested with EcoRI and NotI and ligated into EcoRI-NotI-digested plasmid pET21a. After that the plasmid was transformed into E. coli BL21 (DE3) and then the recombinant E. coli cells were spread onto LB+Amp plates. After being incubated at 37° C., the colonies were transferred by a toothpick one by one into 96-well polypropylene microtiter plates containing LB+Amp medium with 150 ul 0.1 mM IPTG in each well. The microtiter plates were incubated at 37° C. for 6 h with shaking at 220 rpm. The supernatant was removed from the fermentation broth by centrifugation. Afterwards the cells were re-suspended with buffer and repeated freeze-thawed to obtain phytase-containing E. coli cell lysates.
(20) 40 ul cell lysates were transferred into two separate new 96-well plates, one of which was treated at 80° C. for 10 min, and the other was not. 80 ul substrates were added into each well of the plates and incubated for 30 min at 37° C. Afterwards 80 ul stop solution (ammonium vanadate:ammonium molybdate:nitric acid=1:1:2) was added to end the reaction. In each well of the plates, the contents of inorganic phosphate were determined, which reflected the post-heat treatment activities of different mutants obtained in the invention.
(21) Compared with phytase PHY6, the thermostabilities of some mutants are not improved. The thermostabilities or activities of some mutants are even worse. Besides, there are some mutants with improved thermostabilities, but their enzymatic properties are significantly changed, which also limits their applications in feed. Finally, this invention provides three phytase mutants with significantly improved thermostability without negative effects on their high activities and original enzymatic properties: N126D, V211W, and N126D/V211W.
(22) One mutant is named Phy7.1 with one-point mutation N126D, its amino acid sequence is shown as SEQ ID NO: 5, and the encoding polynucleotide sequence is shown as SEQ ID NO: 6.
(23) Another phytase mutant is named Phy7.2 with one-point mutation V211W, its amino acid sequence is shown as SEQ ID NO: 7, and the encoding polynucleotide sequence is shown as SEQ ID NO: 8.
(24) The other phytase mutant is named Phy8 with two-point mutation N126D and V211W, its amino acid sequence is shown as SEQ ID NO: 9, and the encoding polynucleotide sequence is shown as SEQ ID NO: 10.
(25) 1.2 Synthesis and Amplification of Mutant Genes
(26) The polynucleotide sequences of PHY6 and three phytase mutants were synthesized with reference to SEQ ID NO: 4, SEQ ID NO: 6, SEQ ID NO: 8 and SEQ ID NO: 10 and optimized based on codon preference of Pichia Postoris by Shanghai Generay Biotech Co., Ltd, of which an EcoRI restriction site and a NotI restriction site were added to the 5′ end and 3′ end respectively.
(27) 1.3 Construction of Expression Vector
(28) The four polynucleotide sequences synthesized in 1.2 and the plasmids pPIC-9k were first digested by EcoRI and NotI, and then ligated together at 16° C. overnight respectively. After that, the recombinant plasmid was transformed into E. coli DH5α. The recombinant E. coli cells then were spread onto LB+Amp plates. The plates were placed inverted and incubated at 37° C. until transformants grew up. Positive transformants were selected and verified by colony PCR and DNA sequencing. The reaction system of colony PCR contained: monoclonal sample, rTaqDNA polymerase 0.5 ul, 10×Buffer 2.0 μL, dNTPs (2.5 mM) 2.0 μL, 5′AOX primer (10M): 0.5 μL, 3′AOX primer: 0.5 μL, ddH.sub.2O 14.5 μL; PCR conditions were: 95° C. for 5 min(1 cycle), 94° C. for 30 sec, 55° C. for 30 sec, 72° C. for 2 min(30 cycles) and 72° C. for 10 min(1 cycle). The expression vector with PHY6 gene shown as SEQ ID NO: 4 was named as pPIC9K-PHY6, and three vectors with mutant genes shown as SEQ ID NO: 6, SEQ ID NO: 8, SEQ ID NO: 10 were named as pPIC9K-Phy7.1, pPIC9K-Phy7.2 and pPIC9K-Phy8 respectively.
