35 results about "Genomic screening" patented technology

The invention discloses a construction method and application of a pathogenic microorganism genome database. The method comprises the steps of genome acquisition, genome screening, target region grabbing, strain verification, target region sequence clustering, redundancy elimination and database merging. The construction method of the pathogenic microorganism genome database is suitable for targeted high-throughput sequencing, and the corresponding amplification relationship between the primer and the corresponding microorganism genome sequence is obtained through the operations of screening, filtering, simulation amplification and the like on pathogenic microorganism genome data; the risk of wrong identification of pathogenic species can be reduced by constraining the corresponding relationship.

An ensemble of predictive models that elucidate how cancer mutations impact the response to common replication stress-inducing (RSi) agents. The models implement recent advances in deep learning to facilitate multi-drug prediction and mechanistic interpretation. Initial studies in tumor cells identify 41 molecular assemblies that integrate alterations in hundreds of genes for accurate drug response prediction. These cover roles in transcription, repair, cell-cycle checkpoints, and growth signaling, of which 30 are shown by loss-of-function genetic screens to regulate drug sensitivity or replication restart. The model translates to cisplatin-treated cervical cancer patients, highlighting an RTK (receptor tyrosine kinase)-JAK-STAT assembly governing resistance. This invention defines a compendium of mechanisms by which mutations affect therapeutic responses, with implications for precision medicine.

The invention relates to the technical field of biology, in particular to a primer combination for identifying Leyping spotted pigs and an identification method of the primer combination, six specific SNP molecular markers (SNP1-SNP6) are obtained through whole genome screening, six pairs of specific PCR primers are designed and developed on the basis of the sites, the nucleotide sequences of the primers are shown as SEQ ID NO.1-12, and the primer combination is used for identifying the Leyping spotted pigs. And when the genotypes of the to-be-detected sample at the SNP1-SNP6 sites are CC, TT, TT, AA, CC and GG respectively, the to-be-detected sample can be confirmed as a purebred individual of the Licping spotted pig. Compared with a traditional phenotype identification method, the molecular marker detection system established by the invention has the advantages of high detection efficiency, good accuracy and flux. The technical scheme provided by the invention provides important technical support for genetic resource conservation, variety purity identification and genetic improvement of the Leyping spotted pigs, and has remarkable application value in the field of livestock breeding.

The invention discloses a rape grain weight regulation gene NGAL3 based on whole genome screening and a breeding application thereof, based on the seed size and grain weight phenotypic value of a cabbage type rape germplasm resource, a candidate gene interval is positioned by using GWAS; the method comprises the following steps: selecting large-grain-weight and small-grain-weight extreme phenotypic materials, performing transcriptome sequencing in a critical period of seed development, and screening differential expression genes; and performing cross comparison on the GWAS candidate gene and the differential expression gene to obtain a key gene for jointly regulating and controlling the size and the grain weight of the seed, and performing functional verification on the key gene. The thousand seed weights of the created homozygous three mutant strains L1-sg1-1-4-5 and L2-sg1-4-8-16 are obviously increased by 46% and 29% compared with those of the wild type strains. The invention provides a new target for high-yield rape breeding, and non-transgenic high-grain-weight germplasm can be created through gene editing or beneficial allelic variation of NGAL3 is selected and enriched under the assistance of molecular markers.

The invention discloses a molecular specific marker for identifying genetic sex of culter alburnus and application of the molecular specific marker, and relates to the technical field of animal molecular genetics. The specific preparation method comprises the following steps: firstly, extracting culter alburnus genome DNA; then screening by utilizing the genomic DNA of the culter alburnus to obtain a culter alburnus genetic sex molecule specific marker; the method comprises the following steps: designing a primer according to a culter alburnus genetic sex molecule specific marker, and amplifying a culter alburnus genome sample to be detected; if the PCR amplification product is a single bright specific band, the individual is a female individual, and if the PCR amplification product has two bands, the individual is a male individual. The genetic sex of the culter alburnus can be quickly and accurately identified by utilizing the method, so that the method has important scientific value on the research on the sex mechanism of the culter alburnus, and has important significance and application value on the sex control and selective breeding of the culter alburnus.

