323 results about "Gene cluster" patented technology

The invention discloses enterobacter mori capable of resisting fish aeromonas and application of the enterobacter mori, the bacterial strain is classified and named as enterobacter mori SCH0241, the enterobacter mori SCH0241 is preserved in the China Center for Type Culture Collection on October 17, 2024, and the preservation number is CCTCC NO: M 20242236. The enterobacter mori SCH0241 disclosed by the invention is derived from the intestinal tract of high-stress-resistance healthy hybrid crucian carassius auratus No. 2, has good contact dependence antibacterial activity on aeromonas veronii, and can improve the capability of resisting aeromonas veronii infection of zebra fish. Through construction of an insertion mutation library and phenotype screening, it is found that a gene cluster of SCH0241, which exerts contact inhibition toxicity, is T6SS-2. The enterobacter mori SCH0241 disclosed by the invention provides a new powerful tool for biological prevention and treatment of fish diseases caused by aeromonas veronii.

The invention relates to the technical field of microorganisms, and discloses a pseudomonas putida strain and a preparation method and application thereof.The strain is pseudomonas putida which is separated from soil and has the capacity of dissimilatory reduction of nitrate into ammonium and is classified into a new pseudomonas putida strain based on GTDB-TK. A dissimilatory NOreductive gene cluster, namely an nirBD gene cluster, exists on a genome of the gene, nirK / nirS genes are deleted, and NOs can be reduced into NH under the anaerobic culture condition. According to the application of the pseudomonas putida strain in improvement of soil nitrogen management, the pseudomonas putida strain can be mixed with organic fertilizer for use so as to enhance the effective utilization and conversion capacity of nitrogen in soil. By means of the pseudomonas putida strain, NON can be reduced into NHH under the anaerobic condition, the culture method is simple, the growth speed is high, variation is not prone to occurring, and a brand new microbial resource is provided for soil nitrogen cycle research.

Methods for making synthetic gene clusters are described.

The disclosure provides methods for increasing saturated, monounsaturated, and poly unsaturated fatty acid production using the PUFA gene cluster plasmid and the gene regulator pfaR.

The invention relates to an engineering bacterium for synthesizing mannitol by using fructose and nicotinamide ribose and application thereof. The invention provides genetic recombination escherichia coli for synthesizing D-mannitol by using D-fructose and nicotinamide ribose, which comprises the following modifications: insertion or enhanced expression of a gene cluster 1, the gene cluster 1 comprises a D-mannitol dehydrogenase coding gene MDH and a formate dehydrogenase coding gene FDH; deletion or inhibitory expression of a gene cluster 2, wherein the gene cluster 2 comprises a 6-phosphofructokinase 1 coding gene pfkA; and insertion or enhanced expression of a gene cluster 3, wherein the gene cluster 3 comprises a nicotinamide ribokinase coding gene NRK, a nicotinamide mononucleotide adenosine transferase coding gene NMNAT, a polyphosphate kinase coding gene PPK2 and a pyrophosphohydrolase coding gene IPPa. The strain disclosed by the invention can effectively synthesize high-purity D-mannitol by using D-fructose as a production raw material and nicotinamide ribose as a co-substrate through an enzyme catalytic reaction under the condition of not additionally adding NAD < + > or NADP < + >, so that the production cost is greatly reduced.

The present disclosure discloses a Functional Genomic Imaging method. Genes are filtered based on the expression levels and other information first to improve the ratio of effective genes, and then a correlation matrix of gene co-expression is generated based on the filtered gene data to obtain a co-expression network; data conversion is performed based on the correlation matrix of gene co-expression to obtain a distance matrix; and finally, the co-expression network is subjected to dimensionality reduction and cluster analysis, thus obtaining the visualized gene expression according to the analysis result. The Functional Genomic Imaging method provided by the present disclosure achieves a better visualization effect of the genetic co-expression network and can obtain a co-expressed gene cluster more effectively.

