1232 results about "Gene sequence" patented technology

The invention provides a crop whole genome prediction method and system based on machine learning, and the method comprises the steps: firstly obtaining a gene expression data set of a target crop in a plurality of growth cycles, the gene expression data set containing a plurality of gene sequence samples composed of genetic markers and phenotypic character data; performing feature extraction on the gene expression data set to obtain gene association features and growth character features, performing fusion prediction on the gene association features and the growth character features by using a preset machine learning model to generate fusion prediction features, and determining a whole genome prediction result according to the fusion prediction features. The whole genome prediction result can indicate character expression trends of crops in different environments, and finally, an adaptability optimization strategy is generated based on the whole genome prediction result and fed back to a crop cultivation system, cultivation parameter adjustment is triggered, crop cultivation precision and intelligence are achieved, and the cultivation efficiency and crop adaptability are improved.

The invention provides a molecular marker for detecting pepper light mottle virus L-series resistance genes and application of the molecular marker, and belongs to the technical field of genetic engineering, the molecular marker comprises SNP1 and SNP2, the SNP1 is a base T at the 2574th site of a yellow lantern pepper genome sequence with the NCBI login number of AB523370, and the SNP2 is a base T at the 2832nd site of the yellow lantern pepper genome sequence with the NCBI login number of AB523370; the specific gene sequence is a specific gene sequence of an L-series resistance gene L1c type gene, and the specific gene sequence is a basic group CA at the 2872 site to the 2873 site, a basic group TT at the 2877 site to the 2878 site, a basic group TG at the 2882 site to the 2883 site and a basic group AGA at the 2885 site to the 2887 site of the yellow lantern pepper with the NCBI accession number being AB523374. By utilizing the molecular marker and the specific sequence, the L-series resistance gene types of the yellow lantern pepper and the annual pepper can be rapidly and accurately detected, and the molecular marker can be used for molecular marker-assisted selective breeding.

The invention relates to screening and application of a Candida antarctica lipase B mutant. Specifically, the Candida antarctica lipase B mutant provided by the invention is obtained by carrying out rational design and directed evolution combined strategy mutation on the basis of a wild Candida antarctica lipase B gene sequence, and the amino acid sequence of the mutant is shown as SEQ ID NO.3. The invention also relates to a preparation method of the Candida antarctica lipase B mutant. The mutant has higher enzyme activity and thermal stability, the hydrolytic catalytic activity of the mutant is improved to 2.1 times of the original hydrolytic catalytic activity, and the half-life period of the mutant enzyme at 50 DEG C is prolonged by 4 times. On the basis, pichia pastoris is used as a host to express the mutant, and a strain with hydrolytic activity improved by 52% is obtained through high resistance screening. The lipase is prepared into an immobilized enzyme to be used in a synthetic reaction of chlorogenic acid derivatives, the highest conversion rate of chlorogenic acid reaches 74% in 24 hours, and the immobilized enzyme has a good industrial application prospect.

The application provides a novel DNA methylation marker TAGMe-3 for tumor identification and use thereof. The TAGMe-3 gene sequence region has significant methylation difference between cancer tissues and paracancer tissues. As long as abnormal high methylation state of the TAGMe-3 gene sequence region is detected, the subject is determined to belong to a tumor high-risk population. Moreover, the significant difference of the TAGMe-3 presented between tumor tissues and non-tumor tissues exists in different types of tumors (Pan-cancer) in a wide range.

The present application relates to a virus of reverse genetic operation construction of NADC34-like PRRSV2. Specifically, the full gene sequence of NADC34-like PRRSV2 BJ1805-2 isolated strain is segmented and connected to the vector by using PCR amplification, enzyme digestion and other methods with pACY177 plasmid as the carrier, and the BJ1805-2 full-length infectious clone recombinant plasmid (rBJ1805-2) is obtained. The infectious clone virus rBJ1805-2 is rescued in vitro, and the first NADC34-like PRRSV2 strain infectious clone platform in China is successfully built. The present application also relates to a modification method for constructing NADC34-like PRRSV2 strain which can adapt to Marc-145 cell passage culture. The infectious clone virus constructed by the present application has good in vitro and in vivo proliferation efficiency, and can cause specific viremia after inoculation in pigs; it has good safety, does not cause fever after inoculation in pigs, and will not cause piglet death. The modified strain can be used as a candidate strain for developing the first NADC34-like PRRSV2 specific vaccine in China, and is conducive to the prevention and control of PRRSV epidemic in China.

