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Integrase

Integrase is an essential enzyme involved in the integration of viral DNA into the host cell genome, a critical step in the replication of retroviruses such as HIV.
This enzyme catalyzes the insertion of the viral genetic material into the host cell's DNA, enabling the virus to establish a persistent infection.
Researchers studying Integrase aim to understand its structure, function, and mechanisms in order to develop effective antiviral therapies that target this key viral component.
PubCompare.ai's AI-driven comparisons across liteature, pre-prints, and patents can help optimize Integrase research by identifying the best protocols and products, enhancing reproducibility and accurace while empowering researchers to make informed decisions.

Most cited protocols related to «Integrase»

1
Rapid Detection of Integrative and Conjugative Elements in Bacterial Genomes
Cited 108 times
We have developed a tool, called ICEfinder, available online and as a standalone version for the rapid detection of ICEs and IMEs in bacterial genome sequences. ICEfinder employs a method we called ‘Pattern-based hit co-localization’ (see the Supplementary Methods) that detects the signature sequences of the recombination modules and conjugation modules based on their profile HMMs (19 (link)) (Supplementary Table S2, S3 and Figure S4). It also searches for the oriT region using the approach proposed by oriTfinder (18 (link)). It then co-localizes, filters and groups the corresponding genes. At last, those elements carrying an integrase gene, a relaxase gene and T4SS gene clusters (12 (link),20 (link)) are considered as T4SS-type ICEs, while those without T4SS but with integrase, replication and the AICE translocation-related proteins are thought to be putative AICEs. Those without T4SS but with integrase and relaxase are tagged as putative IMEs. ICEfinder also tries to detect some particular IMEs with integrase and an oriT but no relaxase. ICEfinder employs ARAGORN (21 (link)) with the default parameters to identify the 3′ termini of the tRNA/tmRNA genes as the putative ICE insertion sites. It also uses Vmatch (http://vmatch.de/) with the default options to detect the directed repeats as the tRNA-distal boundaries. The acquired antibiotic resistance genes and virulence factors are also identified by NCBI BLASTp (22 (link)) with the cut-off of Ha-value of 0.64 (12 (link)).
The ICEfinder online tool allows users to submit a GenBank file containing a nucleotide sequence and its annotation as a query. A FASTA format file of a raw nucleotide sequence is also accepted, which is annotated using our gene annotation tool CDSeasy (12 (link)) and is then used as the input for the following ICE detection. ICEfinder uses the CGView circular genome visualization tool (23 (link)) to display the distribution of the predicted T4SS-type ICEs, IMEs and AICEs in the query bacterial genome. In addition, the ICEfinder has a comparison module (Supplementary Figure S5) that allows performing the alignment between the identified ICE loci against the ICEberg-archived ICEs using MultiGeneBlast (24 (link)).
Liu M., Li X., Xie Y., Bi D., Sun J., Li J., Tai C., Deng Z, & Ou H.Y. (2018). ICEberg 2.0: an updated database of bacterial integrative and conjugative elements. Nucleic Acids Research, 47(Database issue), D660-D665.
Publication 2018
Antibiotic Resistance, Microbial Base Sequence DNA Replication Gene Annotation Gene Clusters Genes Genome Genome, Bacterial Hypertelorism, Severe, With Midface Prominence, Myopia, Mental Retardation, And Bone Fragility Ice Icebergs Integrase Proteins Recombination, Genetic tmRNA Transfer RNA Translocation, Chromosomal Virulence Factors
2
PASTEC: Modular TE Consensus Classifier
Cited 92 times
PASTEC was developed in the REPET package [7] . In this context, we used PASTEC to classify the consensus TE sequences found de novo in a genome. PASTEC uses several features of TEs to classify TE consensus sequences. It searches for structural evidence and sequence similarities stored in a MySQL database obtained during a preprocessing step. The structural features considered are TE length, presence of a LTR (long terminal repeat) or TIR (terminal inverted repeat) detected with a custom-built tool (with a minimum length of 10 bp, a minimum identity of 80%, the taking into account of reciprocal orientations of terminal repeats and a maximal length of 7000 bp), the presence of SSRs (simple sequence repeats detected with the tandem repeat finder (TRF) tool [8] (link)), the polyA tail and an ORF (open reading frame). The blastx and tblastx routines are used to search for similarities to known TEs in Repbase Update, and the hmmer3 package [9] to search against a HMM profile databases (TE-specific or not), after translation in all six frames. Sequence similarities are also identified by blastn searches against known rDNA sequences, known host genes and known helitron ends. The databanks used are preprocessed and formatted. The Repbase Update for PASTEC can be downloaded from http://www.girinst.org/repbase/index.html, whereas the HMM profile databank formatted for PASTEC is available from the REPET download directory (http://urgi.versailles.inra.fr/download/repet/).
