28 results about "Gene mining" patented technology

The invention provides a halohydrin dehalogenase mutant and an application of the halohydrin dehalogenase mutant in synthesis of a chiral gamma-amino alcohol compound. Halogenated alcohol dehalogenase mutants enabling 2-substituted oxetane to be subjected to ring opening are obtained through the technologies of gene mining, directed evolution and the like, and the enzymes can directly perform ring opening on a substrate 2-aryl oxetane under the action of a nucleophilic reagent to generate a series of chiral gamma-amino alcohol compounds which are important precursors for synthesizing drugs. Therefore, the halohydrin dehalogenase mutants have important application value in the industry.

The invention relates to the technical field of microbial directional cultivation, in particular to a gene editing-based MICP functional bacteria directional cultivation method and system, and the method comprises the following steps: obtaining an original strain library with MICP activity, carrying out strain activation on the original strain library, carrying out high-throughput sequencing on the original strain library, and carrying out gene mining on an initial sequence; the method comprises the following steps: carrying out gene editing on strains in an initial strain library by using a gene editing tool, carrying out shake-flask activation on engineered candidate strains to obtain an activated recombinant bacterium solution, carrying out high-density culture on the activated recombinant bacterium solution by using a pre-constructed fermentation tank, screening out an MICP strain with the optimal function, carrying out continuous passage bacterium function detection on the optimal MICP strain, and carrying out high-density culture on the MICP strain with the optimal function. And based on the MICP functional bacteria, finishing directional cultivation of the MICP functional bacteria based on gene editing. According to the invention, directional cultivation of the MICP functional bacteria is efficiently realized by accurately targeting the key gene with the MICP function, and the MICP functional bacteria are corrected when the problems of function instability and the like exist, so that the more stable MICP functional bacteria are obtained.

The invention discloses a molecular marker closely linked with a thin-skinned muskmelon bacterial fruit blotch resistance gene and application thereof, and belongs to the field of muskmelon disease resistance identification. According to the method, a disease-resistant muskmelon strain and a susceptible muskmelon strain are subjected to interspecific hybridization, genetic analysis is carried out on BFB-resistant characters of muskmelons by utilizing an F2 group, a high-resistance gene pool and a high-susceptibility gene pool are constructed on the basis, and resistance candidate genes of the muskmelons are mined by utilizing a BSA-seq technology and a molecular marker technology. Research results can provide a research basis for disease resistance character gene mining and mechanism research, and the method has important scientific significance for screening and application of muskmelon disease-resistant germplasm resources. The molecular marker KASP988272 is developed according to the genotype difference between candidate gene parents, and the genotype identification accuracy of the molecular marker in an F2 group is as high as 80%. The developed molecular marker closely linked with the bacterial fruit blotch resistant gene is used for rapidly and efficiently identifying the bacterial fruit blotch resistant thin-skinned muskmelon variety, and a technical support is provided for selection of the bacterial fruit blotch resistant thin-skinned muskmelon variety.

The invention provides a larch pine caterpillar resistance gene mining method based on GWAS and multi-omics data, and belongs to the technical field of gene mining. The method comprises the following steps: S1, carrying out insect-resistant phenotype identification on larch individuals, and carrying out variation identification on the larch individuals based on a liquid-phase gene chip sequencing technology; s2, using a mixed linear model to perform correlation analysis by taking a plot position and phenotype observation time as an interaction environment, taking population density at different observation time as a covariable and taking a larch anti-deciduous pine caterpillar index as a phenotype, and identifying a candidate QTL region; and S3, carrying out transcriptome sequencing on resistance extreme individuals, carrying out variation recognition, comparing read segments to the candidate QTL region, and manually analyzing and annotating a gene structure in the QTL region by using IGV. According to the method disclosed by the invention, low-cost variation recognition, environment noise weakening whole genome association analysis and gene structure accurate annotation on complex genome species are realized.