(29) 1.4 Construction of the Recombinant P. pastoris Strain
(30) 1.4.1 Preparation of Competent P. pastoris Cells
(31) Host cells P. pastoris GS115 were spread onto YPD plates and the plates were incubated at 30° C. for 48 h. GS115 colonies were picked up and inoculated into 6 mL YPD liquid medium for approximately 12 h at 30° C. with shaking at 220 rpm. Then the YPD liquid medium containing GS115 was inoculated into 30 mL YPD liquid medium and incubated for 5 h at 30° C. with shaking at 220 rpm. The cell density of the yeast cultures were measured using a spectrophotometer. When the optical density (OD600) between 1.1 and 1.3, 4 mL yeast cultures were added into a sterilized EP tubes and centrifuged at 9000 rpm and 4° C. for 2 min. The supernatants were removed and aspirated off by sterile filter paper, while the remaining yeast cells were re-suspended in 1 ml of sterile pre-cooled water. The suspension containing yeast cells was centrifuged at 9000 rpm and 4° C. for 2 min. The supernatants were removed, while the remaining yeast cells were re-suspended in 1 ml of sterile water again. The suspension containing yeast cells was centrifuged at 9000 rpm and 4° C. for 2 min. The supernatant was removed, while the remaining yeast cells were re-suspended in 1 ml of pre-cooled sorbitol (1 mol/L). The sorbitol containing yeast cells was centrifuged at 9000 rpm and 4° C. for 2 min. Then the supernatant was removed, while the remaining yeast cells were re-suspended in 100-150 μl of sterile pre-cooled sorbitol (1 mol/L).
(32) 1.4.2 Transformation and Screening
(33) The recombinant plasmids pPIC9K-PHY6, pPIC9K-Phy7.1, pPIC9K-Phy7.2 and pPIC9K-Phy8 were linearized by Sal I and transformed into host cells Pichia pastoris GS115 respectively by electroporation. The recombinant P. pastoris strains GS115/pPIC9K-PHY6, GS115/pPIC9K-Phy7.1, GS115/pPIC9K-Phy7.2 and GS115/pPIC9K-Phy8 were screened on MD plates. And then multiple copies of transformants were screened on YPD plates containing different concentrations of geneticin (0.5 mg/mL-8 mg/mL).
(34) One of the transformants of the recombinant strains GS115/pPIC9K-PHY6 was named Pichia pastoris PHY6. One of the transformants of the recombinant strains GS115/pPIC9K-Phy7.1 was named Pichia pastoris Phy7.1. One of the transformants of the recombinant strains GS115/pPIC9K-Phy7.2 was named Pichia pastoris Phy7.2. One of the transformants of the recombinant strains GS115/pPIC9K-Phy8 was named Pichia pastoris Phy8. The four transformants above were first inoculated into separate flasks with BMGY medium and cultured at 30° C. for 1d with agitation at 250 rpm, and then inoculated in BMMY medium at 30° C. for 4 d with agitation at 250 rpm. 0.5% methanol was added into the medium as an inducer every 24 h. The cells were removed from the fermentation broth by centrifugation at 9000 rpm for 10 min and the fermentation supernatants containing phytase PHY6, or phytase Phy7.1 or phytase Phy7.2 or Phy8 were retained.
(35) (1) Definition of Phytase Activity Unit
(36) One phytase unit is the activity of phytase that generates 1 micromole of inorganic phosphorus per minute from 5.0 mmol/L sodium phytate at pH 5.0 and 37° C., which is indicated as U.
(37) (2) Method for Detecting Phytase Activity
(38) 1.8 mL of acetic acid buffer (pH 5.0) and 0.2 mL of sample are both added into two separate cuvettes A and B, mixed and warmed at 37° C. for 5 min. 4 mL of substrate solution is added into cuvette A and 4 mL of stop solution is added into cuvette B, mixed and reacted at 37° C. for 30 min. The reaction is ended by adding and mixing 4 mL stop solution in cuvette A and 4 mL substrate solution in cuvette B. After standing for 10 min, the absorbance is measured at 415 nm. Three repeats are made for each sample, and the average of the absorbance values is used for calculating the phytase activity by regression linear.
Enzyme activity: X=F×C/(m×30)
(39) where: X—Unit of enzyme activity, U/g(mL);
(40) F—Total dilution factors of sample solution before reaction;
(41) C—The enzyme activity calculated from the linear regression equation based on the absorbance of the actual sample solution, U;
(42) m—Sample mass or volume, g/mL;
(43) 30—Reaction time;
(44) Phytase activities of the fermentation supernatants of Pichia pastoris PHY6, Phy7.1, Phy7.2 and Phy 8 were detected by the method mentioned above, and the results are provided in Table 1.
(45) TABLE-US-00001 TABLE 1 Phytase Activities Sample Value 1 Value 2 Value 3 Average Activity (U/mL) PHY6 0.491 0.487 0.490 0.489 241 Phy7.1 0.472 0.467 0.470 0.470 223 Phy7.2 0.470 0.463 0.466 0.466 205 Phy8 0.485 0.479 0.483 0.482 237
(46) The phytase activities of the fermentation supernatants of Pichia pastoris PHY6, Pichia pastoris Phy7.1, Pichia pastoris Phy7.2 and Pichia pastoris Phy8 are 241 U/mL, 223 U/mL, 205 U/mL and 237 U/mL, respectively.