PASTEC classifies TEs by testing all classifications from Wicker's hierarchical TE classification system. Each possible classification is weighted according to the available evidence, with respect to the classification considered. TEs are currently classified to class and order level. PASTEC can also determine whether a TE is complete on the basis of four criteria: sequence coverage for known TEs, profile coverage, presence of terminal repeats for certain classes, presence of a polyA or SSR tail for LINEs and SINEs, and the length of the TEs with respect to expectations for the class concerned.
We designed PASTEC as a modular multi-agent classifier. The system is composed of four types of agents: retrievers, classifiers, filter agents, and a super-agent (Figure 1). The retriever agents retrieve the pre-computed analysis results stored in the MySQL database. They act on the requests of the classifier or filter agents, filtering, formatting and supplying the results. The classifier and filter agents are specialized to recognize a particular category. For example, the LTR agent can determine only whether the TE is a LTR or not. The classifier and filter agents act on the request of the super-agent, deciding whether they can classify the TE or not. For example, the LTR agent decides whether the consensus TE is a LTR on the basis of the following evidence: presence of the ENV (envelope protein) profile (a condition sufficient for classification), the presence of INT (integrase), RT (reverse transcriptase), GAG (capsid protein), AP (aspartate proteinase) and RH (RNase H) profiles together with the detection of a LTR (long terminal repeat), a blast match with the sequence of a known LTR retrotransposon. The super-agent resolves classification conflicts and formats the output file. It resolves conflicts by using a confidence index normalized to 100. For example, the LTR agent calculates a confidence index with the following rules: presence of ENV profiles (+2 because this condition is sufficient for classification), presence of a long terminal repeat and an INT, GAG, RT, RH or AP profile (+1 for each profile combined with the long terminal repeat), +1 for each profile (ENV, AP, RT, RH and GAG) found in the same frame in the same ORF. If the consensus matches at least one known LTR retrotransposon, the LTR agent adds +2 for each type of blast (blastx or tblastx) at the confidence index. Finally, the length of the TE is taken into account because we add +1 if the TE without the long terminal repeat is between 4000 and 15000 bp in length, and we decrease the confidence index by 1 if the TE without the long terminal repeat is less than 1000 bp or more than 15000 bp long. The super-agent uses the maximum confidence index defined for each classifier agent to normalize the confidence index for each classification to 100 and then compare the different classifications. Advanced users can edit all decisions rules and maximum confidence indices in the Decision_rules.yaml file.
The output can be read by humans and is biologist-friendly. A single line specifies the name of the TE, its length, status, class, order, completeness, confidence index and all the features characterizing it. A status of “potential chimeric” or “OK” is assigned to the TE. If the TE is not considered to be “OK” then users must apply their own expertise. A TE is declared “potential chimeric” when at least two classifications are possible. In this case, PASTEC chooses the best status based on the available evidence, or does not classify the TE if no decision is possible. In this last case, all possible classifications are given (separated by a pipe symbol “|”). We present an example of PASTEC output in table S1. PASTEC output is a tabular file, with the columns from left to right indicating the name of the TE, its length, the orientation of the sequence, chimeric/non-chimeric status (OK indicating that the element is not potentially chimeric), class (class I in this case), order. In the first line of the example provided, the TE is a