164 results about "Homologous sequence" patented technology

The invention provides methods for determining genome-wide sequence variations associated with a phenotype of a species in a hypothesis-free manner. In the methods of the invention, a set of restriction fragments for each of a sub-population of individuals having the phenotype are generated by digesting nucleic acids from the individual using one or more different restriction enzymes. A set of restriction sequence tags for the individual is then determined from the set of restriction fragments. The restriction sequence tags for the sub-population of organisms are compared and grouped into one or more groups, each of which comprising restriction sequence tags that comprise homologous sequences. The obtained one or more groups of restriction sequence tags identify the sequence variations associated with the phenotype. The methods of the invention can be used for, e.g., analysis of large numbers of sequence variants in many patient samples to identify subtle genetic risk factors.

The conditions under which oligonucleotides hybridize only with entirely homologous sequences are recognized. The sequence of a given DNA fragment is read by the hybridization and assembly of positively hybridizing probes through overlapping portions. By simultaneous hybridization of DNA molecules applied as dots and bound onto a filter, representing single-stranded phage vector with the cloned insert, with about 50,000 to 100,000 groups of probes, the main type of which is (A,T,C,G)(A,T,C,G)N8(A,T,C,G), information for computer determination of a sequence of DNA having the complexity of a mammalian genome are obtained in one step. To obtain a maximally completed sequence, three libraries are cloned into the phage vector, M13, bacteriophage are used: with the 0.5 kb and 7 kbp insert consisting of two sequences, with the average distance in genomic DNA of 100 kbp. For a million bp of genomic DNA, 25,000 subclones of the 0.5 kbp are required as well as 700 subclones 7 kb long and 170 jumping subclones. Subclones of 0.5 kb are applied on a filter in groups of 20 each, so that the total number of samples is 2,120 per million bp. The process can be easily and entirely robotized for factory reading of complex genomic fragments or DNA molecules.

The invention provides an exogenous gene knocking-in and integrating system on the basis of CRISPR/Cas9, a method for establishing the exogenous gene knocking-in and integrating system and application thereof. The exogenous gene knocking-in and integrating system comprises vectors with report/donor functions and Cas9 expression vectors. Each report/donor vector comprises two target gent homologous arms and an exogenous sequence fragment positioned between the two target gene homologous arms; homologous sequences, which are positioned on a target gene, of the two target gene homologous arms of each report/donor vector are respectively positioned on two sides of a target sequence of the target gene and are connected with the target sequence of the target gene; the exogenous sequence fragments comprise promoters, resistant genes, shorn peptide sequences, report genes and polyA tails which are sequentially arrayed, two SSA repair homologous sequences of each resistant gene are inserted into the resistant gene, and the target sequence of each target gene is inserted in a space between the two corresponding SSA repair homologous sequences. The exogenous gene knocking-in and integrating system, the method and the application have the advantages that exogenous genes can be integrated with endogenous gene sequences in an efficient site-directed and accurately targeted manner, and double-chromosome allelic gene double-knocking-in can be efficiently carried out.

The invention relates to a method and a kit for the specific identification and/or quantification of one or several among at least 7 organisms or parts thereof, in a biological sample being possibly contaminated by at least 4 other organisms, by detecting at least one nucleotide sequence specific of each of the organisms possibly present in said biological sample, wherein said nucleotide sequence is homologous with at least 4 other nucleotide sequences. The method comprises the steps of: amplifying the nucleotide sequences specific of said organisms into target amplified nucleotide sequences using at least 2 different primer pairs, each one being capable of amplifying at least 4 of said homologous nucleotide sequences from other organisms and having an homology higher than 85% with each of the said amplified homologous nucleotide sequences to be amplified; providing an array onto which single-stranded capture nucleotide sequences are arranged at pre-determined locations, said single-stranded capture nucleotide sequences being covalently bound to an insoluble support, via a spacer which is at least 6.8 nm in length, and wherein said capture nucleotide sequences comprise a nucleotide sequence of about 10 to 50 bases which is able to specifically bind to one target amplified sequence without binding to said other amplified homologous nucleotide sequences and presenting an homology lower than 85% with the other capture nucleotide sequences of the said other amplified homologous sequences, contacting said target amplified sequences with the array in one solution under conditions allowing hybridization of the target amplified sequences to complementary capture nucleotide sequences present on the array; and detecting and quantifying signals present on specific locations on the array; wherein the intensities of the signals in specific locations allows identification of the organisms.