The invention belongs to the technical field of molecular biology, and particularly relates to a DNA binding site of a fungus transcription factor AniJ and application. According to the invention, an echinocandin B gene cluster regulatory factor AniJ is taken as a research object, a ptH-SpRY-ACBE base editor and an sgRNA library covering an aniA promoter are utilized, 5-FOA screening is combined, and a binding motif RNGCTGAS of the AniJ in a core promoter region is excavated. The construction of an engineering strain containing a modified promoter (increasing the number of motifs) proves that the motifs can significantly enhance the expression of aniA and the yield of echinocandin B. And a novel molecular tool is provided for metabolic engineering of natural products of fungi.

The invention discloses a method for simultaneously producing ergothioneine and an enzyme preparation by utilizing trichoderma reesei, and belongs to the technical field of biological engineering. By optimizing the culture medium, a culture medium formula capable of enabling the trichoderma reesei which has almost no ergothioneine production capacity originally to synthesize the ergothioneine is screened out, and the trichoderma reesei can simultaneously produce the ergothioneine and an enzyme preparation. By further increasing the number of ergothioneine gene clusters of the trichoderma reesei, under the condition of not introducing any exogenous gene, an industrial production optimized strain of the ergothioneine and the enzyme preparation conforming to food safety is constructed, the yield of the ergothioneine and the enzyme preparation can be remarkably improved, and the production cost of the ergothioneine and the enzyme preparation is reduced. Meanwhile, the problems of biological safety, transgenosis safety and the like are solved, and technical support is provided for industrial production of ergothioneine and enzyme preparations.

The invention relates to the field of PQQ production, in particular to an engineering bacterium for producing pyrroloquinoline quinone and a preparation method of the engineering bacterium. According to the invention, different broad-host shuttle vectors are used, PQQ is expressed in denitrifying hyphomicrobe to synthesize related gene clusters, denitrifying hyphomicrobe engineering bacteria with high yield of PQQ are successfully constructed, and the engineering bacteria have the characteristics of rapid growth, high fermentation yield and the like, and lay a foundation for realizing green production of PQQ.

The invention relates to the technical field of microbial metabolism engineering, and discloses a genetically engineered bacterium for producing L-ornithine as well as a construction method and application of the genetically engineered bacterium. According to the genetically engineered bacterium provided by the invention, putrescine synthesis pathway genes speC, speF and argF are knocked out in a genome of the genetically engineered bacterium, a dynamic regulation gene argI is achieved, an L-ornithine synthesis pathway gene cluster derived from corynebacterium glutamicum is over-expressed at a mazG site, a gene argG is knocked down, transcription of a proline pathway gene proB is controlled at a temperature on the genome, and the gene engineering bacterium is obtained. An efflux protein coding gene lysE which is started by a promoter PLtetO-1 and is derived from corynebacterium glutamicum is inserted into a trpR site, and an original promoter of an argO gene on a genome is replaced by the promoter PLtetO-1, so that synthesis and degradation pathways of L-ornithine are reasonably optimized, and expression of a competitive pathway and an efflux-related gene is controlled through temperature change, so that the yield of L-ornithine is increased, and the yield of L-ornithine is increased. In the fermentation process, normal growth of thalli can be maintained without adding arginine, and finally high yield of L-ornithine is achieved.

The invention provides an application of a bacillus subtilis strain A45 in preventing and treating plant diseases or an application of the bacillus subtilis strain A45 in preparing a microbial agent for preventing and treating the plant diseases and the prepared microbial agent. The bacillus subtilis A45 is preserved in the China General Microbiological Culture Collection Center (CGMCC), and the preservation number is CGMCC No.33289. According to the present invention, the mechanism of the liquid bacterial agent containing the bacillus subtilis A45 to efficiently inhibit the growth of the cucumber target leaf spot Corynespora cassicola is that the bacterial strain is encoded to synthesize the famogen, the purehydrazide acid, the subtilosin A and the surfactin synthesis gene cluster, the surfactin synthesis gene cluster is different from the synthesis gene of any known organism, and the highest sequence similarity is 82%. The invention further provides the application of the liquid bacterial agent containing the bacillus subtilis A45 to the preparation of the cucumber target leaf spot Corynespora cassicola, and the application of the liquid bacterial agent containing the bacillus subtilis A45 to the preparation of the cucumber target leaf spot Corynespora cassicola. Experiments show that the liquid fungicide containing the bacillus subtilis A45, provided by the invention, can be used for efficiently inhibiting the growth of the cucumber target leaf pathogen corynespora cassicola, and the prevention and treatment effect can be up to 80% when the liquid fungicide is used in a field.