LTR. We presume that the element is complete because we have no evidence to suggest that it is incomplete, and the confidence index is 71/100. The last column summarizes all the evidence found: coding sequence evidence, such as the results of tblastX queries against the Repbase database (TE_BLRtx evidence), blastX queries against the Repbase database (TE_BLRx evidence) and profiles. A blast match is taken account if coverage exceeds 5%, and a profile is taken into account if its coverage exceeds 20% (these parameters can be edited in the configuration file). For each item of coding sequence evidence, the coverage of the subject is specified. The structural evidence is also detailed: >4000 bp indicates that TE length without terminal repeats is between 4000 and 15000 bp, the next item of information presented in the comments columns is the presence of terminal repeats: we have a LTR in this case, with an LTR length of 433 bp; two long ORFs have been identified, the last of which contains four profiles in the same frame and is up to 3000 bp long. Other evidence provided for this example includes the partial match with a Drosophila melanogaster gene (coverage 16.55% and the TE contains 18% SSRs). The super-agent determines whether a TE is complete based on whether it is sufficiently long, whether the expected terminal repeats or polyA tail are present, whether blast match coverage exceeds 30% and profile coverage exceeds 75%. The second line of the example corresponds to a potentially chimeric TE, for which human expertise is required.
Hoede C., Arnoux S., Moisset M., Chaumier T., Inizan O., Jamilloux V, & Quesneville H. (2014). PASTEC: An Automatic Transposable Element Classification Tool. PLoS ONE, 9(5), e91929.
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Publication 2014
Aspartate Capsid Proteins Chimera Consensus Sequence DNA, Ribosomal Drosophila melanogaster FCER2 protein, human Gene Products, env Genes Genome Homo sapiens Integrase Open Reading Frames Peptide Hydrolases Poly(A) Tail Poly A Reading Frames Retrotransposons Ribonuclease H RNA-Directed DNA Polymerase Short Interspersed Nucleotide Elements Short Tandem Repeat Tail Tandem Repeat Sequences Terminal Repeat Sequences
3
PHAST: Prophage Sequence Database
Cited 65 times
PHAST's prophage sequence database consists of a custom collection of phage and prophage protein sequences from two sources. One is the National Center for Biotechnology Information (NCBI) phage database that includes 46 407 proteins from 598 phage genomes. The other source is from the prophage database (12 ), which consists of 159 prophage regions and 9061 proteins not found in the NCBI phage database. Since many of the prophage proteins in the prophage database are actually bacterial proteins and some have only been identified computationally, we only selected those prophage proteins that have been associated with a clear phage function. This set includes a total of 379 phage protease, integrase and structural proteins. This PHAST phage library is used to identify putative phage proteins in the query genome via BLASTP (13 (link)) searches.
In addition to a custom, self-updating phage sequence library, PHAST also maintains a bacterial sequence library consisting of 1300 non-redundant bacterial genomes/proteomes from all major eubacterial and archaebacterial phyla. This bacterial sequence library contains more than four million annotated or partially annotated protein sequences. Relative to the full GenBank protein sequence library (100+ million sequences), this bacterial-specific library is 25× smaller. This means that PHAST's genome annotation step (see below) can be accomplished 25× faster.
Zhou Y., Liang Y., Lynch K.H., Dennis J.J, & Wishart D.S. (2011). PHAST: A Fast Phage Search Tool. Nucleic Acids Research, 39(Web Server issue), W347-W352.
Publication 2011
Amino Acid Sequence Archaea Bacteria Bacterial Proteins Bacteriophages DNA Library Genome Genome, Bacterial Integrase Peptide Hydrolases Prophages Proteins Proteome
4
Comprehensive Viral Genome Reconstruction and Analysis
Cited 57 times
We downloaded 735,106 contigs >5 kb from IMG/VR 2.0 (ref. 25 (link)), after exclusion of viral genomes from cultivated isolates and proviruses identified from microbial genomes. We also downloaded 488,131 contigs >5 kb or circular from the GOV 2.0 dataset6 (link) (datacommons.cyverse.org/browse/iplant/home/shared/iVirus/GOV2.0). These were used as input to CheckV to estimate the completeness, identify host–virus boundaries and predict closed genomes. When running the completeness module, we excluded perfect matches (100% AAI and 100% AF) to prevent any DTR contig from matching itself in the database (since IMG/VR 2.0 and GOV 2.0 were used as data sources to form the CheckV database). A Circos plot61 (link) was used to link IMG/VR contigs to their top matches in the CheckV database. Protein-coding genes were predicted from proviruses using Prodigal and compared to HMMs from KEGG Orthology (release 2 October 2019)45 (link) using hmmsearch from the HMMER package v.3.1b2 (≤1 × 10–5 and score ≥30). Pfam domains with the keyword ‘integrase’ and ‘recombinase’ were also identified across all proviruses.