This invention discloses a method for microbial association gene mining that combines whole-genome sequencing and metagenomic sequencing, specifically relating to the field of bioinformatics data processing technology. The method includes acquiring host whole-genome sequencing data, metagenomic sequencing data, and sample attribute data of a target population. Within an industrial cloud computing environment, it performs biallelic locus extraction, genotype quality control, calculation of the relative abundance of the target microorganism, and resolution of fixed terms and principal component terms, outputting a locus table, abundance table, fixed term table, and principal component term table. By performing inclusion and removal comparisons on each fixed term and principal component term, the method resolves the association differences of the same host locus under different covariate compositions, determines the dominant terms accordingly, and then combines gene annotation to screen out conditionally dominant loci and candidate genes.

This invention discloses a method for wheat grain quality detection and functional gene analysis based on hyperspectral imaging technology, belonging to the field of agricultural testing technology. The method includes: extracting hyperspectral indices; measuring wheat grain quality indicators as manual measurements; assigning weight coefficients to each quality indicator to digitize the wheat quality phenotype; extracting characteristic wavelengths to establish predictive models for each indicator and wheat quality values; performing GWAS on hyperspectral indices and chemical indicators as phenotypic traits with genotypes to screen SNP loci, conduct co-location analysis, obtain candidate genes, and perform functional verification. This invention, through hyperspectral technology combined with chemometric modeling, is suitable for real-time monitoring during wheat quality breeding and processing; by combining spectral phenotype with GWAS gene mining, it overcomes the limitations of traditional quality detection that only serves phenotypic screening, forming a closed loop of "non-destructive detection - gene localization," providing targeted genes for wheat quality improvement.

The invention discloses a wheat grain quality detection and functional gene analysis method based on a hyperspectral imaging technology, and belongs to the technical field of agricultural detection. The method comprises the following steps: extracting a hyperspectral index; determining a wheat grain quality index as an artificial measurement value; a weight coefficient is given to each quality index, and the wheat quality phenotype is digitalized; extracting a characteristic wavelength, and establishing a prediction model of each index and a wheat quality value; gWAS, SNP site screening and co-localization analysis are performed on the hyper-spectral index and the chemical index as phenotypic characters and genotypes respectively, and candidate genes are obtained and subjected to functional verification. The method combines a hyperspectral technology with chemometrics modeling, and is suitable for real-time monitoring in wheat quality breeding and processing processes; the spectrum phenotype is combined with GWAS gene mining, the limitation that traditional quality detection only serves phenotype screening is broken through, a'nondestructive testing-gene positioning 'closed loop is formed, and a target gene is provided for wheat quality improvement.

The invention relates to a dactylicapnos root O-methyltransferase DsOMT018 gene and application thereof, and belongs to the technical field of biology. The nucleotide sequence of the DsOMT018 gene is shown as SEQ ID NO.1, the amino acid sequence of the encoded protein of the DsOMT018 gene is shown as SEQ ID NO.2, and the DsOMT018 gene can be used for preparing isocorydine and corydine. The separation and identification of the DsOMT018 not only breaks through the technical bottleneck of non-model plant gene mining, but also provides a new normal form for sustainable manufacturing of high-added-value alkaloids through full-chain innovation of'precise catalysis-metabolic network-green production '. The advantages of the isocorydine and corydine in synthesis of isocorydine and corydine can promote the leap-wise development of the fields of natural medicine development and synthetic biology.

The invention discloses a tNGS-based intestinal flora detection method, a kit and application thereof, and belongs to the technical field of gene detection. According to the method, firstly, the intestinal flora containing functional genes is obtained through gene mining, then a large number of primers aiming at specific sequences of the intestinal flora are designed, and the primers can be specifically combined with target nucleic acid fragments in a to-be-detected sample. Through multiple rounds of PCR amplification and large-scale sequencing by using a high-throughput sequencing technology (NGS), a specific gene sequence contained in a sample can be accurately identified, so that the variety, abundance and related functional gene information of donor or receptor intestinal microorganisms are deduced, detailed analysis of donor or receptor intestinal flora is realized, and the method has the advantages of high specificity, high specificity, high sensitivity and the like. And a basis is provided for evaluating the flora disorder degree of the donor and the receptor and matching the donor and the receptor.

