Polymerase chain reGene AmplificationAssaysAmino acid sequencesEvolutionarily conservedNucleic acid amplificIsothermal amplificationBacterialDetectionProteinPrimers were designedGenomicCytochromeHighlyPhylogenetic analysisRegionsComplementaryRRNA genesSpeciesMolecularOrganismsCDNAOligonucleotideHuman genomeSangerUnique sequencesMutationsSamplesAmpliconAlignmentMotifsSpecificAnalysisFragmentEnterovirusAnalysesGenBankMismatchesDetectClonesDeterminationTargetFluorescentResultsHomologyRegionEukaryoticDirectTypicallyComponentsPartialVariant
Polymerase chain re4
- With a standard set of primers directed toward conserved regions, we have used the polymerase chain reaction to amplify homologous segments of mtDNA from more than 100 animal species, including mammals, birds, amphibians, fishes, and some invertebrates. (nih.gov)
- We have also used oligonucleotide primers, complementary to conserved sequences within bacterial ribosomal 16S genes, to amplify a H. pylori ribosomal 16S DNA fragment via the polymerase chain reaction (PCR). (nih.gov)
- However, enteroviruses have been implicated in the pathogenesis of chronic myocarditis and dilated cardiomyopathy, and the recent application of the reverse transcription, nested polymerase chain reaction (RT-NPCR), including nucleotide sequencing of PCR products, has unequivocally demonstrated coxsackie B3-like RNA in endomyocardial biopsies from such cases. (bmj.com)
- The variable regions can be used to identify bacteria species, whereas the conserved regions are amenable to easy DNA amplification using polymerase chain reaction (PCR) techniques. (nih.gov)
Gene Amplification2
- The utilization of these probes for in situ hybridization 21 and gene amplification by the PCR 9 11 20 23 has helped to elucidate the etiology of myocardites. (rsbmt.org.br)
- The traditional methods to discover new conotoxins are peptide purification from the crude venom or gene amplification from the venom duct. (figshare.com)
Assays5
- Mediated Isothermal Amplification based assays for the selective and/or specific identification of, and discrimination among the two (2) Leishmania species encountered in Tunisia. (who.int)
- Current diagnostic PCR assays target a variety of SARS CoV-2 genes and the vast majority target sequences in regions of the SARS CoV-2 genome that are highly conserved. (who.int)
- Yeast one-hybrid assays showed that SsDREB protein specifically binds to the DRE sequence and could activate the expression of reporter genes in yeast, suggesting that the SsDREB protein was a CBF/DREB transcription factor. (hindawi.com)
- The innovative system combines liquid-based sample preparation with downstream PCR detection of your region of interest using CRISPR-Q Custom PCR Assays and optional sequencing using CRISPR-Q Sanger Primers. (qiagen.com)
- The Cell Lysis Buffer provides efficient room-temperature lysis without affecting downstream target amplification (see figures Cell Lysis Buffer rapidly lyses cells at room temperature. Lysis of 12,000 MCF7 (A) and U2OS (B) cells at RT, 37°C and 50°C for 5, 30, 60 and 90 min. The lysis reaction was inactivated at 80°C for 10 min. PCR was carried out using the CRISPR-Q Custom PCR Assay targeting ANTXR1. The presence of PCR product was verified using the QIAxcel Advanced. "> Cell Lysis Buffer rapidly lyses cells at room temperature and Target amplification unaffected by cell lysis buffer. Cell Lysis Buffer efficiently lyses cells without affecting downstream target amplification. Different volumes of a raw cell lysate (100 cells/µl) generated with the Cell Lysis Buffer were added to an AllTaq PCR. Target amplification of ELOVL6 (A) and EMX1 (B) was performed using CRISPR-Q Custom PCR Assays. "> Target amplification unaffected by cell lysis buffer ). (qiagen.com)
Amino acid sequences4
- The nucleotide and deduced amino acid sequences of cytochrome c-processed pseudogene are on the sense strand while those of the RORα2 amino-terminal exon are on the antisense strand. (wikipedia.org)
- The deduced amino acid sequences of Scn1ba_tv1 and Scn1ba_tv2 are identical except for their C-terminal domains. (biomedcentral.com)
- In addition, nucleotide sequence analysis of the homeobox regions of cloned Hox-4.3 and Hox-4.2 genomic DNA revealed some differences in nucleotide sequences and in the deduced homeodomain amino acid sequences compared with the sequences that have been reported. (nih.gov)
- The amino acid sequences of the homeodomains encoded by genes that originated as copies of the same ancestral gene, which are located in different clusters of genes, are more closely related to one another than the homeodomains en- coded by other genes within the same cluster. (nih.gov)
Evolutionarily conserved1
- In this study, we have uncovered a critical role for the evolutionarily conserved. (nih.gov)
