29 results about "Diversity analysis" patented technology

The invention relates to the technical field of genomics, molecular biology, bioinformatics and whole-genome selective breeding, in particular to a whole-genome liquid chip for apostichopus japonicus and application of the whole-genome liquid chip. The liquid phase chip contains sequences of background SNP loci and functional SNP loci which are used for gene analysis and are positioned on an apostichopus japonicus reference genome; wherein the functional SNP sites are associated with important economic characters of the apostichopus japonicus. The invention also discloses application of the liquid chip in apostichopus japonicus genome selective breeding, important economic character gene positioning, genetic diversity analysis, germplasm resource improvement and protection.

The invention discloses a highland barley rhizosphere microbial community regulation and control method, which comprises the following steps: clustering sequencing sequences of microbial data in rhizosphere soil data of mature highland barley to obtain taxonomic information and an operable classification unit, performing zero-model analysis on the soil data and the operable classification unit according to planting data, and determining whether the soil data and the operable classification unit are in zero-model analysis. The method comprises the following steps: acquiring a ratio of nitrogen fertilizer data to environmental screening contribution and drift contribution of microbial community composition, performing diversity analysis on an operable classification unit according to taxonomy information to obtain dominant species data, extracting a nitrogen fertilizer amount and a fertilization period corresponding to the dominant species data, and performing parameter optimization through a Bayesian optimization algorithm. The rhizosphere soil is fertilized according to the fertilization period and the optimization parameters of the planting area, and the regulation and control result of the microflora is obtained. According to the method, the optimal nitrogen application amount gradient is determined through zero model analysis and Bayesian parameter optimization, so that the rhizosphere microorganism function adapts to the growth requirement of highland barley, and an interpretable basis is provided for optimizing nitrogen fertilizer management.

The invention relates to the technical field of molecular biology, in particular to a betel nut InDel marker and application thereof in provenance detection. According to the invention, on the basis of the results of re-sequencing of one betel nut germplasm resource and comparative analysis of a reference genome sequence, InDel sites are excavated to develop molecular markers, 46 pairs of InDel molecular marker primer pairs with high polymorphism are obtained, the variation range of Shannon's diversity index is 0.361-1.713, and the variation range of polymorphism information content is 0.201-0.752. The clustering analysis result shows that the genetic similarity coefficient is 0.36, 211 parts of areca-nut materials are divided into four groups, the InDel marker pair provided by the invention can be effectively used for detecting and analyzing the genetic background of areca-nut germplasm resources, the genetic relationship between the tested areca-nut materials is accurately identified, and the method has the advantages of high specificity, high accuracy and high accuracy. And a foundation is laid for genetic diversity analysis of betel nut germplasm resources and detection of seed fruit and seedling sources.

The invention relates to the technical field of molecular detection, and particularly discloses a police dog 10K liquid phase chip, a design method and application thereof and a kit, and genetic typing sites of the police dog 10K liquid phase chip comprise 10463 SNP sites; the physical positions of the 10463 SNP loci are determined based on the comparison of the whole genome sequence of the canine reference genome CanFam 3.1, and the 10463 SNP loci are shown in the table 1. The 10463 SNP loci disclosed by the invention are obtained by screening based on a DNA sample of the police dog, and the obtained 10463 SNP loci can be used as a basis for genetic typing of the police dog; the liquid chip designed according to 10463 SNP loci can quickly realize genotyping of the target SNP loci, and obtained genotyping data can be used for variety identification of police dogs and population diversity analysis of police dogs.

The invention relates to an object grouping method and device, computer equipment, a storage medium and a program product. The method comprises the following steps: grouping a plurality of objects to obtain a plurality of groups, and obtaining attribute information of each object; the attribute information comprises skill information and character information; energy models corresponding to the multiple groups are constructed according to the attribute information of the objects; and optimizing the plurality of groups according to the energy model to obtain a target group corresponding to each object. By adopting the method, the energy models corresponding to the multiple groups can be constructed according to the attribute information of each object, so that the energy models corresponding to the multiple groups constructed in the embodiment of the invention can accurately represent the skill complementarity analysis result and the character diversity analysis result of each group; and grouping optimization is carried out according to the more accurate energy model which is more suitable for multiple objects, so that the target group with a better effect can be determined.