The invention discloses a grass carp high-density whole genome 50K SNP (Single Nucleotide Polymorphism) chip and application thereof. Genetic typing objects of the chip comprise 49 and 635 SNP sites on the whole genome of the grass carp, the SNP sites cover 23835 genes of the grass carp, and the positions and genotypes of the SNP sites on the genome (PRJNA1368393) of the grass carp are shown in the specification table 1. The SNP is derived from re-sequencing results of 351 samples, is rich in gene region sites, high in typing accuracy and high in repeatability, is an accurate and efficient molecular breeding chip, can be widely applied to application scenes of grass carp germplasm resource identification, genetic diversity evaluation, target character gene mining and whole genome selective breeding, and has a wide application prospect. The method has the advantage of low detection cost and is beneficial to further improving the grass carp breeding efficiency.

The invention provides a big language model and multi-modal data-based complex character gene mining method and system, and belongs to the technical field of gene data analysis, the method comprises the following steps: obtaining a statistical data set containing multi-modal data of different bean populations; annotating all genes in the statistical data set based on a reference genome to obtain a whole genome semantic map; if the large language model receives a site of a target significance character, calculating a comprehensive score of each gene at the site by using the large language model based on the whole genome semantic map and the site, and determining a complex character gene based on the comprehensive score of each gene; and if the large language model does not receive the locus of the target saliency character, determining candidate genes by using the large language model based on the target saliency character, and determining complex character genes from the candidate genes by using the large language model based on the whole genome semantic map. According to the invention, the most essential gene influencing the target significance character can be positioned.

The invention discloses a fatty acid metabolism regulation gene mining method based on transcriptome data driving, a FindGene platform developed by the invention can efficiently integrate and standardize large-scale RNA-Seq data, systematic mining function related genes are analyzed through a weighted gene co-expression network, and the gene mining efficiency is improved. The limitation of dependence on small-scale experiments and manual screening in the past is broken through, and the efficiency and accuracy of key regulation gene screening are greatly improved. According to the schizosaccharomyces cerevisiae engineering strain QH-7 constructed by carrying out site-directed mutagenesis, overexpression and combined transformation on a key gene obtained by screening, the yield of fatty acid reaches 2.12 g / L and is increased by about 118.6% compared with that of a wild strain, and the biosynthesis efficiency of the fatty acid is greatly improved. According to the modified strain, the total fatty acid content is increased, meanwhile, the proportion of unsaturated fatty acids (C16: 1, C18: 1 and C18: 2) is remarkably increased, and the requirements for high-quality lipid raw materials in the fields of downstream biofuels, nutritional supplements and the like are met.

The invention belongs to the technical field of plant biotechnology and molecular breeding, and relates to a ginseng 40K SNP liquid phase breeding chip and application thereof, the chip comprises 41684 SNP sites which are positioned on 24 chromosomes of a ginseng T2T reference genome (v2024), and the ginseng 40K SNP liquid phase breeding chip has the advantages of uniform site distribution, good representativeness, strong specificity and high polymorphism. The application range of the chip covers genetic diversity analysis of ginseng germplasm resources, population structure analysis, heredity and evolution analysis, genetic relationship identification, whole genome association analysis, genome selection and other molecular breeding related researches, the chip is developed based on a high-throughput sequencing technology, the detection throughput is high, detection of nearly thousands of materials can be covered at the same time, and the application range is wide. The method provided by the invention is suitable for mainstream second-generation sequencing platforms such as Illu mina and MGI, is simple, convenient and rapid to operate, provides key technical support for genetic resource innovation, excellent gene mining and precise molecular breeding of the ginseng, assists in cultivation of high-quality, high-yield and stress-resistant new varieties of the ginseng, and improves the core competitiveness of the ginseng industry.

This invention utilizes gene mining technology, random mutation, and other methods to... Schistosoma mansoni The indole monooxygenase source was modified to obtain a mutant with a high yield of DL-2-amino-3-(5-hydroxyindole)propionic acid. The recombinant vector constructed from the mutant and the recombinant genetically engineered bacteria were then used to produce DL-2-amino-3-(5-hydroxyindole)propionic acid via fermentation, resulting in a significantly increased yield, 1.5-5.2 times that of the starting strain. Therefore, this invention provides a method for producing DL-2-amino-3-(5-hydroxyindole)propionic acid that offers advantages such as mild reaction conditions, simple operation, short production cycle, environmental friendliness, and reduced production costs.