(47) 1.5 Fermentation Process
(48) Pichia pastoris PHY6, Pichia pastoris Phy7.1, Pichia pastoris Phy7.2 and Pichia pastoris Phy8 were cultured in four separate 10 μL fermenters with the fermentation medium containing: 1.1 g/L CaSO.sub.4, 5.5 g/L KH.sub.2PO.sub.4, 55 g/L NH.sub.4H.sub.2PO.sub.4, 16.4 g/L MgSO.sub.4, 20.3 g/L K.sub.2SO.sub.4, 1.65 g/L KOH and 0.05% antifoam.
(49) The fermentation parameters: pH 5.0, 30° C., agitation at 300 rpm, aeration at 1.0-1.5 v/v, and the dissolved oxygen kept above 20%.
(50) There were three stages of the fermentation process. The first stage was for cell culture with 7% seed inoculated and cultured at 30° C. for 24-26 h until the supplement of glucose was finished. The second stage was for cell starvation with no more carbon source supplemented. This stage lasted about 30-60 min until the concentration of dissolved oxygen rose to 80%. The third stage was for inducing the expression of phytase with methanol added as an inducer in flow, and the concentration of dissolved oxygen maintained at more than 20%, which lasted about 150-180 h. After that, the fermentation broth was treated by the filter press to obtain crude enzyme solution.
(51) The phytase activities of the crude enzyme solutions were determined by the method mentioned in 1.4.2, and the results are provided in Table 2.
(52) TABLE-US-00002 TABLE 2 Phytase Activities Sample Value 1 Value 2 Value 3 Average Activity (U/mL) PHY6 0.488 0.487 0.490 0.488 11403 Phy7.1 0.475 0.478 0.480 0.478 10807 Phy7.2 0.469 0.473 0.470 0.471 10713 Phy8 0.483 0.480 0.481 0.481 11133
(53) The phytase activities of the crude enzyme solutions of Pichia pastoris PHY6, Pichia pastoris Phy7.1, Pichia pastoris Phy7.2 and Pichia pastoris Phy8 are 11403 U/mL, 10807 U/mL, 10713 U/mL and 11133 U/mL, respectively.
(54) 1.6 Analysis of enzymatic properties
(55) 1.6.1 Optimal Temperature
(56) The phytase activities of the crude enzyme solutions of Pichia pastoris PHY6, i Pichia pastoris Phy7.1, Pichia pastoris Phy7.2 and Pichia pastoris Phy8 were measured at pH5.5 and 5° C. intervals between 30° C. and 85° C. With the highest phytase activity calculated 100%, the relative enzyme activities were calculated.
(57) The results show that the optimal temperatures of phytase mutant Phy7.1, Phy7.2 and Phy8 are all 75° C., which is the same with phytase mutant PHY6.
(58) 1.6.2 Optimal pH
(59) The crude enzyme solutions of Pichia pastoris PHY6, Pichia pastoris Phy7.1, Pichia pastoris Phy7.2 and Pichia pastoris Phy8 were diluted by 0.1M acetic acid-sodium acetate buffer at pH 2.0, 2.5, 3.0, 3.5, 4.0, 4.5, 5.0, 5.5, 6.0, 6.5, 7.0 respectively. The phytase activities were measured at 37° C., and the relative enzyme activities were calculated with the highest enzyme activity calculated 100%.
(60) The results show that the optimal pH of Pichia pastoris Phy7.2 and Pichia pastoris PHY6 is both 5.0, but the optimal pH of Pichia pastoris Phy7.1 and Pichia pastoris Phy8 is reduced by 0.5 unit, to 4.5.
(61) 1.6.3 Thermostability
(62) The crude enzyme solutions of Pichia pastoris PHY6, Pichia pastoris Phy7.1, Pichia pastoris Phy7.2 and Pichia pastoris Phy8 were diluted 10 times with 0.25M sodium acetate buffer (pH 5.0) which was preheated for 10 min. The diluted enzyme solutions were well mixed and treated at 85° C. for 5 min, and 80° C. for 10 min. The phytase activities were measured when the diluted enzyme solutions were cooled to room temperature. With the phytase activity of the untreated enzyme solution calculated 100%, the residual phytase activities were calculated.
(63) As shown in
(64) In conclusion, using the phytase PHY6 as a basis, the invention provides an one-point mutant Phy7.1 (N126D), an one-point mutant Phy7.2 (V211W) and a two-point mutant Phy8 (N126D and V211W). Compared with phytase PHY6, the optimal temperature of the phytase mutants Phy7.1, Phy7.2 and Phy8 remains unchanged, meanwhile the optimal pH of the phytase mutants Phy7.2 remains unchanged, but the optimal pH of Phy7.1 and Phy8 is reduced by 0.5 unit. The thermostabilities of the phytase mutants Phy7.1, Phy7.2 and Phy8 have been significantly improved (P<0.01), which is conducive to the applications of the phytase mutants in feed.