This invention discloses a method for rapidly detecting conventional and hybrid varieties of industrial chili peppers and its application, relating to the field of molecular breeding technology. The method includes: extracting DNA from fresh leaves of the industrial chili pepper to be tested and performing whole-genome resequencing at a sequencing depth of 8×–12×; aligning the sequencing data to the chili pepper reference genome (Capsicum chinense cv. 'PBC932') to screen for high-quality heterozygous SNP loci; using a 1 Mb sliding window to statistically analyze the distribution density of heterozygous SNPs across the entire genome; and determining the variety type based on density thresholds: an average density <300 SNPs / Mb indicates a conventional variety, and >2000 SNPs / Mb indicates a hybrid variety. This invention eliminates the need for phenotypic observation in subsequent generations, requiring only leaves from current-generation plants to rapidly and accurately distinguish conventional and hybrid varieties at the molecular level. It features a short detection cycle, objective and reliable results, and is not limited by the number of molecular markers, providing strong technical support for efficient identification and early screening of industrial chili pepper germplasm resources.

Disclosed is a method coupling automated microscopy imaging with a deep neural network and computational modeling to classify distinct drug-induced nucleolar morphology changes with high accuracy and link them to nucleolar dysfunction. As such, this method can enable high-throughput characterization of nucleolar and other condensate phase behavior changes in chemical or genetic screens, directly linking condensate morphology changes to its physical mechanism of action for the first time.

The present invention discloses a SNP molecular marker associated with upland cotton linolenic acid and its application. The SNP molecular marker is at least one of the nucleotide sequences shown in SEQ ID NO.1-SEQ ID NO.28, and the SNP molecular site mutates at the 51st bp of the sequence. The SNP molecular marker associated with upland cotton linolenic acid provided by the present invention can be used for early prediction and screening of cotton linolenic acid traits. It is directly expressed in the form of DNA and can be detected in various tissues and developmental stages of cotton. It is not restricted by season, environment, or expression; it is neutral and does not affect the expression of target traits; SNP is suitable for rapid and large-scale screening. In genomic screening, SNPs often only require + / - analysis without analyzing the length of the fragment, which is conducive to the development of automated technology to screen or detect SNPs.

The invention discloses a method for identifying the purity of a coconut strain. The method comprises the following steps: collecting DNA of a target sample; constructing a DNA library of the target sample, and performing whole genome re-sequencing; filtering data in the DNA library to obtain an impurity-removed DNA sequence; comparing the DNA sequence subjected to impurity removal with a reference genome, carrying out variation detection, generating SNP and INDEL marker files, then carrying out genetic typing, and constructing a variety identification model; comparing and analyzing whole genome SNPs of the two groups, and screening specific sites capable of identifying and distinguishing the two groups in the genome; and inputting the DNA of the target sample into the variety identification model, detecting the SNP specific site of the gene, and judging the variety result to realize the identification of the purity of the coconut variety. The identification accuracy of the identification method can reach 99% and is far higher than that of a traditional morphological method, rapid identification can be conducted in the seedling stage, and the identification period is greatly shortened.

The invention discloses application of a molecular target Ptchd1 in nerve synaptic function and consciousness regulation and related diseases. Whole genome screening finds that Ptchd1 is a key molecular target for consciousness regulation, and animal experiments prove that the target has an important regulation effect on neuronal synaptic vesicle release and consciousness disappearance caused by general anesthesia drugs. In view of the fact that Ptchd1 can regulate and control drug-induced awareness disappearance and neuronal synaptic delivery, related treatment with Ptchd1 as a target spot has significant potential values in the following fields: i) application in preparation of reagents for regulating and controlling a neuronal synaptic function and awareness regulation and control; the invention also relates to application of the pharmaceutical composition in preparation of drugs for promoting awakening after anesthesia and application of the pharmaceutical composition in preparation of drugs for promoting awakening of diseases related to disturbance of consciousness, wherein the diseases related to the disturbance of consciousness comprise vegetative people, micro-consciousness or brain injury coma.

The invention belongs to the technical field of molecular biology, and particularly relates to an SSR molecular marker combination, a primer pair of the SSR molecular marker combination and application of the SSR molecular marker combination in pistacia chinensis bunge genetic diversity analysis and fingerprint spectrum construction. The SSR molecular marker combination comprises an SSR molecular marker CUPVD117, an SSR molecular marker PC64, an SSR molecular marker Ptg12, an SSR molecular marker PCB-b12, an SSR molecular marker PCB-b13, an SSR molecular marker PCB-b32, an SSR molecular marker PCB-c11, an SSR molecular marker PCB-d2, an SSR molecular marker PCB-d4 and an SSR molecular marker PCB-j12. The SSR molecular marker combination can be applied to pistacia chinensis bunge genetic diversity analysis and pistacia chinensis bunge fingerprint spectrum construction. A first genome of pistacia chinensis bunge is analyzed, 10 pairs of SSR molecular marker primers are screened, genetic diversity analysis is performed on Chinese pistacia chinensis bunge germplasm resources nationwide by utilizing the 10 pairs of SSR molecular marker primers, and a pistacia chinensis bunge fingerprint spectrum is constructed by utilizing the 10 pairs of SSR molecular marker primers, so that the pistacia chinensis bunge polymorphic sites are expected to be accurately positioned; the method has important production and scientific research values.