The invention relates to the technical field of molecular biology, and discloses a goat whole genome 50K breeding chip and application thereof. On the basis of whole genome re-sequencing data of goat groups (gt, 500 parts) covering domestic local and cultivated varieties and imported varieties abroad, functional marker information remarkably related to 14 economic characters such as growth and development, slaughtering, breeding, wool production and milk production of goats is screened through whole genome association analysis and selection signal analysis, and a probe combination contains 50000 SNP loci. The goat whole genome 50K breeding chip disclosed by the invention has the characteristics of strong cross-variety universality, high detection accuracy, comprehensive functional information and the like, can be widely applied to the aspects of goat genetic diversity analysis, whole genome correlation analysis, whole genome selective breeding and the like, and can be used for remarkably shortening the breeding period and reducing the typing cost.

The invention discloses a pig SINE-RIP probe combination, a gene chip, a kit and application, the pig SINE-RIP probe combination is based on a reference genome Sscrofa11.1, has wide variety and group applicability, and detects a type of SINE-RIP structure variation markers of SINE-RIP which is large in fragment, easy to cause gene activity change and large in genetic effect. The method is suitable for various applications and researches such as pig genome selective breeding, pig germplasm resource identification and evaluation, genetic relationship analysis, genetic diversity analysis and evaluation, functional gene or locus positioning, whole genome association analysis and the like, the detection process is convenient to operate, the flux is high, the cost is low, the detection rate is high, and the typing result is accurate. The probe combination effectively supplements and even substitutes an existing SNP molecular marker system, the accuracy of genome selection can be further improved, a brand-new high-reliability tool is provided for whole genome related research and application of pigs, and the industrial application value is extremely high.

The application discloses ginkgo polymorphic EST-SSR molecular marker primers and application thereof, and belongs to the technical field of molecular marker development and application thereof. EST-SSR sites are screened from ginkgo transcriptome data, and 100 pairs of primers are designed and synthesized. Through effectiveness verification and polymorphism screening with 141 ginkgo germplasm genomic DNAs as templates, finally, 20 pairs of specific EST-SSR molecular marker primers with good stability and high polymorphism are obtained. The application further discloses application of the self-developed molecular marker primers in ginkgo genetic diversity analysis and core germplasm construction and the like. The EST-SSR molecular marker primers provided by the application provide theoretical and technical support for ginkgo genetic evolution analysis, kinship identification and good seed selection and the like, and have important value for rational utilization, preservation and protection of ginkgo germplasm resources.

The application discloses a primer combination for analyzing bird species information based on an environmental biological sample and a design method and application thereof, and relates to the technical field of bird species diversity analysis. By using the design method, the primer combination for analyzing bird species information based on an environmental biological sample can be designed, the specificity of the primer can be enhanced, and the amplification of non-target groups can be reduced on the basis of ensuring wide coverage of bird species, so that more efficient and more accurate amplification and data analysis can be realized in bird species identification and ecological monitoring. The primer combination has wide coverage, high resolution and strong specificity, and improves the reliability of bird species information analysis.

The present application relates to the technical field of molecular detection, and specifically discloses a police dog 10K liquid chip, a design method, application and kit thereof, wherein the genotyping sites of the police dog 10K liquid chip include 10463 SNP sites; the physical positions of the 10463 SNP sites are determined based on the whole genome sequence alignment of the canine reference genome CanFam 3.1, wherein the 10463 SNP sites are shown in Table 1. The 10463 SNP sites of the present application are obtained by screening the DNA samples of police dogs, and the 10463 SNP sites can be used as the basis for genotyping the police dogs; the liquid chip designed according to the 10463 SNP sites can quickly realize the genotyping of target SNP sites, and the obtained genotyping data can be used for breed identification of the police dogs and analysis of the diversity of the police dog population.

The invention belongs to the technical field of oat germplasm resource genetic diversity analysis, and discloses an oat germplasm resource genetic diversity analysis and feeding value evaluation method which comprises the following steps: S1, planting oats; s2, recording growth periods, and dividing maturity; s3, recording organ characteristics and hay components, and calculating a feeding value; s4, recording quality character indexes; s5, measuring spike characteristics and seed weight; s6, performing genetic diversity index calculation, correlation, clustering, principal component and multiple correspondence analysis, and analyzing and evaluating genetic diversity and feeding value; according to the method, the genetic diversity index of oat phenotypic characters in each planting area is calculated, correlation analysis, principal component analysis, clustering analysis, structural equation model construction and multiple correspondence analysis among quantitative characters are carried out, the genetic diversity of each resource is explored, the resource suitable for the climate of the planting land is screened out, and the method has the advantages of being high in practicability and the like. And a scientific basis is provided for improvement and innovative breeding of oat germplasm resources.