The invention discloses an interpretable crop genome prediction deep learning model, puts forward a deep learning framework Cropform, fuses a convolutional neural network (CNN) and a multi-head self-attention mechanism, constructs a technical scheme integrating phenotype prediction and gene mining, automatically extracts local features of genome data through the CNN, and provides an explainable crop genome prediction deep learning model. In combination with a multi-head self-attention mechanism, global association among features is captured to realize high-precision prediction of complex phenotypes, and the prediction accuracy is maximally improved by 7.5% compared with CropGBM, DEM and the like. Key SNPs and genes can be accurately positioned through attention weight and SHAP value analysis, a genetic variation mechanism is disclosed, and multi-modal data fusion of SNP, InDel, gene expression and the like is supported to further improve performance. In order to improve practicability and convenience, the Cropform provides a free online network server. According to the method, the black box limitation of a traditional deep learning model is broken through, analysis of gene-phenotype association is assisted, and an efficient tool is provided for crop genome design and breeding.

The application discloses a rice drought-resistant phenotype analysis method based on multi-task deep learning, relates to the technical field of crop phenotype analysis, computer vision and artificial intelligence, and specifically comprises the following steps: acquiring multi-time-phase RGB images of rice by using a high-throughput platform; extracting features by using a visual Transformer model; constructing color and morphological physiological branches and decoupling; constructing a physiological space based on agronomic traits and projecting features; constructing a multi-task network to optimize features; applying time sequence constraints to optimize features; and finally identifying drought-resistant genetic loci through whole-genome association analysis, realizing a closed loop of phenotype analysis and gene mining; by integrating multi-view images, deep feature decoupling and physiological space alignment technologies, the application constructs a multi-task framework, accurately separates color and morphological changes caused by drought, and improves the comprehensiveness of phenotype analysis; dynamic features are optimized in combination with time sequence constraints, and phenotype-genotype correlation is strengthened through whole-genome association analysis, so that the efficiency of drought-resistant genetic loci mining is significantly improved.

The application provides a SNP site combination for largemouth bass genotyping and application thereof. The SNP site combination comprises 50000 SNP sites, and the positions and base information of the 50000 SNP sites on chromosomes are shown in Table 3. The whole genome liquid phase chip of largemouth bass provided by the application can quickly and accurately detect the genotype of a sample to be detected, the average detection rate of the SNP sites and the average consistency rate of the sample genotypes are as high as 99.95%, and the whole genome liquid phase chip of largemouth bass has the characteristics of high capture specificity, low cost, flexible sites and the like, is suitable for trait selection and improvement, gene mining, kinship identification, genetic diversity analysis and the like of largemouth bass, and can effectively improve the selection efficiency and precision of a good strain of largemouth bass, and is favorable for cultivating a new variety of largemouth bass which is more suitable for market demand and more competitive.

The invention belongs to the technical field of biological catalysis, and particularly relates to a method for catalyzing hydrolysis of oxetane by using a series of epoxy hydrolase. According to the method, epoxy hydrolase in 23 databases is mined and represented through the technologies of gene mining, heterologous expression and the like, and it is determined that epoxy hydrolase and the like from metagenome DNA (Deoxyribonucleic Acid), Rhodococcus erythropolis, Rhodococcus subtilis, Actinomadura namibiensis and Rhodococcus aureus are adopted as catalytic enzymes, and the catalytic enzymes are used for catalyzing 2-phenyl oxetane to generate (S)-1-phenyl-1, 3-propylene glycol, so that the 2-phenyl oxetane can be used for catalyzing 2-phenyl oxetane to generate (S)-1-phenyl-1, 3-propylene glycol, and the application of the 2-phenyl oxetane to prepare the (S)-1-phenyl-1, 3-propylene glycol and the application of the 2-phenyl oxetane to prepare the (S)-1, 3-propylene glycol.