The invention relates to the technical field of biology, in particular to a primer group for identifying Hangzhou pig breeds, a detection method and application. Four specific SNP molecular markers SNP1-SNP4 are obtained through whole genome screening, the upstream and downstream sequences of the molecular markers are shown as SEQ ID NO.1-4, four pairs of specific PCR primers are designed and developed based on the sites, and the primer group and the detection method are applied to the identification of Hangzhou pig breeds. The nucleotide sequence of the gene is as shown in SEQ ID NO.5-12. And when the genotypes of the to-be-detected sample at the SNP1-SNP4 sites are CC, CC, TT and CC respectively, determining that the to-be-detected sample is a Hangzhou pig purebred individual. Compared with a traditional phenotype identification method, the molecular marker detection system established by the invention has the advantages of high detection efficiency, good accuracy and flux. The technical scheme provided by the invention provides important technical support for germplasm resource protection, variety purity identification and genetic improvement of Hangzhou pigs, and has remarkable application value in the field of livestock breeding.

The application discloses an engineered yeast strain for expressing cytochrome P450 and application thereof, and belongs to the technical field of bioengineering. The application constructs a method for constructing a Saccharomyces cerevisiae platform strain for improving cytochrome P450 expression by using a Saccharomyces cerevisiae MAGIC whole genome screening library, uses a yeast strain containing a betalain biosensor and a Saccharomyces cerevisiae MAGIC whole genome screening gRNA library, and successfully screens a target gene capable of improving CYP76AD1 expression in Saccharomyces cerevisiae by means of high-throughput screening of whole genome perturbation and fluorescence coupling with the aid of flow cytometry. Meanwhile, the microenvironment reconstruction target genes are applied to improve the functional expression of other P450 enzymes, the universality is proved, and it is proved that the method can effectively establish a platform engineered yeast strain for high-activity expression of various P450 enzymes.

The invention provides compositions and methods for performing mammalian cell genetics, e.g., genetic screens, using near-haploid cells. The invention further provides genes and gene products isolated using the inventive methods and methods of use thereof.

The invention discloses a vitis amurensis cold-resistant key gene and genome variation map, which comprises a genome screening method of cold-resistant character genes, and the genome screening method of the cold-resistant character genes comprises the following screening steps: step 1, collecting 330 parts of wild vitis amurensis resources; 2, performing whole genome sequencing on 330 wild vitis amurensis samples to obtain genetic marker information of each individual; step 3, downloading environment data such as isothermal temperature, seasonal temperature and warmth seasonal average temperature through a website; and step 4, carrying out correlation analysis on 330 wild grape sample genetic marker information and environmental factors by adopting R packet LEA. The invention relates to the technical field of grape cold resistance character gene screening. According to the vitis amurensis cold-resistant key gene and genome variation map, the efficiency and accuracy of grape cold-resistant breeding are remarkably improved, and genes closely related to cold-resistant characters are screened out through genotype and environment correlation analysis.

The invention relates to pig variety molecular identification, and discloses an SNP molecular marker combination for identifying Wanyue black pigs, the combination is composed of the following 27 SNP sites, the physical position and allele information of each SNP site are determined based on a pig reference genome Sscrofa11.1: rs328711913 located at the 8482083bp position of a chromosome 1, the allele of which is G / C, and rs328711913 located at the 8482083bp position of a chromosome 2, and the allele of which is G / C; the rs81310649 is located at the 9002974bp position of the chromosome 1, and the allele of the rs81310649 is T / C; and the rs340136088 is located at the 91975324bp position of the chromosome 2, and the allele of the rs340136088 is G / A. According to the invention, an identification marker set composed of 27 specific SNPs is determined through whole genome screening, and the uniform REF / ALT unification, 0 / 1 / 2 coding, mu / sigma standardization and threshold determination rules are matched, so that the detection process is clear and repeatable, and uniform operation and result interpretation in actual detection are facilitated.

The present disclosure relates to a CROPseq-multi vector for multiplexed perturbation and decoding in pooled genetic screens. The present disclosure also relates to multiplexed perturbation and decoding for optical pooled screens with the CROPseq-multi vector. The CROPseq-multi vector provides a universal solution for multiplexed perturbation and decoding in pooled screens.