The invention discloses a genetically engineered bacterium for high yield of L-alanine as well as a construction method and application of the genetically engineered bacterium, a dominant strain is obtained by knocking out an alanine racemase gene dadX and integrating coding sequences of alanine dehydrogenase from different sources, and the shake flask yield is 10.8 g / L; the activity of a corresponding mutant M18L / E75A / A78S / I266V is 4.3 times that of a wild type; 6 by-product related genes are knocked out, meanwhile, a multi-copy strain integrated with alanine dehydrogenase is constructed, and the yield of E.coli A-LB6 in a 5L fermentation tank is increased to 133.3 g / L. Through a dynamic regulation and control strategy, an oxygen-sensitive promoter Pomp * is adopted to replace a phosphoenolpyruvate carboxylase promoter, so that succinic acid byproducts are reduced by 85.8%, and the yield reaches 143.5 g / L after 48 hours of aerobic and anaerobic two-stage fermentation. And finally, by regulating and controlling the ATP synthetase gene cluster atp promoter, the yield of L-alanine in a 50 L fermentation tank reaches 151.3 g / L, and the saccharic acid conversion rate reaches 95.2%. The combination of polygene knockout and dynamic metabolism regulation effectively enhances the biosynthesis ability of alanine, and provides an efficient engineering strain for industrial production.

The invention provides a dynamic toughness evaluation and early warning method and system for cardiovascular and metabolic diseases. The method comprises the following steps: collecting continuous cardiovascular-metabolism time sequence data, and extracting phase delay parameters to construct a lipid transport rhythm out-of-synchronization characteristic spectrum; quantifying the topological connection strength of the gene cluster based on the three-dimensional genome interaction strength matrix, and generating a genetic prediction model; a vascular endothelial metabolism buffer attenuation trajectory is calculated through simulation, and a critical environment exposure parameter is determined by matching a genetic instability threshold value; and fusing multi-source data to construct a dynamic toughness model, calculating a phase space shrinkage rate of a vascular metabolism steady-state boundary, and triggering graded early warning. According to the technical scheme provided by the invention, ultra-early warning of cardiovascular metabolism risks is realized, and the individual intervention target spot recognition precision is improved.

The present disclosure relates to systems, non-transitory computer-readable media, and methods that analyze gene perturbation machine learning embeddings and clinical observation data sets utilizing machine learning, explainability models, and causal discovery models to generate causal predictions between one or more genes and clinical outcomes. Indeed, in one or more implementations, the disclosed systems identify gene perturbation embeddings generated from cells exposed to perturbations. For instance, the disclosed systems select a cluster of genes from a plurality of genes by applying a clustering model to the gene perturbation embeddings. In some instances, the disclosed systems select gene targets from the cluster of genes by using a machine learning classification model trained on a plurality of features of the clinical observation data set. Moreover, in some instances, the disclosed systems generate the causal prediction from the gene targets and the clinical observation data set utilizing a causal discovery model.

This invention relates to a method for producing chondroitin with improved safety and extracellular secretion levels, belonging to the field of genetic engineering. Using the probiotic *Escherichia coli* Nissle 1917 as the host, this invention designs methods to increase chondroitin production by studying the chondroitin synthase KfoAC and the chondroitin-linking Kdo synthase. The relationship between chondroitin synthesis and secretion in *E. coli* was clarified, and the specificity of the chondroitin-linking Kdo was investigated, resulting in an extracellular chondroitin production of 0.32 g / L. Subsequently, the introduction of the protein KfoB from the chondroitin synthesis gene cluster increased the extracellular chondroitin production to 0.51 g / L. Further screening and optimization of the expression of transport proteins resulted in an extracellular chondroitin production of 0.73 g / L in shake flasks. Further optimization using a 7-L fermenter resulted in an extracellular chondroitin production of 5.9 g / L.