The invention discloses an upland cotton SNP marker and application thereof, and belongs to the field of upland cotton SNP marker development. The upland cotton SNP marker is obtained by developing a single-copy SNP marker of an upland cotton genome via chip hybridization and homologous sequence comparison, and picking out SNP markers in a linkage disequilibrium recession distance via linkage disequilibrium analysis. The SNP marker provided by the invention can be applied to analysis of genetic diversity and group structure, or to germplasm identification of upland cotton, is single-copy, and has no remarkable linkage disequilibrium among markers, so that the efficiency of detection, adopting the SNP marker, during analysis of genetic diversity, group structure or fingerprint identification can be greatly improved, and the work efficiency is higher.

The invention discloses a method and a system for detection of phenotype genes and analysis of biological information. The method comprises the following steps of: performing local comparison between the sequence of target genes and nucleotide sequences of predicted genome coding regions of all allied species respectively, and obtaining a homologous sequence according to the local comparison results; screening the homologous sequence to obtain the homologous genes; extracting a DNA sequence from the homologous genes, converting the DNA sequence into a protein sequence, performing the overall comparison, and then converting the protein sequence into the DNA sequence; constructing a gene tree for the DNA sequence obtained by conversion, and working out Dn/Ds of each branch; and performing positive selection detection and detecting positive selection loci. The method and the system provided by the invention have the advantages of quickly processing a large amount of data information and discovering more accurate information, reducing misguiding of pseudogenes on analysis of biological information and helping to acquire the biological information to explain more biological problems.

The invention discloses an anti-rice blast gene Pi9 specific CAPS marker Pi9caps and application thereof. The invention discloses a method for identifying or auxiliarily identifying whether rice contains anti-rice blast gene Pi9 and/or whether rice has rice blast resistance, which comprises the following steps: detecting 40804th nucleotide from the 5' terminal of 75-1-127BAC12.1 sequence or homologous sequence thereof in chromosome 6 of rice to be detected, and identifying according to the kind of the 40804th nucleotide the 5' terminal of the 75-1-127BAC12.1 sequence or homologous sequence thereof in chromosome 6 of rice. The anti-rice blast gene Pi9 specific CAPS marker Pi9caps can accurately judge whether the selected rice plant contains the anti-rice blast gene Pi9, and thus, has important application meanings in accelerating the anti-rice blast rice species breeding progress.

The present invention is related to an identification and/or quantification method of a biological (micro)organism or part of it (possibly present in a biological sample) by a detection of its nucleotide sequence among at least 4 other homologous sequences and comprising the steps of: possibly extracting original nucleotide sequences (1) from the (micro)organism; amplifying or copying with a unique pair of primer(s), at least part of original nucleotide sequences (1) into target nucleotide sequences (2) to be detected; possibly labelling said target nucleotide sequences (2); putting into contact the labelled target nucleotide sequences (2) with single stranded capture nucleotide sequences (3) bound by a single predetermined link to an insoluble solid support (4), preferably a non porous solid support, discriminating the binding of a target nucleotide sequence (2) specific of an organism or part of it by detecting, quantifying and/or recording a signal resulting from a hybridization by complementary base pairing between the target nucleotide sequence (2) and its corresponding capture nucleotide sequence (3), wherein said capture nucleotide sequence (3) being bound to the insoluble solid support (4) at a specific location according to an array, said array having a density of at least 4 different bound single stranded capture nucleotide sequences/cm2 of solid support surface and wherein the binding between the target nucleotide sequence and its corresponding capture nucleotide sequence forms (will result in) said signal at the expected location, the detection of a single signal allowing a discrimination of the target nucleotide sequence specific of an organism or part of it from homologous nucleotide sequences.