The invention discloses a bird and animal keratinized tissue mitochondrial DNA assembly method. The method comprises the following steps: acquiring second-generation sequencing data and cutting a low-quality sequence to generate a clean file; carrying out comparison until a mitochondrial reference genome is obtained, and screening a homologous sequence, so as to obtain unclassifid.sam; analyzing terminal base damage, counting significant damage and determining a parameter N; the SAM is converted into a mapped.fq.gz file; generating a pre-processing file based on N-substituted forward data 5'end front N basic groups and reverse data 3 'end front N basic groups; and iteratively assembling and outputting a complete mitochondrial DNA sequence by using a preset k value, thereby improving the speed and integrity.

The invention discloses a specific SNP (Single Nucleotide Polymorphism) molecular marker for identifying euchiloglanis irchiloglanis and an identification method, according to the method, the whole mitochondrial genome of euchiloglanis irchiloglanis and the mitochondrial genome of a near-margin euchiloglanis fish are compared, a specific region of an ND2 gene is screened as the specific SNP molecular marker, and the nucleotide sequence of the specific SNP molecular marker is shown as SEQ ID NO.1. The specific primer pair is utilized to perform PCR amplification and Sanger sequencing on a to-be-detected sample, and accurate identification is realized by comparing basic groups of key SNP sites contained in the molecular marker. The method has the advantages of high specificity, high accuracy and the like, and is suitable for germplasm resource identification and protection of euchiloglanis longischii.

The present invention discloses SNP molecular markers simultaneously associated with the traits of fiber length, elongation rate, micronaire value, strength and boll weight of upland cotton, and the SNP molecular markers are nucleotide sequences shown in any one of SEQ ID NO.1 - SEQ ID NO.91. The SNP molecular markers provided by the present invention, which are simultaneously associated with the fiber length, elongation rate, micronaire value, strength and boll weight of upland cotton, can be used for the early prediction and screening of the above-mentioned traits of cotton. It is directly presented in the form of DNA, can be detected in various tissues and at various developmental stages of cotton, is not restricted by seasons and environments, and there are no problems such as expression or non-expression; it is neutral and does not affect the expression of target traits; SNPs are suitable for rapid and large-scale screening. In genome screening, SNPs often only require + / − analysis, rather than analyzing the length of fragments, which is conducive to the development of automated technologies for screening or detecting SNPs.

The invention discloses application of an I-type interferon receptor antagonist and / or a signaling pathway inhibitor in preparation of a medicine for preventing and treating heatstroke. Whole genome CRISPR / Cas9 screening finds that an I-type interferon signal channel is significantly activated in cells subjected to heat stress, and qPCR experiments prove that molecules of the I-type interferon signal channel are highly expressed, indicating that the I-type interferon signal channel participates in multi-organ injury after heatstroke. The use of the IFNAR1 neutralizing antibody and / or the I-type interferon signal channel inhibitor can reduce heat stress cell death, and reduce death rate and multi-organ injury of heatstroke mice, which indicates that the IFNAR1 antagonist and / or the I-type interferon signal channel inhibitor can play a role in protecting multiple organs after heatstroke by inhibiting heat stress cell injury and death, and can be used for preventing heatstroke. The clinical development and application prospects are realized.

The present invention discloses a rapid detection method for bile salt-tolerant Lactobacillus fermentum and its application, belonging to the technical field of molecular biology. By comparative genomics of bile salt-tolerant and bile salt-sensitive strains of Lactobacillus fermentum, the present invention screened out potential bile salt-tolerant functional genes, and after verification, obtained the bile salt-tolerant functional gene sfcA, which can distinguish between bile salt-tolerant and bile salt-sensitive strains of Lactobacillus fermentum. This screening method is faster than the traditional evaluation of bile salt tolerance. Based on this gene fragment, primers were designed to amplify a target band of 1164 bp. The bile salt-tolerant gene of the present invention can be used for the rapid screening of bile salt-tolerant Lactobacillus fermentum.

The invention discloses a method for screening soil oxytetracycline high-efficiency degrading bacteria by utilizing metagenomes, which comprises the following steps of: selecting typical soil types, detecting soil oxytetracycline, determining the metagenomes of soil microorganisms, and screening dominant bacterial communities in oxytetracycline-polluted soil, so that the method for screening the oxytetracycline high-efficiency degrading bacteria is established. The test soil provided by the invention is blue and purple clay and black soil, and is a typical farmland soil type in south and north. The method is high in efficiency and simple and convenient in experiment, can be used for rapidly screening the antibiotic degrading flora, and is of great significance in breaking through the bottleneck of a traditional screening technology and rapidly obtaining an efficient degrading strain.