The largest DTR contig we identified from IMG/VR was further annotated to illustrate the type of virus and genome organization represented (IMG ID: 3300025697_____Ga0208769_1000001). Coding sequence prediction and functional annotations were obtained from IMG35 (link). Annotation for virus hallmark genes including a terminase large subunit (TerL) and major capsid protein were confirmed via HHPred v.3.2.0 (ref. 62 (link)) (databases included PDB 70_8, SCOPe70 2.07, Pfam-A 32.0 and CDD 3.18, score >98). A circular genome map was drawn with CGView63 (link). To place this contig in an evolutionary context, we built a TerL phylogeny including the most closely related sequences from a global search for large phages42 (link). The TerL amino acid sequence from the DTR contig was compared to all TerL sequences from the ‘huge phage’ dataset via blastp (≤1 × 10–5, score ≥50) to identify the 30 most similar sequences (sorted based on blastp bit-score). These reference sequences and DTR contigs were aligned with MAFFT v.7.407 (ref. 64 (link)) using default parameters, the alignment automatically cleaned with trimAL v.1.4.rev15 with the option ‘--gappyout’65 (link) and a phylogeny built with IQ-Tree v.1.5.5, with default model selection (optimal model suggested: LG+R4)66 (link). The resulting tree was visualized with iToL67 (link).
Nayfach S., Camargo A.P., Schulz F., Eloe-Fadrosh E., Roux S, & Kyrpides N.C. (2020). CheckV assesses the quality and completeness of metagenome-assembled viral genomes. Nature Biotechnology, 39(5), 578-585.
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Publication 2020
Amino Acid Sequence Bacteriophages Biological Evolution Capsid Proteins Gene Annotation Gene Products, Protein Genome Genome, Microbial Hypertelorism, Severe, With Midface Prominence, Myopia, Mental Retardation, And Bone Fragility Integrase Open Reading Frames Protein Subunits Proviruses Recombinase terminase Trees Viral Genome Virus
5
Cloning and Expression of GCaMP Variants
Cited 40 times
The original GCaMP2 expression construct was obtained from M. Kotlikoff 34 (link), TN-XXL from O. Griesbeck 6 , and D3cpV from A. Palmer 13 (link). GCaMPs were sub-cloned into pRSETa for expression and purification in E. coli. GCaMPs were sub-cloned into pCMV for HEK293 cell assays and cultured brain slice experiments. GCaMP variants, TN-XXL and D3cpV were sub-cloned into the pCAGGS vector with a CAG promoter (CMV-enhancer, β-actin promoter, and regulatory element from the woodchuck hepatitis virus35 (link) (WPRE)) for in utero electroporation 36 (link). pCAG-mCherry 37 (link) was co-transfected with GCaMPs for cultured hippocampal slices and in utero electroporation for better control of expression level. To make transgenic worms and flies, GCaMPs were sub-cloned into pSM under control of the str-2 promoter (from C.I. Bargmann) and pMUH (a gift from Barret Pfeiffer, Janelia Farm Research Campus), respectively. pMUH-GCaMPs were incorporated into an attP40 integrase site on the second Drosophila chromosome 38 (link) (Genetic Services, Inc.). For in vivo calcium imaging in mice, GCaMP2 and GCaMP3 were expressed using an adeno-associated virus 2/1 (AAV2/1) driving the sensor under control of the pan-neuronal human synapsin-1 promoter 39 (link). GCaMP2 and GCaMP3 were sub-cloned into the rAAV-hSYN expression vector, and live virus was produced (University of Pennsylvania Vector Core Services). All constructs were verified by sequencing.
Tian L., Hires S.A., Mao T., Huber D., Chiappe M.E., Chalasani S.H., Petreanu L., Akerboom J., McKinney S.A., Schreiter E.R., Bargmann C.I., Jayaraman V., Svoboda K, & Looger L.L. (2009). Imaging neural activity in worms, flies and mice with improved GCaMP calcium indicators. Nature methods, 6(12), 875-881.
Publication 2009
Actins Adeno-associated virus-2 Animals, Transgenic Biological Assay Brain Calcium Chromosomes Cloning Vectors Diptera Drosophila Electroporation Escherichia coli GCaMP2 HEK293 Cells Helminths Hepatitis A Homo sapiens Integrase Marmota Mice, Laboratory Neurons Regulatory Sequences, Nucleic Acid Service, Genetic Synapsin I Uterus Virus