The invention discloses L-arabinose isomerase, engineering bacteria and application, the amino acid sequence of the L-arabinose isomerase is shown as SEQ ID NO: 3, and the gene sequence for coding the L-arabinose isomerase is shown as SEQ ID NO: 2. On the basis of a genome of a Peribacillussp.S4 strain, a gene for coding the L-arabinose isomerase is excavated, and a stable prokaryotic expression system is constructed by performing codon optimization on the gene, so that the large-scale controllable production of the L-arabinose isomerase is realized, the yield of the enzyme is remarkably increased, the production cost of the enzyme is reduced, and the method is suitable for industrial production. A stable and economical enzyme source is provided for the production of D-tagatose; the L-arabinose isomerase expressed by the constructed engineering bacteria can significantly improve the yield of D-tagatose, and industrialization of D-tagatose is facilitated.

The invention discloses a bacillus thuringiensis L3 and an application thereof. The preservation number of the bacillus thuringiensis L3 is CCTCC (China Center for Type Culture Collection) NO: M 2025487. The gene sequence of the 16S rDNA of the bacillus thuringiensis L3 is as shown in SEQ ID NO: 1. Under different adversity stress conditions, the bacillus thuringiensis L3 shows a certain stress resistance potential. Research finds that the bacillus thuringiensis L3 has certain acid resistance, high temperature resistance, cholate resistance and drought resistance, and has strong alkali resistance.

The invention provides a subunit fusion protein RBD-Fc on the surface of a porcine D-type coronavirus and a preparation method and application thereof, the preparation method comprises the following steps: 1) cloning a gene sequence as shown in SEQ ID NO.5 into a eukaryotic expression vector to obtain a recombinant plasmid containing a fusion protein RBD-Fc coding gene; (2) transfecting a recombinant plasmid containing the fusion protein RBD-Fc coding gene into an expression cell; 3) culturing, screening and domesticating the expression cells in the step 2) to obtain a highly expressed cell strain; and 4) fermenting and culturing the cell strain in the step 3), and purifying to obtain the subunit fusion protein RBD-Fc. According to the present invention, the RBD-Fc can be subjected to mass soluble expression, the protein is stable, the problems that the porcine D-coronavirus surface S protein cannot be subjected to large-scale expression and the like in the prior art are solved, the preparation method is simple, and the cost is low.

The application discloses an NLR plug-in gene for improving plant disease resistance and application thereof, and belongs to the field of plant molecular biology and biotechnology.The NLR plug-in gene StEM1 has a whole gene sequence as shown in SEQ ID NO.1 and a CDS sequence as shown in SEQ ID NO.2, and the amino acid sequence of the encoded protein is as shown in SEQ ID NO.3.The gene plays a key role in improving plant disease resistance, especially resistance to field late blight variant bacteria.In the NLR background, overexpression of the gene significantly promotes the disease resistance of tobacco and potato to pathogenic pythium, and the gene is a gene for enhancing plant disease resistance by improving ETI immunity.Overexpression of the gene in the NLR background is obtained by a genetic transformation method, and a strain line is obtained to resist field variant strains, so as to cope with field diseases of crops.The application provides an excellent gene resource for green prevention and control of late blight and disease-resistant genetic engineering breeding.

The invention belongs to the technical field of essential gene prediction, and particularly relates to an essential gene prediction method based on DNA large model and time-frequency domain deep learning fusion, and the method comprises the steps: taking a domain DNA large model as a core representation layer, and obtaining special gene representation through cross-species corpus pre-training and task fine tuning; a T-Block and F-Block dual-channel time-frequency fusion structure is adopted, and the local dependence and long-range regulation relation of a gene sequence is synchronously captured by expanding DFT (Discrete Fourier Transform), complex value attention and iDFT (Initial Discrete Fourier Transform) conversion; designing an efficient modeling reasoning scheme of sliding window slices and gene-level aggregation aiming at an ultra-long sequence; in combination with class imbalance and a noise robust training strategy, cross-cell line / cross-platform transferable threshold output is realized through temperature scaling calibration, an uncertainty quantization and structured interface is matched, and drug target screening and experimental design decision are supported. The system supports the realization of multiple programming languages, and can complete low-delay end-to-end reasoning in a conventional hardware environment.