The invention discloses a 4K liquid-phase gene chip for wild wheat and cultivated wheat and application of the 4K liquid-phase gene chip in breeding, and belongs to the technical field of liquid-phase chips. The chip is developed based on a targeted capture sequencing technology, 4252 specific target gene sequences are screened out by comparing a wild wheat TA299 genome, a cultivated wheat PI306540 genome and a TA10622 genome with a common hexaploid wheat genome, and the specific target gene sequences comprise 70 wild specific gene sequences, 55 specific cultivation gene sequences and co-holding sites of the wild specific gene sequences and the cultivated specific gene sequences. A biotin-modified probe is designed according to the principles of 110bp length, 30-80% GC content and the like, and the chip is prepared after the probe is coupled with fluorescent microspheres. The method can accurately distinguish different wheat genomes, is uniform in coverage, can be used for distant hybridization derivative material identification, blood relationship analysis, QTL positioning, molecular assisted breeding and other scenes, realizes localization of detection, and accelerates excellent gene mining and variety improvement processes.

The invention discloses an all-carbon macrocyclic polyketone compound Akaeolide as well as a biosynthetic gene cluster and application of the all-carbon macrocyclic polyketone compound Akaeolide. The biosynthetic gene cluster of AKA comprises eight genes. All AKA-containing biosynthesis-related genes, protein information and specific functions of each protein provided by the invention can help people to understand the biosynthesis mechanism of all-carbon macrocyclic polyketone natural products. In addition, heterologous expression and engineering modification of the molecules are realized by utilizing BAC plasmids, and materials and knowledge are provided for further genetic modification. The gene and the protein provided by the invention can provide targets for subsequent gene mining.

The present application provides an aralkylamine N - Acetyltransferase mutants and their use in the synthesis N - Acetyl-5-hydroxytryptamine. The present application obtains a series of mutants with N - acetylation activity through gene mining, directed evolution, etc. These mutants can directly acetylate the substrate 5-hydroxytryptamine to generate N - acetyl-5-hydroxytryptamine. Therefore, these aralkylamines N - acetyltransferase mutants have important application value in industry.

The invention discloses a bacillus subtilis gene expression regulation and control tool based on an I-F3 type CRISPR (clustered regularly interspaced short palindromic repeats) system, and belongs to the field of gene engineering. The CRISPRi inhibition capability of a VchQCas system derived from Vibrio cholera in bacillus subtilis WS9C is verified through expression optimization, and a VcaQCas system with high CRISPRi regulation and control efficiency and PAM broad-spectrum property is identified and obtained from QCascade systems of eight types of I-F3 on the basis of bioinformatics methods such as gene mining and CRISPR element prediction. And then, the targeting preference of the system in the bacillus subtilis WS9C and the PAM suitability are analyzed in detail. The bacillus subtilis provided by the invention provides a new gene expression regulation strategy as a foreign protein expression host, and also provides reference for site selection of gene regulation.

The invention belongs to the field of biology, and particularly relates to a rhododendron molle heat shock protein RmHSP20-1 gene and application thereof. The rhododendron molle small heat shock protein RmHSP20-1 gene participates in response of rhododendron molle to high-temperature stress, and can be used for screening high-temperature tolerance germplasm of the rhododendron molle and evaluating the high-temperature tolerance of the rhododendron molle. Candidate genes are provided for cultivation of Rhododendron molle anti-heavy metal, salt, high and low temperature stress and other related varieties. The gene can also be used as an important gene resource, is applied to stress resistance and heavy metal stress resistance gene engineering of other plants or microorganisms except rhododendron molle, and provides a new candidate gene resource for cultivating transgenic plants or microorganisms with excellent characters of heavy metal resistance, salt resistance, high and low temperature stress resistance and the like. And an important reference is provided for mining of the heat-resistant gene of the azaleaceae plant.