Most recents protocols related to «Integrase»

1
Structural Comparison of Mammalian Numb Isoforms
Not available on PMC !

Example 37

Structural comparison between mouse Numblike and its mammalian Numb homologues and construction of integrase-deficient, transgene expressing lentivectors.

FIG. 20A illustrates that Numblike shows greater than 70% sequence identity in its amino terminal half to the shortest Numb homologue, but less than 50% identity in its cytoplasmic half where a unique 15 amino acid polyglutamine domain (purple) is found. The longest Numb isoform contains an 11 amino acid insert (white) within its phosphotyrosine binding (PTB) domain (black), as well as a 49 amino acid insert (gray) adjacent to a proline rich region (PRR). Two intermediate sized isoforms contain either the PTB or PRR inserts, but not both. The shortest Numb isoform lacks both inserts. FIG. 20B illustrates the HIV-EGFP Numblike and HIV-EGFP-NumbPTB+/PRR+vectors constructed from the two-gene HIV-EGFP-HSA vector (Reiser et al., 2000) by cloning the transgene cDNAs into nef coding region previously occupied by the mouse HSA cDNA. Abbreviations: Rev-response element (RRE), slice donor site (SD), splice acceptor site (SA).

US11859168B2. Electroporation, developmentally-activated cells, pluripotent-like cells, cell reprogramming and regenerative medicine (2024-01-02). None [US]. Inventors: Christopher B. Reid [US], Melissa Braga [US], Lilian N. Santamaria [US], Ashley N. Wickrema [US], Marinne D. Wickrema [US], Anthony Hao Dinh [US], Yaman Eksioglu [US], Mat Hoang Ho [US].
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Patent 2024
Amino Acids Cells Cloning Vectors Cytoplasm DNA, Complementary Electroporation Genetic Vectors Integrase Mammals Mice, Laboratory Phosphotyrosine polyglutamine Proline Protein Isoforms Response Elements Splice Acceptor Site Tissue Donors Transgenes
2
Predicting Horizontal Gene Transfer in Endosymbionts
We used HGTector (v2.0; ‘--evalue 1e-20 --identity 30 --coverage 40’; and for ‘Ca. Tisiphia’ ‘--self-tax 114295 --close-tax 780’) [75 (link)] to predict horizontal gene transfer (HGT) events in the endosymbiont genomes. To keep the analysis conservative, we excluded all genes annotated as transposable elements (TEs) (IS elements, phages, introns) or genes that are part of TEs (integrases, reverse transcriptases) from the output. We also excluded genes predicted to be transferred from members of the phylum Chlamydiae for Rhabdochlamydia oedothoracis W744×776 and genes predicted to be transferred from members of the family Rickettsiaceae for Candidatus Tisiphia sp. Oegibbosus-W744×776 as we focused our analysis on HGTs between distantly related groups.
Halter T., Köstlbacher S., Rattei T., Hendrickx F., Manzano-Marín A, & Horn M. (2023). One to host them all: genomics of the diverse bacterial endosymbionts of the spider Oedothorax gibbosus. Microbial Genomics, 9(2), mgen000943.
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Publication 2023
Bacteriophages Chlamydia DNA Transposable Elements Family Member Genes Gene Transfer, Horizontal Genome Integrase Introns Rhabdochlamydia Rickettsiaceae RNA-Directed DNA Polymerase
3
Comparative analysis of prophage regions
The chromosome sequence of strain TW14359 was reannotated by dfast [46 (link)], and its PP regions were predicted by phaster [47, 48 (link)], followed by manual curation to precisely identify each PP region, including attL and attR sequences. IEs not detected by phaster were identified by searching genes annotated as ‘integrase genes’, followed by manual inspection. For the other closed genomes, PP/IE integration sites (attB sites) identified in strain TW14359 were analysed for the presence of PPs/IEs and their sequences, if present. PPs/IEs not found in strain TW14359 were identified by integrase gene search, as described above. The PPs/IEs found in all closed genomes (Table S3) were annotated by dfast, followed by manual curation. Insertion sequences (ISs) in the PP/IE sequences were detected and typed by ISfinder [49 (link)]. Genetic organizations of PPs/IEs were visualized by GenomeMatcher v3.0.2. Sequence similarity of PPs/IEs located at the same loci was analysed by dot-plot analyses using GenomeMatcher v3.0.2 and by calculating pairwise Mash distances [50 (link)] with default parameters (k-mer size of 21, and sketch size of 1000). The results of pairwise Mash distance analysis are presented as violin plots using RAWGraphs 2.0 beta (https://dl.acm.org/doi/10.1145/3125571.3125585).