Processes that determine transcriptional regulation from genetic sequence data are described. Generally, computational models are trained to predict transcriptional regulatory effects, which can be used in several downstream applications. Various methods further develop research tools, develop and perform diagnostics, and treat individuals based on identified variants.

The invention provides a structure, a sequence and a construction method of a plant virus gene editing vector and application of the plant virus gene editing vector in plant gene editing. The method is characterized in that a TRV2 genome of a tobacco embrittlement virus (TRV) is used for carrying and expressing a small Cas gene AsCas12f and gRNA of the small Cas gene AsCas12f. Preferably, the AsCas12f and the gRNA of the AsCas12f are subjected to tandem expression by utilizing the TRV2 to form an expression cassette structure of the AsCas12f-tRNA-gRNA, the expression cassette substitutes a part of 2b gene sequence of the TRV2 on a TRV2 genome to form a plant gene editing vector pTRV2-Cas12f-gRNA based on the TRV virus, and long-time stable expression and gene editing can be performed after wild type nicotiana benthamiana is inoculated. The invention also provides a method for carrying out gene editing in a wild type plant by utilizing the plant virus.

The invention discloses a pCAMBIA1300-mini RNA3-BC-NLPPya vector as well as a construction method and application of the pCAMBIA1300-mini RNA3-BC-NLPPya vector in high cucumber mosaic virus resistance, the vector is characterized in that mini RNA3-BC-NLPPya is constructed to a pCAMBIA1300 vector skeleton, and the gene sequences of mini RNA3-BC and NLPPya are as shown in SEQ ID NO: 2 and SEQ ID NO: 5. The invention finds that the miniRNA3-BC-NLPPya can efficiently inhibit the infection of the CMV and effectively weaken the harm caused by the CMV, does not need to apply any medicine, is an efficient and green disease-resistant technology, and can provide a new strategy for preventing and controlling the cucumber mosaic virus and similar viruses thereof.

The invention provides a full-length gene sequence modeling method and system based on a neural network, and the method comprises the steps: constructing a first expression matrix for initial single-cell RNA sequencing data, and carrying out the quality control transformation of the first expression matrix to obtain a second expression matrix; inputting the second expression matrix into a preset binning embedding module to obtain a binning embedding matrix; maintaining and loading a gene pathway set through a knowledge base and a mapping module to obtain a binary mask matrix, and performing mask processing on the binning embedded matrix based on the binary mask matrix to obtain a pathway mask matrix; the path mask matrix is input into a preset attention state space model, the attention state space model comprises an encoder module, a jump connection module and a decoder module which are arranged in sequence, and a reconstruction tensor is output through the decoder module. According to the scheme, an efficient and extensible whole-gene annotation method is provided, and whole-gene expression input can be processed while the calculation efficiency is kept.

The invention discloses a gene sequencing sample data matching method based on a micro-fluidic chip, relates to the technical field of gene sequencing sample matching, and aims to solve the problem that the matching rate is reduced due to inaccurate analysis of gene sequencing samples. According to the method, multi-strategy comparison and candidate set screening are adopted, multi-dimensional comparison of sequences, variation and functions is combined, the accuracy is improved, the adaptability to complex samples is enhanced through quantitative index and biological verification evaluation and dynamic optimization of comparison strategies, the matching reliability and practical value are remarkably improved, the clinical and scientific research diversified requirements are met, and the method is worthy of popularization and application. Sample types such as blood and cells are adapted through a differential lysis strategy, impurities such as proteins and salts are removed through stepped purification, and the nucleic acid concentration and the fragment state are unified in combination with standardized treatment, so that interference is reduced from the source.