The invention discloses a streptomyces Targetron gene targeting vector as well as a construction method and application of the streptomyces Targetron gene targeting vector. According to the invention, an II-type intron Ll.LtrB from lactococcus lactis is cloned to an escherichia coli-streptomyces shuttle plasmid to construct a streptomyces genetic manipulation tool-vector pSC30 based on targeting of the II-type intron, and gene targeting in streptomyces coelicolor is successfully realized by using the tool. Screening a biosynthetic gene cluster of red pigment in streptomyces roseosporus; and activating a biosynthetic gene cluster of janus doxorubicin in streptomyces spinosus. According to the invention, the conversion rate and the gene targeting efficiency of the Ll.LtrB intron in streptomyces with high GC content are effectively improved, and a new tool is provided for construction of a gene mutation library.

The invention discloses a biosynthetic gene cluster of a novel skeleton sesquiterpenoid (sestercyclic acid) and an application of the biosynthetic gene cluster of the novel skeleton sestercyclic acid (sestercyclic acid). The sesterterpene tercyclic acid biosynthetic gene cluster at least comprises three genes, namely, terA, terB and terC, and the nucleotide sequences of the sesterterpene tercyclic acid biosynthetic gene cluster are as shown in SEQ ID NO.1-3. The gene cluster of the terrecyclic acid compound disclosed by the invention is found for the first time, and each gene function is also confirmed for the first time. Protease TerA catalyzes farnesyl pyrophosphate (FPP) to be cyclized into a new skeleton sesquiterpene 25, then P450 protease TerB is oxidized into a compound 32, and the compound 32 is dehydrogenated through protease TerC to form a final product compound 2. According to the present invention, the effective drug source approach is provided for the development of the terrecyclic acid antitumor compound.

The invention discloses a method for increasing the fermentation yield of mernomycin A based on a reinforced chassis strain glycosyl donor. Specifically, in the heterologous expression process of a sirnomycin A biosynthetic gene cluster in a chassis strain Streptomyces albus J1074, a glycosyl donor synthesis module gene and a resistance gene (MaPBP) are introduced at the same time, and on the basis of improving a glycosyl biosynthetic donor, the physiological tolerance of the chassis strain is also enhanced. Compared with a high-yield strain Streptomyces albus LX03 (CGMCC NO. 20985) of which the tolerance is only optimized, the yield of the strain Streptomyces albus LX02: pJQK610 subjected to genetic engineering optimization is improved by 285%, and the yield reaches 114 mg / L. The strain disclosed by the invention has the advantages that the yield of the strain Streptomyces albus LX02: pJQK610 is improved by 285%, and the yield of the strain Streptomyces albus LX02: pJQK610 is improved by 285%. The invention provides a high-yield technology for improving heterologous expression of the mernomycin A through collaborative optimization of precursor supply and physiological tolerance, and provides reference for efficient production of the medicine.

The invention discloses a method for non-induction biosynthesis of low molecular weight gamma-polyglutamic acid, which specifically comprises the following steps: cloning a gamma-polyglutamic acid synthetase gene cluster pgsBCA of bacillus licheniformis to corynebacterium glutamicum F343 with high glutamic acid yield for exogenous expression; a gamma-polyglutamic acid degrading enzyme gene pgdS and pgsBCA from Schlaughua Zehnder bacillus are subjected to tandem expression, so that the biosynthesis of the low-molecular-weight gamma-polyglutamic acid (LMW-gamma-PGA) is realized. Furthermore, natural promoters are screened, constitutive promoters with different intensities are introduced, and the optimal promoter Pdep-A16 is used for replacing the original inducible promoter Ptac, so that synthesis of the LMW-gamma-PGA without an inducer is realized. Finally, continuous fed-batch fermentation is carried out in a 15-L fermentation tank, the yield of the LMW-gamma-PGA reaches 37.42 g / L, and the production intensity is 0.78 g / L / h. And the LMW-gamma-PGA production process without adding an inducer is successfully constructed.