The application discloses a SSR core primer group based on whole genome sequencing and core germplasm resequencing of Glycine max and application thereof. Specifically disclosed is the SSR core primer group, which comprises at least 5 pairs of primers (SEQ ID No. 1-460) in 230 pairs of primers. The application establishes a method for developing the whole genome SSR marker of Glycine max, which is comprehensive, accurate and reliable, and solves the problems of the current Glycine max SSR marker, such as small quantity, low polymorphism and low genome coverage. The SSR core primer group can maximize the reflection of the genetic diversity of Glycine max germplasm resources, has the characteristics of high polymorphism, uniform distribution, stable amplification, good reproducibility, clear site, clear and easy-to-distinguish statistical electrophoresis bands and the like, can accurately perform kinship analysis and diversity analysis, and is helpful to the researches such as genetic map construction, gene positioning, variety identification and variety DNA fingerprint construction, and has a wide application prospect.

The invention discloses a phytoplankton community stability evaluation method based on cascade reservoir influence. The method comprises the following steps: step 1, river reach division and sample collection; step 2, community structure and diversity analysis; step 3, analyzing a community construction mechanism; step 4, co-occurrence network construction and stability evaluation; step 5, environment driving factor modeling; and step 6, performing multi-group comparative analysis. According to the method, multi-dimensional analysis of a community structure, a construction mechanism, network stability and environment driving factors is integrated, and a complete evaluation chain is formed; a neutral community model and a co-occurrence network analysis method are introduced, and the influence mechanism of the cascade reservoir is revealed from the angles of the ecological process and interaction; the method is suitable for river and reservoir systems of different scales and different types, and is especially suitable for ecological assessment of areas without data or with less data; the method has important theoretical and practical values for scientifically guiding ecological scheduling and biodiversity protection of the drainage basin.

The invention discloses an application of a compound Barsertib or a pharmaceutically acceptable salt thereof in preparation of an anti-African swine fever virus drug, and belongs to the technical field of antiviral drugs. The molecular formula of the compound Barsertib provided by the invention is C26H31FN7O6P, and the structural formula of the compound Barsertib is shown in the description. According to the invention, C717R is taken as a target spot, molecular docking is carried out on a compound library containing 23619 small molecules, and finally, through affinity analysis, structural diversity analysis and visual binding mode analysis, the small molecule compound Barsertib combined with C717R is screened out. The cytotoxicity of the small molecule compound Barsertib is detected through a CCK-8 reagent; the virus replication inhibition capability of the small molecule compound Barsertib is detected by virtue of fluorescent quantitative PCR (Polymerase Chain Reaction), green fluorescence observation and Western blot experiments, and the result shows that the small molecule compound Barsertib can obviously inhibit the ASFV replication.

The invention discloses a cloud analysis process for automatically processing 16S or 18S or ITS data. The cloud analysis process for automatically processing the 16S or 18S or ITS data comprises the steps that the task delivery module achieves webpage triggering submission of tasks, upload files are prepared, the upload files are received for ASV classification, ASV file data analysis is conducted, alpha and beta diversity analysis is conducted, and function prediction analysis is conducted on the upload data. According to the cloud analysis process for automatically processing the 16S or 18S or ITS data, time and effort are saved, manual errors are reduced and presented in various visual modes, a user is helped to better understand the data, a comprehensive bioinformatics analysis solution is provided, and the cloud analysis process has important significance in the fields of research, medical treatment, environmental monitoring and the like.

The present disclosure relates to a multimedia resource pushing method and device, the method comprising: obtaining target resource interaction information of a target object and first resource attribute information of a to-be-pushed multimedia resource; inputting the target resource interaction information and the first resource attribute information into at least one agent network for resource interaction learning, and determining a pushed multimedia resource corresponding to the at least one agent network; the at least one agent network is used for learning a multimedia resource corresponding to at least one interaction reason, and a contribution of the target object to a stay on a resource pushing platform; performing diversity analysis on the pushed multimedia resource to obtain diversity index data; and based on the diversity index data, pushing a target multimedia resource in the pushed multimedia resource to the target object. The embodiments of the present disclosure can improve the diversity of the pushed multimedia resource on the basis of improving the user retention in the platform.

The application provides a Dictyophora rubrovolvata ISSR molecular marker primer group, a reaction system and application thereof in population genetic diversity, and belongs to the technical field of molecular biology. The nucleotide sequences of the Dictyophora rubrovolvata ISSR molecular marker primer group provided by the application are shown in SEQ ID NO. 1-SEQ ID NO. 34, and the ISSR-PCR reaction system for genetic diversity analysis of the Dictyophora rubrovolvata contains 1 ul of template DNA, 1 ul of the primer, 12.5 ul of 2x Taq PCR StarMix with Loading Dye and 10.5 ul of ddH2O in every 25 ul. The ISSR molecular marker primer group and the reaction system are stable in the PCR amplification reaction of the Dictyophora rubrovolvata, the amplified fragments are clear, and the polymorphism is high. The primer group and the reaction system can accelerate the identification speed of the Dictyophora rubrovolvata resources, and the result is stable and reliable.