The present disclosure, in some aspects, relates to antisense oligonucleotides (ASO) for use in the prevention or treatment of a disease or a condition associated with low- density lipoprotein (LDL) in a subject. In some embodiments, the ASO effects site-directed adenosine-to-inosine (A-to-l) editing of a target adenosine in a target RNA sequence derived from a sequence of an endogenous low-density lipoprotein receptor (LDLR) gene such that: a) the modified LDLR protein has: (i) reduced binding to the inducible degrader of the LDLR protein (IDOL); (ii) increased stability; (iii) improved resistance to IDOL-mediated degradation; (iv) increased LDLR protein expression; and / or (v) increased activity or function to take up LDL; and / or b) editing of the 3'-untranslated region (UTR) of the target RNA leads to an increase in LDLR protein expression and / or stability.

The invention belongs to the technical field of gene editing, and particularly relates to optimized omega RNA and gene editing application thereof. According to the optimized omega RNA, base mutation is carried out on the basis of wild type omega RNA with a gene sequence shown as SEQ ID NO.1, and by taking the 5'end of the wild type omega RNA, the 36th paired base UA is replaced with GC, the 37th paired base UA is replaced with AU, the 38th paired base UG is replaced with AU, the 50th paired base UG is replaced with CG, and the 51st paired base UA is replaced with GC. Compared with wild type omega RNA, the omega RNA has the advantages that the maximum enhancement multiple of the insertion and deletion activity is 16.7 times, 15 pairs of paired bases from the 40th site to the 54th site of the omega RNA are further deleted, and the editing efficiency is further improved.

The invention discloses mRNA, an mRNA-LNP vaccine of the mRNA, a preparation method and application of the mRNA-LNP vaccine. The invention discloses an H5 subtype avian influenza virus vaccine, and aims to provide a vaccine which combines a mosaic sequence with an mRNA vaccine, achieves a good effect in an immune protection experiment of chickens, and can realize cross protection of branched strains of H5 subtype avian influenza virus 2.3. 4.4b and 2.3. 4.4 hours. According to the technical scheme, the nucleotide sequence of the mRNA is as shown in SEQ ID NO. 1; the nucleotide sequence of the mRNA is a Mosaic sequence which is obtained by designing a gene sequence of a 2.3. 4.4b branch strain of the avian influenza H5N6; the mRNA-LNP vaccine comprises mRNA (Messenger Ribonucleic Acid) with a nucleotide sequence as shown in SEQ ID NO. 1; belongs to the technical field of biology.

The invention relates to the technical field of gene engineering, in particular to an L-rhamnose isomerase mutant, a recombinant plasmid, a mutant strain and application. The amino acid sequence of the mutant is as shown in SEQ ID NO.4, and the nucleotide sequence of the coding gene is as shown in SEQ ID NO.3. A specific mutant gene sequence is designed, a recombinant plasmid pET28a (+)-L-Rhi is successfully constructed, the gene sequence is connected between enzyme cutting sites BamH I and Hind III of an escherichia coli expression vector pET-28a (+) to construct a mutant expression vector (the recombinant plasmid pET-28a (+)-L-Rhi), the mutant expression vector is transformed into an escherichia coli BL21 competent cell, a mutant strain is obtained, and the recombinant plasmid pET-28a (+)-L-Rhi is obtained. The obtained mutant strain can overexpress L-rhamnose isomerase, the conversion rate of D-allose is remarkably improved, the thermal stability of the enzyme is remarkably improved through the design of mutation sites, and the half-life period is effectively prolonged.

The invention relates to the technical field of gene sequencing, in particular to a silkworm gene sequencing path optimization system and method based on a hybrid parallel genetic algorithm. According to the technical scheme, the method comprises the steps of data preprocessing and feature modeling, hybrid parallel genetic algorithm optimization, dynamic path planning and resource allocation and multi-omics verification and result output. Reference is provided for assembling path planning by recognizing the repeated area, local optimum is avoided by means of the hybrid parallel genetic algorithm, efficient assembling of the high-complexity repeated area is achieved, standardization processing is carried out on data, errors caused by data differences are reduced, and the accuracy of assembling path planning is improved. The multi-omics feedback correction module integrates transcriptome and epigenetic data, corrects an assembly result and inhibits error accumulation, and meanwhile, based on deep Q network model reinforcement learning and a dynamic resource scheduling module, assembly strategies and resource allocation are dynamically adjusted, efficient utilization of computing resources is achieved, and resource waste is reduced.