The invention discloses a gas-producing vibrio strain for producing prodigiosin and a prodigiosin synthetic gene cluster, and belongs to the technical field of microorganisms. The invention relates to a strain B1D10 for producing prodigiosin, the classification name of the strain B1D10 is Vibrio gazogenes, the strain B1D10 is preserved in Guangdong Province Microbial Culture Collection Center, the preservation number is GDMCC NO: 66510, the preservation date is June 13, 2025, and the preservation address is No.59 building, No.100 Courtyard, Xianlie Middle Road, Guangzhou. The strain B1D10 contains a prodigiosin synthetic gene cluster consisting of 16 genes. The strain is rapid in propagation and can be applied to large-scale fermentation production of prodigiosin.

The application discloses a construction method and application of a genetically engineered corynebacterium glutamicum for synthesizing a bacteriochlorophyllide amino acid shinorine, and belongs to the field of genetic engineering and fermentation technology. The genetically engineered corynebacterium glutamicum is constructed by taking corynebacterium glutamicum ATCC 13032 as a host strain, knocking out a competitive pathway gene, integrating a key enzyme gene in multiple copies on a genome, knocking out an acid production pathway gene and a serine dehydrogenase gene, and expressing a gene cluster for synthesizing shinorine on a plasmid, so that the synthesis yield of shinorine in a microbial cell is improved. The strain can produce shinorine in a flask, and 1.12 g / L of shinorine can be accumulated in 72 hours. In fed-batch fermentation in a 50 L fermenter, the strain can be cultured to 8.6 g / L.

This invention discloses a *Bacillus laterosporus* strain for the stable production of nonribosomal cyclic lipolipeptide and its construction method. The M1A gene in the Bogorol biosynthetic gene cluster is knocked out using CRISPR-Cas9 technology to block the Bogorol pathway, which competes with Brevicidine for substrates. Subsequently, the pMCCas9-S48 plasmid, which integrates S8 and S41 sgRNAs and their homologous arms as repair templates, is used to simultaneously knock out S8 and S41 family peptidase genes, preventing the expression of extracellular degradation enzymes. This invention also provides the application of the above strain in the preparation of nonribosomal cyclic lipolipeptide of Brevicidine and a method for preparing the nonribosomal cyclic lipolipeptide. This strain, through reducing metabolic competition and preventing product degradation, exhibits rapid cell growth, stable production of Brevicidine, and significantly reduced degradation rate, resulting in a 66.13% increase in fermentation yield compared to the unmodified strain. This invention solves the problems of degradation and unstable yield in the production of Brevicidine, provides an effective technical approach for the industrial production of Brevicidine, and provides important technical support for the development and application of novel antimicrobial peptide drugs.

The present application relates to a group of peptide compounds with antiviral activity, the structure of the peptide compound is shown in formula (1): the virus is a respiratory virus, especially influenza virus or coronavirus. The present application also relates to a gene cluster for biosynthesis of the peptide compound by microorganisms, the gene cluster is Streptomyces sp. CPCC 200451 genome chromosome 1:7,822,964-7,875,615, with a full length of 52.6 kb.

The present invention discloses an anti-inflammatory compound, its biosynthetic gene cluster, synthesis method and application, belonging to the technical field of genetic engineering. An anti-inflammatory compound is provided, and the chemical molecular formula of the anti-inflammatory compound is C<subgt;15< / subgt;H<subgt;22< / subgt;O<subgt;5< / subgt>, and the structural formula is shown in Formula I, named: phaseolinone B. The present invention first discloses the biosynthetic pathway of the anti-inflammatory compound phaseolinone B, laying an important foundation for realizing its green and efficient synthesis; this compound exhibits significant anti-inflammatory activity in the zebrafish Tg 3dpf tail amputation infection model, providing resources for discovering anti-inflammatory drug lead compounds.

The invention provides a method for rapidly detecting microbial species, and particularly, the method comprises the following steps: constructing a double-level database and a corresponding gene cluster; constructing a reference matrix X based on the database and the gene cluster; comparing to-be-detected third-generation sequencing data with the gene cluster to generate equivalence classes, and constructing a counting matrix Y based on the equivalence classes and the gene cluster; based on the counting matrix Y and the reference matrix X, determining the gene abundance in the to-be-detected sample; and determining microbial species in the sample to be detected based on the gene abundance. The rapid pathogen detection method provided by the invention is high in analysis speed, fully utilizes the advantages of the three-generation sequencing data, and can more directly obtain the microorganism composition information of the sample; the method is low in computing resource demand, easy to deploy and high in precision detection capability.