Miyata T., Taniguchi I., Nakamura K., Gotoh Y., Yoshimura D., Itoh T., Hirai S., Yokoyama E., Ohnishi M., Iyoda S., Ogura Y, & Hayashi T. (2023). Alteration of a Shiga toxin-encoding phage associated with a change in toxin production level and disease severity in Escherichia coli. Microbial Genomics, 9(2), mgen000935.
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Publication 2023
Chromosomes Genes Genome Integrase Reproduction Sequence Insertion Strains TTR protein, human
4
Drosophila Transgene Integration
Injections were carried out by Rainbow Transgenic Flies (Camarillo, CA, USA) to transform flies through φC31 integrase-mediated integration into attP sites. Each HACK donor vector was inserted into the attP40 (on the 2nd chromosome) and attPVK00027 (on the 3rd chromosome) sites. 13XLexAop2-GFPnls-PEST was inserted into attPVK00033 site.
Karuparti S., Yeung A.T., Wang B., Guicardi P.F, & Han C. (2023). A toolkit for converting Gal4 into LexA and Flippase transgenes in Drosophila. G3: Genes|Genomes|Genetics, 13(3), jkad003.
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Publication 2023
Animals, Transgenic Chromosomes Cloning Vectors Diptera Integrase Plague Tissue Donors
5
HIV Integrase Strand Transfer Inhibitor Assay
The
assay for the detection of HIV-1 integrase strand transfer (ST) inhibitors
was adapted from previously described methods.21 (link) A double-stranded biotinylated donor DNA, corresponding
to the HIV U5 viral DNA end, was added to the wells of Streptavidin-coated
96-well microtiter plates (R&D systems). Following a 1 h incubation
at r.t. and three wash steps with PBS, purified recombinant integrase
(1 μM) was assembled using DTT (dithiothreitol, 1 M) onto the
preprocessed donor DNA through incubation for 30 min at 22 °C.
After the wash step, the test compounds and a positive control inhibitor
(Raltegravir, Merck) were added into individual wells at a final concentration
of 10 μM. The microtiter plates were incubated for 30 min at
37 °C and washed. The strand transfer reaction was initiated
through the addition of FITC-labeled target dsDNA (5′-TGACCAAGGGCTAATTCACT-FITC-3′
and 5′-AGTGAATTAGCCCTTGGTCA-FITC-3′).
The plates were incubated for a period of 1 h at 37 °C followed
by washing as before. An AP (Alkaline S2 phosphatase)-conjugated anti-FITC
secondary antibody (Sigma) was added and the plates were washed. The
chromogenic substrate (BluePhos, KPL) was added to allow for photometric
measurement at 620 nm using a microplate reader (xMark, Biorad). Percentage
inhibition was calculated utilizing the formula: where A620(Comp) = Absorbance at 620 nm with compounds, A620_No_integrase_control = Absorbance at 620 nm containing no enzyme, and A620_No_inhibitor_control = Absorbance at 620 nm containing
no inhibitor. All inhibition values are the average of triplicate
experiments.
Cardoza S., Yadav P., Ajmani A., Das P, & Tandon V. (2023). Synthesis of C3,C6-Diaryl 7-Azaindoles via One-Pot Suzuki–Miyaura Cross-Coupling Reaction and Evaluation of Their HIV-1 Integrase Inhibitory Activity. ACS Omega, 8(9), 8415-8426.
Publication 2023
Alkaline Phosphatase Antibodies, Anti-Idiotypic COMP protocol Dithiothreitol DNA, Double-Stranded DNA, Viral Enzymes Fluorescein-5-isothiocyanate Integrase p31 integrase protein, Human immunodeficiency virus 1 Psychological Inhibition Raltegravir Streptavidin Tissue Donors

Top products related to «Integrase»

