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11 results about "Comparative genomics" patented technology
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Comparative genomics is a field of biological research in which the genomic features of different organisms are compared. The genomic features may include the DNA sequence, genes, gene order, regulatory sequences, and other genomic structural landmarks. In this branch of genomics, whole or large parts of genomes resulting from genome projects are compared to study basic biological similarities and differences as well as evolutionary relationships between organisms. The major principle of comparative genomics is that common features of two organisms will often be encoded within the DNA that is evolutionarily conserved between them. Therefore, comparative genomic approaches start with making some form of alignment of genome sequences and looking for orthologous sequences (sequences that share a common ancestry) in the aligned genomes and checking to what extent those sequences are conserved. Based on these, genome and molecular evolution are inferred and this may in turn be put in the context of, for example, phenotypic evolution or population genetics.
Gentamicin C1a high-yield biological manufacturing method based on metabolic network modeling and reverse metabolic engineering modification
PendingCN121950971Aimprove consistencyHigh metabolic network coverageBacteriaMicrobiological testing/measurementMetabolic network modellingMetabolic network
The invention belongs to the field of microbial engineering, and provides a gentamicin C1a high-yield biological manufacturing method based on metabolic network modeling and reverse metabolic engineering renovation, which comprises the following steps: S1, constructing a genome scale metabolic model of a target production strain, predicting and screening a first target gene in positive correlation with gentamicin biosynthesis by using the model; s2, performing whole genome sequencing on the gentamicin high-yield mutant strain, and identifying a second target gene related to the high-yield character through comparative genomics analysis; s3, combining the first target gene predicted in the step S1 and the second target gene identified in the step S2, and constructing to obtain a recombinant engineering strain; s4, carrying out fermentation culture on the recombinant engineering strain, and supplementing materials in the fermentation process; by remarkably improving the production efficiency and strain performance of gentamicin C1a, important technical support and theoretical basis are provided for green biological manufacturing of antibiotics.
Owner:EAST CHINA UNIV OF SCI & TECH
A specific target of Dickeya solani, its development method and application
ActiveCN120888565BMicrobiological testing/measurementMicroorganism based processesSpecific detectionDickeya solani
This invention discloses a Dickeya solani This invention relates to specific targets for bacteria, their development methods, and applications. The specific targets possess DNA sequences as shown in SEQ ID No. 1. Based on comparative genomics, this invention utilizes the PGCGAP platform to call annotation and pan-genomics modules to mine specific target sites, overcoming [various challenges]. Dickeya The limitation that 16S and other common sequences of similar species are difficult to distinguish, establish D.solani This highly specific detection method can detect samples with a minimum copy count of 100, improving amplification efficiency and achieving higher detection rates, thus meeting the requirements for detecting low-copy templates. Furthermore, because the detection system utilizes the specificity of gene-editing probes, it exhibits high specificity.
Owner:SHANGHAI CUSTOMS COLLEGE +1
Rape cold-resistant gene and application thereof
The invention discloses a rape cold-resistant gene and application thereof, and belongs to the technical field of gene engineering. Four rape specific lone genes (BnaOGs) and 2859 brassica specific genes (BSGs) are identified through comparative genomics and multi-database artificial verification by combining UniProt-KB, Nrdb and the like, and the characteristics of short sequence, high GC content, no transcription factor and the like are found. Aiming at a BSG gene BnaA03G0334200ZS, a CDS sequence of the BSG gene BnaA03G0334200ZS is cloned, a pEGOEP35S-H overexpression vector containing a 35S strong promoter and a hygromycin selection marker is constructed, and a positive plant is obtained through agrobacterium-mediated transformation of brassica napus Westar. Functional verification shows that overexpression of the gene remarkably enhances the cold resistance of the rape, plant damage is slight at low temperature, the relative conductivity and MDA content are reduced, and the activities of SOD, POD and CAT are improved. The invention provides a new target and technical support for cultivation of cold-resistant rape varieties, and has a wide application prospect.