The invention relates to an exopalaemon carinicauda 80K liquid phase chip, a probe combination and application of the exopalaemon carinicauda 80K liquid phase chip and the probe combination, and belongs to the technical field of crustacean genetic breeding. The SNP locus combination is composed of 81,097 SNP molecular markers, the position and base information of each SNP locus on the chip are as shown in a table 1, and the SNP loci are physically positioned on a genome GCF036898095.1. The chip sites are uniformly distributed on genome chromosomes, the coverage degree is high, the polymorphism is good, the universality is high, and the chip contains sites obviously related to growth, reproduction and saline-alkaline tolerance characters, and can be used for exopalaemon carinicauda population genetic diversity analysis, breeding population genotype identification, character correlation analysis and genome selective breeding.

The invention discloses an urban sewage pan-coronavirus monitoring method based on high-throughput sequencing. The method comprises the following steps: step 1, sample pretreatment and virus enrichment; step 2, carrying out targeted amplification on the coronavirus; step 3, construction of an amplicon library and high-throughput sequencing; and step 4, bioinformatics analysis and diversity output. According to the method, the relative proportion of coronavirus sequences in a library is increased through targeting amplification and amplicon sequencing, and on the premise of meeting genus / subgenus classification and diversity analysis requirements, the sequencing data volume required by each sample can be remarkably reduced, so that the detection cost of a single sample is reduced, and the reliability of a detection result is improved.

The invention belongs to the technical field of molecular biology, and provides polymorphic primers of Chinese hippophae rhamnoides genome SSR molecular markers and application of the polymorphic primers. The SSR molecular marker is composed of 20 pairs of SSR molecular marker polymorphic primers, and the nucleotide sequences of the primers are as shown in SEQ ID NO.1-SEQ ID NO.40. The SSR molecular marker comprises 20 pairs of SSR molecular marker polymorphic primers. A large number of SSR sequences are mined by using transcriptomes, SSR capillary electrophoresis technology is combined, SSR loci with high measurement indexes Na value, I value and PIC value of genetic difference and front 20 of the sequence are screened, and Chinese sea-buckthorn molecular identity information is made and applied to Chinese sea-buckthorn geographic source identification. The SSR molecular marker is good in polymorphism primer specificity and high in polymorphism, and when the SSR molecular marker is applied to Chinese hippophae rhamnoides population genetic structure and resource genetic diversity analysis, the diversity and genetic structure of hippophae rhamnoides genetic level in China can be revealed more comprehensively, and a foundation is laid for formulating a genetic protection strategy.

The application provides application of 14 SNP sites in identification of corn small spot resistance and probes, chips and kits for detecting the 14 SNP sites. The 14 SNP sites can be used for identification of corn small spot resistance sites, corn inbred line genotyping, corn inbred line authenticity identification, corn inbred line diversity analysis and the like.

The invention discloses a set of fish eDNA macro bar code PCGs primer group and application thereof, and belongs to the technical field of molecular biology. A set of PCGs primer group is designed, the PCGs primer group comprises a forward primer COX2-eDNA-F and a reverse primer COX2-eDNA-R, the PCGs primer group can be amplified to obtain a target fragment with the length of 329bp, the PCR amplification success rate of 96 types of fish tissue DNA is 100%, 95.5 types of fishes can be detected for 4 water environment samples, and the species correct recognition rate of 935 types of fishes is 82.03%. The result shows that the PCGs primer group is wide in fish community coverage and high in amplification efficiency, and a high species recognition rate can be achieved by combining high-throughput sequencing and bioinformatics analysis, so that the PCGs primer group can serve as a universal primer to be applied to fish species identification, fish diversity analysis, fish endangered species monitoring and other researches.

The invention relates to the technical field of microbiological analysis and detection, in particular to a rapid detection method for flora characteristics. The detection method disclosed by the invention is a method for rapidly detecting flora characteristics of a target sample based on rapid bacterial lysis and a high-throughput sequencing technology, bacteria can be fully lysed, preparation of a 16S library can be rapidly completed, and then the bacteria are accurately quantified through high-throughput sequencing; the copy number of the bacteria is corrected by adopting the 16S rDNA content of the total bacteria in the sample to be detected, so that the difference between the reads number of the bacteria and the copy number result caused by different sampling amounts can be eliminated, the sampling deviation is eliminated, the detection result is more accurate, the rapid detection of the bacterial flora characteristics in the target sample is realized, and the detection efficiency is improved. The method has a wide application prospect in the field of bacterial diversity analysis.