Blocking peptides comprised of the 14 amino acids that correspond to the sequences of the BB-loops of the four known TIR domain-containing adapter proteins (i.e. MyD88, TRAM, TIRAP, and TRIF) and homologous sequences of four TLRs (TLR2, TLR4, TLR1, and TLR6) are described. Adapter BB loop peptides disrupted TLR4, but not TLR2 signaling. TLR2 and TLR4 blocking peptides inhibited TLR4- and TLR2-mediated activation of ERK and cytokine induction, however, these peptides did not inhibit activation of p38. These peptides can be used to treat or prevent an immune or inflammatory response associated with a condition related to TLR4 signaling.

The invention discloses a method for regulating the expression intensity of genes on microorganism chromosomes by using artificial regulatory elements and libraries thereof. The method for regulating the gene expression intensity on the microbial chromosome by using the artificial regulatory element and its library provided by the present invention includes the following steps: amplify a DNA fragment by PCR, which includes the upstream sequence of the original regulatory region of the gene to be regulated on the microbial chromosome A homologous fragment containing 40-3000 bases, resistance marker gene, artificial regulatory element library or an artificial regulatory element with specific expression strength, homologous to the sequence downstream of the start codon of the gene to be regulated on the microbial chromosome A fragment containing 40-3000 bases; the DNA fragment is electrotransformed into the microorganism, and the original regulatory region of the gene to be regulated on the microbial chromosome is replaced by an artificial regulatory element library or an artificial regulatory element with a specific expression intensity .

The invention relates to isolation cloning and breeding application of a tobacco mosaic virus (TMV) resistant N'au gene. A nucleotide sequence of the TMV resistant N'au gene is shown as SEQ ID NO.1, and amino acid of polypeptide coded by the TMV resistant N'au gene is shown as SEQ ID NO.2. A non-transgenic TMV-resistant tobacco variety can be obtained by trans-breeding an N'au gene contained in germplasm resources into a TMV-sensitive main planting tobacco variety through a conventional breeding means. The N'au gene in the main planting tobacco variety has a homologous sequence high in nucleotide rate, so that short introgression fragment single plants carrying the N'au gene can be obtained easily through conventional breeding so as to obtain a TMV-resistant variety low in linkage drag. The gene can resist strains U1 and Cg of TMV at the same time. The novel antiviral gene N'au has great application prospect in cultivation of TMV-resistant tobacco.

The invention discloses a marine microalgae chloroplast expression vector and application thereof. The marine microalgae chloroplast expression vector contains a homologous recombinant sequence I, a target gene expression case and a homologous recombinant sequence II, wherein the target gene expression case is positioned between the homologous recombinant sequence I and the homologous recombinant sequence II; 1st to 972nd bp of the homologous recombinant sequence I are 3' part of rns, and 973rd to 1,097th bp are 5' part of trnI; and 1st to 196th bp of the homologous recombinant sequence II are 3' part of trnA, and 197th to 1,483rd bp are 5' part of rnl. The homologous recombinant sequence ensures that the expression vector can be induced into the marine microalgae chloroplast genome by an electric shock method, which is advantageous to the way of inducing the vector into the chloroplast genome, greatly reduces conversion cost, and provides technical support for realizing that marine microalgae chloroplast is used as a bioreactor to produce high value-added products.