The application discloses a construction method of a multiplex PCR reaction system for detecting and identifying Podosphaera species and application thereof. The method comprises the following steps: obtaining whole genome sequences of multiple Podosphaera species, and performing multiple sequence alignment to obtain specific genes and specific gene clusters of each species; taking the genes in the specific gene clusters of each species as templates, designing multiple upstream primers and downstream primers according to a conventional primer design method to generate primer pairs, and excluding unreasonable primer pairs and primer pairs with low sensitivity and specificity; according to the size of the amplification products, the primers are freely combined and matched to generate four pairs of mixed multiplex primers, and the multiplex PCR reaction conditions are optimized to obtain a multiplex PCR system capable of specifically detecting Podosphaera and simultaneously identifying single and multiple species. The multiplex PCR method for detecting and identifying Podosphaera provided by the application can quickly and accurately complete the detection of Podosphaera and identify the species identity of Podosphaera.

The present application belongs to the field of biotechnology, and particularly relates to a biosynthesis gene cluster of fungal polyketide compounds and application thereof. The present application provides a heterologous expression method of an aspertaichunol compound biosynthesis gene combination, and a compound aspertaichunol B is obtained through the method, and a compound aspertaichunol A is prepared through acid hydrolysis of the aspertaichunol B, which has important significance for future research and development of an efficient biosynthesis method for preparing the aspertaichunol compound.

The present invention belongs to the field of marine biotechnology, and specifically relates to the application of a gene cluster in the rapid detection of Vibrio vulnificus and a primer probe set thereof. The primers are a set of primers corresponding to three gene loci, consisting of upstream and downstream primers and a probe primer; the upstream primer is shown in SEQ ID NO. 1; the downstream primer is shown in SEQ ID NO. 2; and the probe primer is shown in SEQ ID NO. 3. The present invention is aimed at the current detection of Vibrio vulnificus ( V. vulnificus ), corresponding RPA amplification detection primers were designed based on the three specific gene loci obtained through screening, and a strip RPA detection system and method for Vibrio vulnificus was established. This technology is of great value for on-site rapid screening and detection of Vibrio vulnificus in aquaculture, import and export trade, and bathing beaches, and has broad market application prospects.

The invention belongs to the technical field of streptococcus bovis identification. The invention provides an identification primer of a streptococcus bovis strain. A primer pair sequence is designed according to a conservative interval of a deoD gene and an rfbD gene. The sequences of the primer pair are as follows: deoD-F1 and rfbD-R1; the sequence information of the deoD-F1 is 5 '-TTCACAGAACTTACAAGGTCACCG-3', and the sequence information of the rfbD-R1 is 5 '-ATTTTTCACAACTGCTTTCTCACAA-3'. By adopting the primer pair disclosed by the invention, a polysaccharide synthesis gene cluster can be obtained and is used for identifying a streptococcus bovis strain, a specific probe can also be used for identifying the streptococcus bovis strain, and compared with a method for analyzing and identifying the strain by using whole genome sequencing, the method is simpler, quicker, low in cost and easy to popularize.

The present application belongs to the field of synthetic biology and functional food technology, and provides a swallowing safety-oriented xanthan gum directional biosynthesis method. In view of the problem that existing xanthan gum is difficult to reduce the risk of swallowing residue and aspiration by relying on viscosity regulation alone, a multi-dimensional evaluation system combining interfacial tribology and extensional rheology is established to determine the side chain modification parameters suitable for swallowing disorder food. By chromosome scarless reconstruction of xanthan gum synthesis gene cluster, the gumF 、 gumG gene is knocked out and the gumL promoter is replaced, an engineering strain without antibiotic resistance gene residue and with genetic stability is constructed, and directional synthesis of xanthan gum with specific side chain structure is realized. The obtained structure customized xanthan gum has a lower mucosal interfacial friction coefficient and a more optimal extensional rheological property, and can synergistically realize interfacial lubrication and bolus cohesion, significantly reducing the wall residue in the pharynx, and keeping the consistency stable in complex food matrix. The present application can provide a safe, stable and industrialized functional xanthan gum raw material for swallowing disorder food.