The invention discloses a molecular marker-assisted procypris merus-crucian carp hybrid purity identification method, and relates to the technical field of freshwater fish hybridization. According to the method, objectification and standardization of the identification process are achieved, purity identification is converted into objective data analysis from experience-dependent morphological observation by using a high-quality SNP marker screened by a whole genome and a clear mathematical judgment algorithm, the result is accurate, reliable and repeatable, and the method has the advantages of high throughput, high efficiency, high sensitivity and the like. On the basis of a high-throughput genotyping technology of multiple PCR or gene chips, dozens of or even hundreds of markers can be detected in parallel at a time, and by combining with an automatic analysis system, identification of a large batch of samples can be completed in a short time, so that the breeding screening efficiency is greatly improved.

This disclosure relates to methods, kits and cell lines for retrieving potent RNAi triggers sequences, by utilizing a cell population having an altered RNAi biogenesis machinery, expressing in the cell population nucleic acid constructs, encoding a candidate RNAi trigger targeting a target gene, selecting cells expressing the target gene, rescuing the genetic alteration in the RNAi machinery, and identifying cells expressing a potent RNAi trigger by identifying cells which no longer express the target gene or which express only low levels of the target gene, as compared to the expression level of the target gene prior to rescuing procedure.

The invention discloses a molecular marker for identifying euchiloglanis kishinouyei and a method for identifying the euchiloglanis kishinouyei. According to the method, mitochondrial whole genome of euchiloglanis kishinouyei and mitochondrial whole genome of euchiloglanis kishinouyei fishes close to the euchiloglanis kishinouyei are compared, an ATP6 gene specific region is screened out to serve as a specific molecular marker of interspecific stable difference, and the nucleotide sequence of the specific molecular marker is shown as SEQ ID The method comprises the steps of DNA (deoxyribonucleic acid) extraction of a sample to be detected, PCR (polymerase chain reaction) amplification, electrophoresis detection, Sanger sequencing and species identification, and the euchiloglanis kishinouyei can be quickly and accurately identified. The method is easy and convenient to operate, high in accuracy and high in specificity, and has wide application prospects in the fields of fish taxonomy research, fishery resource investigation and the like.

This invention relates to a primer and probe combination, kit, and application for the visual detection of LayV (Layvirus RT-RPA), belonging to the field of nucleic acid visualization detection technology. To address the technical problems of LayV detection methods, such as cumbersome processes, long processing times, latency, high requirements for operating environments and precision equipment, and the inability to achieve rapid on-site detection of LayV, this invention compares the LayV genome, screens multiple highly conserved gene sequence regions, and ultimately identifies the conserved region of the LayV N protein gene as the detection target. A primer and probe combination for the visual detection of LayV using RT-RPA was designed, and a corresponding detection method was obtained. The detection method provided by this invention has high sensitivity and specificity, enabling rapid and efficient detection of LayV without requiring special instruments or professional technicians. It is simple to operate and provides a powerful tool for rapid on-site diagnosis, monitoring, and epidemiological investigation of LayV.

This invention discloses a strain of Bacillus subtilis, its screening method, and its application. The Bacillus subtilis strain is named... Bacillus subtilis BS61, deposited on September 4, 2025, at the China General Microbiological Culture Collection Center (CGMCC), accession number: CGMCC No. 35815. The screening method included phenotypic and genomic screening. Phenotypic screening tested the strain's resistance to acid, bile salts, heat, and artificial gastrointestinal fluids. It revealed that strain BS61 exhibited significantly better antibacterial effects against various pathogens, including *Escherichia coli* K88 and *Salmonella typhimurium*, compared to the standard strain *Bacillus subtilis* BS168. It contains antibacterial secondary metabolic gene clusters such as Fengycin, Thurincin H, and Bacillibactin, but lacks aggressive virulence factors and contains only three low-abundance drug resistance genes. This invention can be applied to the preparation of livestock and poultry feed additives, with no risk of widespread drug resistance. Its use does not affect animal health or food safety, and it can replace antibiotics, improving the intestinal health of livestock and poultry.

The invention discloses a primer composition and a method for identifying a shiitake Shenxiang 1845 variety by using polynucleotide polymorphism. The polynucleotide polymorphism primer combination disclosed by the invention has high specificity, is seven polynucleotide polymorphism sites screened based on a whole genome, and can effectively distinguish 'Shenxiang 1845' from other shiitake mushroom varieties (including all national affirmed varieties and plant new variety authorized varieties); according to the identification method, a high-throughput sequencing technology is adopted, the detection period is short, the detection accuracy is high, high throughput is achieved, and multi-target analysis and multi-sample analysis are completed through one-time detection; the identification method disclosed by the invention is wide in application and suitable for strain identification, infringement evidence collection and breeding material screening.