The invention discloses a carya illinoensis multiplex PCR primer combination and application thereof, and belongs to the technical field of molecular markers. The multiplex PCR primer combination comprises eight primer combinations, each primer combination comprises three pairs of primers, and the sequences of the primers are as shown in SEQ ID NO. 1 to SEQ ID NO. 48. 24 polymorphic InDel markers are mined on the basis of apocarya transcriptome data, 24 pairs of primers are designed and synthesized, the 24 pairs of primers are optimized into 8 triple combinations, multi-site synchronous detection can be achieved, then apocarya germplasm resource diversity analysis and fingerprint spectrum construction work can be efficiently carried out, and the method has the advantages of high specificity, high specificity, high sensitivity and the like. And a reliable technical support is provided for genetic improvement, variety breeding, accurate propagation of improved varieties and the like of the carya illinoensis.

The invention provides a method for detecting the influence of microplastics and triclosan on the structure and function of a sediment microbial community. The method comprises the following specific steps: firstly, collecting a sediment sample in a specified sampling area; then adding the micro-plastic particles and a triclosan solution into the sediment sample, and incubating; dNA of the microorganisms is extracted, and 16S rRNA sequencing is carried out; and finally, analyzing the diversity of the microbial community and evaluating the structure and function of the microbial community according to the sequencing data. The comprehensive influence of micro-plastic and triclosan combined pollution on the structure and function of the sediment microbial community is systematically analyzed for the first time, the efficiency and accuracy of sediment microbial community detection are effectively improved by adopting a 16S rRNA detection technology, and a reliable basis is provided for formulating an environment protection strategy, optimizing pollution control and promoting ecological restoration engineering.

The application discloses a sorghum whole genome SNP site combination, a liquid phase chip and application thereof. The SNP site is obtained after filtering and evaluation of whole genome resequencing data of 445 sorghum inbred lines by comparison to a sorghum reference genome BTx623 (version 3.1.1). The SNP site combination is uniformly distributed in the whole genome of sorghum. The provided 9K liquid phase gene chip of sorghum can simultaneously detect 9654 SNP sites, and is the first liquid phase chip in sorghum. The application provides an efficient genome typing tool for genetic diversity analysis, variety identification, gene positioning, background screening and molecular marker assisted breeding of sorghum, and helps shorten the breeding cycle of sorghum and promote the breeding process of new sorghum varieties.

The invention relates to a chikungunya virus genotype and key mutation site analysis method and system.The chikungunya virus genotype and key mutation site analysis method comprises the steps that CHIKV genome sequence data is obtained, a high-coverage-rate data set and a low-coverage-rate data set are obtained through preprocessing, and evolutionary diversity analysis is conducted on the high-coverage-rate data set to determine non-conservative sites; constructing a position weight matrix model according to the high-coverage-rate data set and the non-conservative sites, and performing typing labeling on unlabeled gene sequences in the high / low-coverage-rate data set in combination with a machine learning model and a phylogenetic tree; constructing a CHIKV genotyping model through data set division, feature screening and model training optimization on the basis of the labeled high-coverage data set; based on a CHIKV genotyping model, key mutation sites are identified by quantifying the contribution degree of amino acid sites to genotype classification through an SHAP interpretable machine learning framework. According to the application, high-precision typing and key mutation site recognition of the chikungunya virus can be realized.

The invention relates to the technical field of biological information analysis, and discloses an aquatic organism community analysis method and device based on environmental DNA, the method comprises the following steps: obtaining an annotation file corresponding to a to-be-analyzed sample, the to-be-analyzed sample comprising a water body sample collected from a target area; obtaining an environment DNA database of a pre-constructed target area; the environment DNA database comprises hierarchical information and gene information of different species and different functional character information corresponding to different species; on the basis of the annotation file and the environment DNA database, diversity analysis is conducted on the aquatic organisms in the target area, and diversity comprises species diversity, functional diversity and gene diversity. According to the method, the annotation file and the pre-constructed environment DNA database are combined, so that the diversity of aquatic organisms in the target area can be comprehensively, quickly and accurately evaluated, and not only is the diversity of the species level, but also the diversity of the functional traits and the gene level is covered.