1
φc 31 integrase mediated transformation by BestGene
The ΦC-31 integrase mediated transformation is a laboratory tool used for the integration of DNA sequences into the genome of a host organism. It utilizes the ΦC-31 integrase enzyme to facilitate the insertion of genetic material into specific sites within the target genome.
2
Phic31 integrase mediated transgenesis by BestGene
PhiC31 integrase-mediated transgenesis is a tool used for genetic modification. It facilitates the integration of foreign DNA into the host genome at specific target sites. The integrase enzyme from the phiC31 bacteriophage catalyzes the insertion process.
3
Q5 high fidelity polymerase by New England Biolabs
Sourced in United States, Germany, United Kingdom
The Q5 high-fidelity polymerase is a DNA polymerase enzyme that offers high-fidelity DNA amplification. It possesses 3'->5' exonuclease activity for proofreading, enabling accurate DNA synthesis with low error rates.
4
Lipofectamine 2000 by Thermo Fisher Scientific
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Lipofectamine 2000 is a cationic lipid-based transfection reagent designed for efficient and reliable delivery of nucleic acids, such as plasmid DNA and small interfering RNA (siRNA), into a wide range of eukaryotic cell types. It facilitates the formation of complexes between the nucleic acid and the lipid components, which can then be introduced into cells to enable gene expression or gene silencing studies.
5
Elav gal4 by Bloomington Drosophila Stock Center
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The Elav-Gal4 is a genetic tool used in Drosophila research. It is a driver line that expresses the Gal4 transcription factor under the control of the elav (embryonic lethal abnormal vision) gene promoter, which is active in all post-mitotic neurons. This allows for the targeted expression of transgenes in the neuronal cells of Drosophila.
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Gibson assembly master mix by New England Biolabs
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The Gibson Assembly Master Mix is a laboratory reagent used for the assembly of DNA fragments. It enables the seamless joining of multiple DNA segments in a single isothermal reaction. The product functions to facilitate the cloning and construction of recombinant DNA molecules.
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Cfx96 real time pcr detection system by Bio-Rad
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The CFX96 Real-Time PCR Detection System is a thermal cycler designed for real-time PCR analysis. It is capable of detecting and quantifying nucleic acid sequences in real-time using fluorescent dyes or probes.
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Lightcycler 480 by Roche
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The LightCycler 480 is a real-time PCR instrument designed for quantitative nucleic acid analysis. It features a 96-well format and uses high-performance optics and detection technology to provide accurate and reliable results. The core function of the LightCycler 480 is to facilitate real-time PCR experiments through thermal cycling, fluorescence detection, and data analysis.
9
Ecori by New England Biolabs
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EcoRI is a type II restriction endonuclease enzyme isolated from the bacterium Escherichia coli. It recognizes and cleaves the DNA sequence 5'-GAATTC-3' and its reverse complement 5'-CTTAAG-3'.
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Fetal bovine serum (fbs) by Thermo Fisher Scientific
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Fetal Bovine Serum (FBS) is a cell culture supplement derived from the blood of bovine fetuses. FBS provides a source of proteins, growth factors, and other components that support the growth and maintenance of various cell types in in vitro cell culture applications.

More about "Integrase"

Integrase is a critical enzyme involved in the integration of viral DNA, such as from retroviruses like HIV, into the host cell's genome.
This process is essential for the virus to establish a persistent infection.
Researchers studying Integrase aim to understand its structure, function, and mechanisms in order to develop effective antiviral therapies that target this key viral component.
Related terms and concepts include ΦC-31 integrase, which is a type of integrase used in transgenesis procedures, and PhiC31 integrase-mediated transgenesis, a technique that utilizes this enzyme for genetic modification.
Other relevant tools and technologies include the Q5 high-fidelity polymerase, a DNA polymerase with enhanced accuracy; Lipofectamine 2000, a transfection reagent; Elav-Gal4, a genetic driver system; Gibson Assembly Master Mix, a DNA assembly method; the CFX96 Real-Time PCR Detection System and LightCycler 480, instruments for quantitative PCR; and the restriction enzyme EcoRI, which can be used in molecular biology experiments.
Fetal bovine serum (FBS) is also a common component in cell culture media.
PubCompare.ai's AI-driven comparisons across literature, pre-prints, and patents can help optimize Integrase research by identifying the best protocols and products, enhancing reproducibility and accuracy while empowering researchers to make informed decisions.
By utilizing these insights and tools, researchers can advance their understanding of Integrase and develop more effective antiviral therapies.