Owner:JILIN AGRI SCI & TECH COLLEGE
RPA (recombinase polymerase amplification) primer and method for detecting brassica oleracea var. Brassicae
PendingCN121610587AMicrobiological testing/measurementMicroorganism based processesBiotechnologyDisease monitoring
The invention provides an RPA (recombinase polymerase amplification) primer group, a kit and a method for detecting the alternaria brassicae of broccoli, which are used for detecting the alternaria brassicae of broccoli. The primer group comprises specific primers F1 / R1, F1 / R1 and F2 / R1, and the sizes of theoretical amplification products of the primer group are 204bp, 187bp and 189bp. Specific target genes are screened out through comparative genomics, RPA primers are designed, and a constant-temperature (39 DEG C) and rapid (20 minutes) detection method is established. The primer provided by the invention has strong specificity, is only effective to the brassica oleracea var. Brassicae, and has no cross reaction with sibling species; the sensitivity is high, the detection lower limit is 0.08 ng / mu L, and the sensitivity is 100 times higher than that of conventional PCR. The actual sample verifies that the detection accuracy reaches 100%. The method is easy and convenient to operate, rapid in detection and suitable for field early diagnosis, plant quarantine and disease monitoring of the pathogenic bacteria.
Owner:SHANGHAI ACAD OF AGRI SCI
Pneumonia risk early warning method and system based on SNP site analysis
The invention discloses a pneumonia risk early warning method and system based on SNP site analysis. The method comprises the following steps: firstly, through comparative genomics analysis, respectively screening out two sets of core SNP site combinations which are obviously related to inseparable haemophilus influenzae (NTHI) pathogenic transformation and chronic disease progression; then, based on genotype data of the two sets of site combinations, a classification data set is independently constructed, and a machine learning algorithm is used to train and optimize to generate a health risk early warning model and a chronic risk assessment model. The trained model is utilized to analyze a to-be-tested sample, and the pathogenic risk probability and the chronic risk probability of the to-be-tested sample can be output respectively; the system comprises a data preprocessing and site screening module, a model construction module and an early warning analysis module. The method realizes staged and accurate quantitative evaluation of the NTHI pneumonia risk, and is suitable for large-scale screening and accurate prevention and control.
Owner:SHENZHEN TRADITIONAL CHINESE MEDICINE HOSPITAL
Insig1 gene mutant for regulating fat deposition in animals and application thereof
The application relates to a mutant type of an INSIG1 gene for regulating fat deposition of animals and application thereof, wherein the mutation is located at the 3725th base of a nucleotide sequence shown in SEQ ID NO. 1, and is an A>G single nucleotide mutation. The application analyzes the genetic basis of fat deposition of animals by using comparative genomics, finds that a strictly conserved site of an INSIG1 gene corresponds to parallel replacement of histidine to arginine of amino acids, and the potential function of the strictly conserved site in fat deposition and mobilization is prompted.
Owner:NORTHWEST A & F UNIV
Molecular marker primer pair, kit, application and method for identifying sex of siniperca chuatsi
ActiveCN121826179AMicrobiological testing/measurementClimate change adaptationMale individualGel electrophoresis
The invention discloses a molecular marker primer pair for identifying sex of siniperca chuatsi, a kit, application and a method. On the basis of high-throughput sequencing and comparative genomics analysis, a specific DNA fragment which stably exists in a male individual of siniperca chuatsi and is deleted in a female individual is found for the first time, and a specific molecular marker (as shown in SEQ ID NO: 1) and a primer pair are developed on the basis of the specific DNA fragment. The marker is used for PCR amplification, the genetic sex of mandarin fish can be quickly, accurately and noninvasively identified only through conventional agarose gel electrophoresis, and the accuracy rate reaches 95% or above. The invention also provides a kit containing the primer pair, an identification method and application. The method has the advantages of wide population application, stable and reliable result, convenience in operation under conventional laboratory conditions and the like, and is suitable for sex identification or breeding of the siniperca chuatsi, such as early identification of genetic sex of the siniperca chuatsi, screening of specific breeding materials and the like.