This invention relates to methods for detecting and sequencing target nucleic acid sequences, to mass modified nucleic acid probes and arrays of probes useful in these methods, and to kits and systems which contain these probes. Useful methods involve hybridizing the nucleic acids or nucleic acids which represent complementary or homologous sequences of the target to an array of nucleic acid probes. These probes comprise a single-stranded portion, an optional double-stranded portion and a variable sequence within the single-stranded portion. The molecular weights of the hybridized nucleic acids of the set can be determined by mass spectroscopy, and the sequence of the target determined from the molecular weights of the fragments. Nucleic acids whose sequences can be determined include DNA or RNA in biological samples such as patient biopsies and environmental samples. Probes may be fixed to a solid support such as a hybridization chip to facilitate automated molecular weight analysis and identification of the target sequence.

The invention provides application of DNA exonuclease to DNA recombinant seamless cloning and provides a kit capable of being used for DNA recombinant seamless cloning. The DNA exonuclease is T5 exonuclease, T7 exonuclease, exonuclease III or Lambda exonuclease or a mixture thereof. The invention further provides a seamless cloning method applying the DNA exonuclease, which comprises the followingsteps: linearizing a vector through a PCR method or restriction endonuclease digestion; introducing homologous sequences that are respectively homologous to the two ends of the vector at the two endsof a target gene fragment through PCR to obtain an amplified target gene fragment; after the treated target fragment and the treated linearized vector are mixed, adding the DNA exonuclease and a reaction solution for temperature bath to obtain a vector and fragment mixture; converting an echerichia coli receptive cell by using the obtained vector and fragment mixture. The application and the method provided by the invention have the following advantages that the site selection can be flexibly performed, and the gene cloning can be performed in any position of the vector; the vector construction can be quickly, simply and conveniently completed within 10 minutes; meanwhile, the cloning is accurate and efficient.

The present invention relates to a method for the identification and/or the quantification of one or more target nucleotide sequences (3) present homologous to each other and being possibly present in a sample and discrimination from possibly homologous sequences, by using two sets of nucleotide sequences (1 and 2), wherein a first set of nucleotide sequences possibly labelled (1) bind specifically to said target nucleotide sequences (3) in a first step and are detected and/or quantified through hybridisation with a second set of capture nucleotide sequences (2) having at least a part of sequence complementary to the possibly labelled nucleotide sequence (1) of the first set of nucleotide sequences, said capture nucleotide sequence (2) being immobilised upon the surface (4) of a solid support according to an array of at least 4 discrete regions/cm2, each of said discrete regions being bonded with one species of capture nucleotide sequences (2), and wherein the identification and quantification of the binding between the possibly labelled nucleotide sequence (1) and their corresponding capture nucleotide sequence (2) is correlated with the identification and the quantification of a target nucleotide sequence (3) present in the sample.

The invention relates to a wolfberry lycopene epsilon-cyclase gene and a recombinant vector comprising the gene. The gene is selected from one of the following nucleotide sequences: 1) a nucleotide sequence shown in a sequence SEQ ID NO.1; and 2) a homologous sequence or an allelic gene thereof and a derivative nucleotide sequence thereof in which 70% of one or more nucleotides are added, replaced, inserted or deleted in the nucleotide sequence shown in the sequence SEQ ID NO. 1. By extracting the total RNA of fresh wolfberry leaves, a wolfberry lycopene epsilon-cyclase gene Lm LcyE is cloned by using a 3'RACE technology, and an obtained complete genome sequence is 1569. An escherichia coli expression vector pET28a-LmLcyE is constructed, the enzymatic activity of cloned wolfberry isopentenyl pyrophosphate isomerase gene Lm LcyE encoding is identified by using an escherichia coli heterologous expression system, and the wolfberry lycopene epsilon-cyclase gene Lm LcyE can catalyze lycopene for cyclizing the lycopene into delta carotene, so that metabolism flows downstream, thereby improving the content of alpha-carotenoid.