The invention discloses a system for controllably inducing pyroptosis of tumor cells and application of the system. The system comprises a red light activated Cre recombinase system and an expression vector of a GSDMDNT gene sequence of loxP flanking; the Cre recombinase system comprises: (1) an expression vector 1 containing a photosensitive protein PhyA gene sequence and a CreN59 sequence, and a connecting peptide located between the PhyA gene sequence and the CreN59 sequence; (2) an expression vector 2 containing a nucleoplasm shuttle protein FHY1 gene sequence and a CreC60 sequence, and a connecting peptide located between the FHY1 gene sequence and the CreC60 sequence; and (3) phycocyanobilin is contained. The system disclosed by the invention can be used for artificially and controllably regulating and controlling the expression of the cytotoxic gene GSDMDNT, so that directional and controllable pyroptosis induction is realized. The method can be applied to the fields of tumor therapy, gene therapy, cell biology and the like, and particularly has a wide application prospect in application scenarios requiring accurate control of gene expression.

The invention discloses an antibacterial peptide PPI45 / PPI47 as well as a preparation method and application of the antibacterial peptide PPI45 / PPI47. According to the invention, fungal defensin Plectasin is used as a template, and the self-assembled antibacterial peptide PPI45 / PPI47 is designed. The expression of the self-assembled antibacterial peptide PPI45 / PPI47 in pichia pastoris is realized by optimizing the gene sequence of the antibacterial peptide and constructing a specific expression vector, a perfect purification system is established, large-scale production can be realized, and the self-assembled antibacterial peptide PPI45 / PPI47 can be applied to the fields of antibacterial drug development, hydrogel wound treatment and the like, and has wide application value and market prospect.

The invention relates to the technical field of gene engineering, in particular to an L-rhamnose isomerase mutant, a recombinant plasmid, a mutant strain and application. The amino acid sequence of the mutant is as shown in SEQ ID NO. 2, and the nucleotide sequence of the coding gene is as shown in SEQ ID NO. 1. A specific mutant gene sequence is designed, a recombinant plasmid pET28a (+)-L-Rhi is successfully constructed, the gene sequence is connected between enzyme cutting sites BamH I and Hind III of an escherichia coli expression vector pET-28a (+) to construct a mutant expression vector (the recombinant plasmid pET-28a (+)-L-Rhi), the mutant expression vector is transformed into an escherichia coli BL21 competent cell, a mutant strain is obtained, and the recombinant plasmid pET-28a (+)-L-Rhi is obtained. The obtained mutant strain can overexpress L-rhamnose isomerase, the conversion rate of D-allose is remarkably improved, the thermal stability of the enzyme is remarkably improved through the design of mutation sites, and the half-life period is effectively prolonged.

The invention belongs to the field of intelligent medical treatment, and particularly relates to a construction method of a virus single-gene host adaptability prediction model, equipment and a medium. The method comprises the steps that a training set virus single gene data set and a host tag are obtained, single genes in the virus single gene data set are sequentially encoded to obtain an encoding feature matrix set, and encoding comprises the steps that a sliding window method is used for traversing a gene sequence, frequencies of 64 different codons in a window form a window codon frequency vector, and the window codon frequency vector is used for encoding the host tag; representing a central codon of a window by using the window codon frequency vector, and representing each codon of a gene sequence as a window codon frequency vector in sequence; and inputting the coding feature matrix set into a residual network model to obtain a prediction label, and obtaining a single-gene host adaptability prediction model based on comparison iteration training of the prediction label and a host label. According to the method, the model capable of predicting the gene adaptability is obtained by training after the codon is represented, and the gene codon adaptability can be analyzed.

The invention provides a valine production strain and a construction method and application thereof, a designed acetohydroxy acid synthase mutant is that the 88th basic group of an ilvB gene is changed from a to c, the 382nd basic group is changed from a to g, the 413th basic group is changed from c to t, the gene sequence of a designed artificial operon comprises a promoter, an ilvB (A138V) gene or ilvB (Q30K, S128G, A138V) gene of coding mutated acetohydroxy acid synthase, and an ilvN (G20D, I21D, I21D, I21D, I21D, I21D, I21D, I21D) gene. I22F) gene, a pyk gene for coding pyruvate kinase, and a terminator; by designing a specific acetohydroxyacid synthase mutant and related biological materials and artificial operon, the strain constructed by directional modification of the strain by using a pK18mobsacB system gene editing technology based on allele exchange has the advantages of good genetic stability, high fermentation yield and the like, and valine can be stably produced.