The invention relates to the technical field of sweet potato breeding, in particular to a method for creating tetraploid and pentaploid new germplasm containing wild germplasm Xu potato 18, which comprises the following steps: by taking a hexaploid sweet potato variety Xu potato 18 (2n = 6x = 90) as a female parent and a diploid related wild variety Ipomoea trifida (2n = 2x = 30) as a male parent, carrying out Brazil morning glory grafting and short-day treatment to induce flowering, and then controlling pollination hybridization to obtain a tetraploid hybrid F1; backcrossing the tetraploid serving as a female parent with Xu potato 18 to obtain a pentaploid new germplasm; chromosome ploidy is identified through a cytological method, hybrid authenticity is verified through SSR molecular markers, and new germplasm characteristics are analyzed and evaluated in combination with phenotypic character investigation and rooting characteristic analysis; the novel pentaploid germplasm carrying exogenous genetic materials is successfully created, the genetic background of sweet potato cultivated varieties is effectively widened, valuable bridge germplasm is provided, and a reliable technical scheme and germplasm support are provided for sweet potato variety improvement and excavation and utilization of excellent genes of related wild species.

The invention discloses an efficient and rapid whole genome association analysis method based on a multi-site mixed model, and belongs to the field of plant and human disease gene mining, the method comprises the following steps: step 1, constructing a single-site mixed linear model, and determining candidate single nucleotide polymorphism sites potentially associated with target traits; step 2, constructing a multi-site mixed linear model by utilizing the obtained candidate single nucleotide polymorphic sites to determine a remarkably associated QTN (Quantitative Trait Networks); 3, determining the obtained SNP with the corrected P value smaller than or equal to the threshold value as the QTN significantly associated with the target character, and outputting the QTN. According to the method, unit point scanning and multi-site mixed model construction are integrated, so that rapid correlation analysis of a large-scale high-dimensional data set is realized, the calculation efficiency and the statistical effect of QTN detection are optimized, and the calculation speed and the detection robustness are balanced.

The invention belongs to the technical field of biology, and discloses an olefin reductase mutant and application thereof in catalytic synthesis of a sacubitril intermediate. According to the invention, olefin reductase derived from Clavisporaaluitaniae is modified through methods such as a gene mining technology, molecular docking, rational and semi-rational design, site-specific mutagenesis and the like, so that a mutant with relatively high yield aiming at the key intermediate of sacubitril is obtained. The sacubitril key intermediate is produced from a recombinant vector and recombinant genetically engineered bacteria constructed by the mutant in a whole-cell catalysis and pure enzyme catalysis mode, and the yield is remarkably improved and is 1.2-3 times that of an original strain. Therefore, the method for producing the sacubitril intermediate, provided by the invention, has the advantages of mild reaction conditions, simplicity in operation, short production period, environmental friendliness, reduction of production cost and the like.

The invention belongs to the technical field of enzyme catalysis, and particularly relates to formate dehydrogenase and application of a mutant thereof in carbon dioxide reduction. According to the present invention, the ArFDH derived from the Ancylobacter rudongensis is obtained through the gene mining, and the ArFDH derived from the Ancylobacter rudongensis is obtained; the purified protein of the enzyme is successfully obtained through the steps of codon optimization, gene synthesis, gene cloning, expression purification and the like. The enzyme activity of the recombinant ArFDH reaches 46.06 U / g, which is 1.55 times higher than that of the template enzyme TsFDH with the highest activity reported. Compared with a wild type ArFDH, the mutant I123F / D222M has the advantages that the catalytic efficiency on HCO3 <-> / CO2 is improved by 6.69 times, the substrate catalytic efficiency of enzyme is integrally improved, and the substrate specificity is enhanced. The invention not only provides a new way for catalyzing and utilizing CO2 through a biological enzyme method, but also lays a foundation stone for constructing sustainable artificial carbon cycle.

This invention belongs to the field of bioinformatics, specifically relating to a quantitative trait multilocus oscillatory search genome-wide association analysis (GMO) system and method. This invention provides a method for performing GMO analysis using a quantitative trait multilocus oscillatory search genome-wide association analysis system. The method aims to identify SNP loci (PseQTNs) associated with specific phenotypes, and includes the following steps: S1 Data preparation: preparing SNP matrix files and phenotype matrix files; S2 Data preprocessing: removing duplicates from the entered SNP matrix and standardizing it column-wise, and standardizing the phenotype matrix column-wise; S3 Association analysis: using an oscillatory search strategy, screening out phenotype-associated SNP loci (PseQTNs) from the SNP matrix. This invention has significant and practical application value in the mining of genes related to important traits in plants and animals, and in the mining of genes related to complex human diseases.