A method for establishing a saccharomyces integrated gene mutation library based on in vivo homologous recombination belongs to the fields of protein engineering, molecular biology technology and genetic engineering. The method comprises the steps of establishing the recombination expression plasmid of the target gene, designing long primer fragment by taking the recombination expression plasmid as a template, amplifying error-prone PCR to obtain the mutated gene with the expression carrier 20-70bp homologous sequence at two ends, respectively carrying out the enzyme tangential linearization to the homologous region of two ends of the mutated gene of the expression carrier and the homologous region of the gene group, mixing the error-prone PCR amplified outcome and the linearized expression carrier by a definite molar ratio and carrying out electro-transformation of the saccharomyces, and integrating the exogenous mutation target gene into the saccharomyces gene group, thus obtaining gene mutation library. The method has high efficiency and convenient operation, shortens the library establishment period from 1-2 weeks to 3 days, needs any sub-cloning steps for library establishment, reduces the loss of content and richness of the gene mutation, has generalization and can be used for various target genes capable of being expressed in the saccharomyces.

A novel suspension hybridization assay was used to determine nucleic acid copy number by flow cytometry. The assay was validated with low copy (lc) products ranging in length from 100 to 2304 bp conjugated to spectrally-distinct polystyrene microspheres. In the example provided herein, these conjugated microspheres were used as multiplex hybridization probes to detect homologous sequences in genomic DNA extracted from cytogenetic cell pellets and labeled with biotin-dUTP. Hybridization was detected with phycoerythrin-labeled streptavidin and analyzed by flow cytometry. Copy number differences were distinguishable by comparing the mean fluorescence intensities of test probes with a diploid reference probe in genomic DNA of patient samples and abnormal cell lines. The assay is capable of distinguishing a single allele and three alleles at a test locus from a biallelic reference sequence, regardless of chromosomal context. The assay is an improvement on previous methods which require prior amplification of locus-specific target DNA because, lc probes provide adequate specificity and sensitivity for accurate copy number determination of homologous targets. Because of its high sensitivity and accuracy, the assay is useful for determination of nucleic acid copy number for a variety of applications, including determination of genomic copy number in humans, animal models of disease and in solution, measurement of transcript levels, forensic DNA analysis, and quality control analysis in agriculture.

The present invention is related to an identification and/or quantification method of several organisms among many other ones possibly present in the analyzed sample having homologous sequence(s) by the determination of the genetic map of the organism. The method combines a limited number of amplifications of target sequence(s) using common primer pairs and the recording upon an array for the presence of single signals resulting from the binding between the capture sequence(s) and their corresponding target sequence(s) and correlating the presence of said detected target sequence(s) to the identification of some genetic specific sequence(s) of said (micro)organism(s) referred as genetic elements and from there to the identification of the organism. The method and device according to the invention allow the easy identification/detection of a sequence specific of an organism among other homologous sequence(s) and possibly its quantification. The identification of the various targets from the initial organism if obtained after their binding on specific capture probes present on a support or substrate preferably in the form of an array. The identification of the amplified targets is obtained directly, after washing of possible contaminants (unbound sequence(s)), by detecting and possibly recording for one target, a single spot signal at one specific location, wherein said capture nucleotide sequence was previously bound and said identification of a target is not a result of a complex pattern of spots upon the microarray to be analyzed in order to identify one target as proposed in the system of the state of the art.

The present invention discloses a clone of a neurotrophic factor fusion protein gene containing a protein transduction domain, the expression and the purification of the protein, the biological activity of the fusion protein, and the effect for penetrating a cell membrane, particularly for the blood-brain barrier in vivo. The fusion protein comprises a first area which has at least 75 percent of a homologous sequence with a neurotrophic factor and a second area which has at least 75 percent of a homologous sequence with an amino acid sequence of the protein transduction domain, and the second area is positioned at a carboxyl-terminal of the first area; the present invention can carry out the replacement, deletion or addition of the amino acid residues under the premise of not changing the characteristics of the fusion protein. The fusion protein can be used as a drug for the treatment of a plurality of neurodegenerative disorders in central nervous system and the peripheral neuropathies by peripheral routes for drug delivery.