Owner:BEIJING ACADEMY OF AGRICULTURE & FORESTRY SCIENCES
Application of animal domestication behavior related rrm1 gene mutant
The application discloses an application of an animal domestication behavior related RRM1 gene mutant. Through population genetics, comparative genomics and ancient genomics analysis, the cause variation of the strongest selected gene of goat domestication, namely, the RRM1 gene c.1020A>G mutation, is determined; through association analysis with a hybrid population with wild goat blood, it is found that the mutation is significantly related to the domestication behavior in the goat domestication process; and through construction of a mouse containing the RRM1 gene c.1020A>G mutation, it is proved that the corresponding mutant of the RRM1 gene obviously increases the domestication behavior of the mouse. The application provides a basis and lays a foundation for phenotype selection of the domestication behavior and preparation of a tame animal model.
Owner:NORTHWEST A & F UNIV
A molecular marker, primer combination, kit and application related to the fruit orientation of chinese pepper
ActiveCN119592740BMicrobiological testing/measurementDNA/RNA fragmentationBiotechnologyCapsicum annuum
The application discloses a molecular marker, a primer combination, a kit and application related to fruit orientation of Chinese pepper. The application successfully locates a key variation site related to fruit orientation of Chinese pepper on the upstream of Up gene by combining comparative genomics and resequencing analysis, designs a molecular marker primer based on the variation site, and verifies that the variation can affect fruit orientation by using a Chinese pepper population. The development and utilization of the molecular marker can precisely identify fruit orientation of Chinese pepper at the seedling stage. Unlike traditional genetic linkage markers, the molecular marker of the application is located on the upstream of the gene, not a linkage marker, and therefore has higher identification effect and accuracy.
Owner:INSTITUTE OF VEGETABLES & FLOWERS CHINESE ACADEMY OF AGRICULTURAL SCIENCES
A genetic engineering method for creating early-flowering and yield-increasing rice
The application discloses a genetic engineering method for creating early-flowering and yield-increasing rice, and belongs to the technical field of plant genetic engineering. EFHP The PACMAD group-specific MADS gene is identified by a comparative genomics method EFHP The gene is introduced into a main rice variety and overexpressed, so that the flowering time of the rice can be significantly regulated, the rice plants can bloom about 7 days in advance, the biomass and yield are increased, and the yield per plant is increased by 23-35%. EFHP The gene has a double function of simultaneously regulating the flowering time and yield of the rice, solves the technical problem that early flowering and yield increase are difficult to be simultaneously improved, and provides new gene resources and breeding materials for rice molecular breeding.
Owner:INST OF GENETICS & DEVELOPMENTAL BIOLOGY CHINESE ACAD OF SCI
Aeromonas salmonicida virulence prediction method based on big data analysis
The invention discloses an aeromonas salmonicida virulence prediction method based on big data analysis. The method comprises the following steps: collecting, sorting and constructing an aeromonas salmonicida database from a plurality of channels; performing cleaning, genome assembly and annotation on aeromonas salmonicida data to form a complete annotation data set; through bioinformatics analysis, an aeromonas salmonicida comparative genomics framework is constructed, and toxicity related characteristics are extracted; establishing a model by applying a logistic regression algorithm, and setting a threshold value to judge a virulence level; predicting the toxicity of aeromonas salmonicida by using a logistic regression model, and performing ROC analysis to evaluate the performance of the model; inputting a to-be-predicted genome and other information into the model, and outputting a virulence grade prediction result; and evaluating the confidence level of the prediction result, and providing quantitative information about the prediction uncertainty for the user. According to the method, the prediction accuracy and reliability can be improved, and a new thought is provided for prevention, control and treatment of pathogenic bacteria.
Owner:INST OF OCEANOLOGY - CHINESE ACAD OF SCI