The invention provides an engineered ketoreductase mutant, which comprises a polypeptide sequence, a gene sequence, a recombinant expression vector containing the gene, an engineering strain, a protein expression method of the engineering strain, and a reaction process for selectively synthesizing (R)-5, 7-difluorochroman-4-ol by using the engineered ketoreductase mutant.

The invention discloses an intelligent compression system and method for sequencing data, and relates to the field of intelligent compression, and the method comprises the steps: firstly obtaining a plurality of short gene sequences containing ID, Base and Quality data, and then carrying out compression processing on the to-be-stored DNA sequencing data. A short gene sequence to be compressed is matched with a spliced sequence, and if all Base data are successfully matched, direct compression is carried out; and if partial matching exists, splitting into a matched sequence and an unmatched sequence, and respectively compressing the matched sequence and the unmatched sequence. And for an unmatched sequence, further segmenting the unmatched sequence into a sub-sequence set, obtaining a refined subset based on sequence selection guided by population feature distribution, and finally carrying out compression coding on the refined subset. According to the method, the compression ratio is effectively improved, particularly when unmatched sequences are processed, redundant information is reduced through fine screening, the overall storage efficiency and the data retrieval speed are improved, and the effective mining capacity for long-range redundancy is further enhanced.

The invention discloses a crop ralstonia solanacearum disease prediction method based on an integrated learning model, and the method comprises the following steps: S1, collecting a published 16s rRNA gene sequence related to solanaceae crop bacterial wilt, and carrying out the preprocessing of original sequencing data based on an EasyAmplicon standardized process; s2, performing data dimension reduction by using a principal component analysis algorithm, and retaining 95% of variance; s3, performing hyper-parameter search based on 5-fold cross validation and grid search on the Light GBM model, the CatBoost model and the XGBoost model respectively, and selecting three groups of optimal hyper-parameters of each model; s4, constructing a model according to three groups of optimal hyper-parameters of each selected model, performing prediction, analyzing model result difference based on a Pearson correlation coefficient, and retaining Pearson correlation coefficient mean < lt > with other eight model prediction values; a model of 0.8; and S5, inputting the screened model prediction result into a second-layer element learner RF for integrated learning to obtain a final prediction result.

The invention relates to a recombinant expression cat interferon-omega gene and a preparation method and application thereof, the nucleotide sequence of the cat interferon-omega gene is as shown in SEQ ID NO.1, and the cat interferon-omega gene is obtained by introducing an Fc fusion fragment to the C terminal and / or N terminal of the natural gene sequence of the cat interferon-omega. XTEN or PAS is introduced to prolong a peptide fragment, and original glycosylation modification sites on a natural sequence are reserved. The method comprises the following steps: cloning a cat interferon-omega gene into an expression vector containing double promoters, further transfecting into a cell, carrying out stable cloning and screening, establishing a high-expression cell strain, and carrying out fermentation culture in a bioreactor. According to the invention, the cat interferon-omega gene is subjected to multiple modification and is efficiently expressed in a CHO-K1GS system, so that the protein yield, the stability and the half-life period are remarkably improved; the obtained fusion protein is high in purity and strong in activity, can obviously enhance immune response and protection effect when being matched with cat vaccines, and is good in safety.

The invention provides an in-vitro cell-free protein synthesis system for inserting non-natural amino acid. The reaction system comprises: (1) a yeast cell extract; (2) non-natural amino acids; (3) an exogenous orthogonal aminoacyl tRNA synthetase / orthogonal tRNA pair; (4) a template containing a target protein gene sequence, wherein a codon for coding at least one amino acid in the target protein gene sequence is mutated into a termination codon; by adopting the reaction system, the insertion efficiency of the non-natural amino acid and the expression quantity of the non-natural amino acid protein can be improved.