Nucleic acid amplific3
- A universal double-stranded DNA control or standard that can be used in all commercial HBV DNA nucleic acid amplification assay kits is urgently needed. (biomedcentral.com)
- More importantly, the armored DNA may be used with all HBV DNA nucleic acid amplification assay kits. (biomedcentral.com)
- In addition, this armored DNA is likely to be appropriate for all commercial HBV DNA nucleic acid amplification detection kits. (biomedcentral.com)
Isothermal amplification3
- The final design requires that the target regions be compatible with existing isothermal amplification methods, such as NASBA and RPA, however for this current stage of the project we will only focus on the design of functional toehold and ribozyme sensors. (jogl.io)
- Viral target regions that are good candidates for isothermal amplification techniques will be chosen. (jogl.io)
- In the future, these sensors can be coupled to isothermal amplification to detect clinically relevant samples. (jogl.io)
Bacterial8
- DNA transposable elements include bacterial IS (insertion sequence) elements, Tn elements, the maize controlling elements Ac and Ds, Drosophila P, gypsy, and pogo elements, the human Tigger elements and the Tc and mariner elements which are found throughout the animal kingdom. (lookformedical.com)
- High-throughput sequencing of bacterial 16S rRNA gene (16S-seq) is a useful and common method for studying bacterial community structures. (biomedcentral.com)
- Our Cas-16S-seq can efficiently remove abundant host contamination without a bias for 16S rRNA gene-based amplicon sequencing, thereby enabling deeper bacterial community profiling with a low cost and high flexibility. (biomedcentral.com)
- Eliminating abundant host 16S rRNA genes mixed with numerous bacterial homologs from amplification in PCR is challenging. (biomedcentral.com)
- However, a recent study found that the PNA oligo also blocked certain bacterial sequences from PCR amplification, thereby introducing a significant bias in microbiota profiling [ 19 ]. (biomedcentral.com)
- The method is based on the PCR amplification of hypervariable regions in the bacterial genome, in this case the 16S rRNA gene, using primers located in conserved areas. (cdc.gov)
- To obtain a more balanced estimate of the bacterial population on human skin, Segre and her colleagues chose to characterize the diversity in the sequence of genes common to all prokaryotes. (nih.gov)
- This gene is ideally suited for such an undertaking, Segre observed, because it is present in all bacteria and contains notonly regions that hardly vary between different bacterial species but also others that exhibit substantial variety in their sequences. (nih.gov)
Detection10
- Finally, by comparing the H. pylori-specific PCR assay to commonly used diagnostic tests, we demonstrate that the molecular technique of PCR amplification shows promising applications for the clinical detection of H. pylori. (nih.gov)
- By employing gene-specific primers for IGH and IGK amplifying smaller amplicon sizes in combination with deep sequencing technology, this NGS-based IG clonality analysis showed robust performance, even in DNA samples of suboptimal DNA integrity, and a high clinical sensitivity for the detection of clonal rearrangements. (nature.com)
- Detection of EV sequence in cardiac tissues, particularly myocardial cells, was reported in the following years 2 13 . (rsbmt.org.br)
- It also claimed that "the product of the PointMan enrichment assay can then be used in combination with standard detection methodologies such as PCR, pyrosequencing, and Sanger sequencing. (genomeweb.com)
- Real time PCR comprises both amplification and fluorescent detection of the sample in the same step. (ijlr.org)
- The objective of this document is to outline the available methods and tools for screening and sequencing patient specimens for the detection of VOC or VOI, with a focus on those that offer a rapid turn-around time so as to support rapid implementation of public health actions for COVID 19 control. (who.int)
- Uses for the reaction include disease diagnosis, detection of difficult-to-isolate pathogens, mutation analysis, genetic testing, DNA sequencing, and analyzing evolutionary relationships. (lookformedical.com)
- The CRISPR-Q Sanger Sequencing Analysis tool, which is available in GeneGlobe, enables quick and convenient analysis to complete the entire CRISPR editing detection workflow. (qiagen.com)
- Detection and classification of phytoplasmas mainly rely on amplification of the 16S rRNA gene followed by RFLP analysis and/or sequencing, because these organisms lack complete phenotypic characterization. (unibo.it)
- 7. The use of general primers GP5 and GP6 elongated at their 3' ends with adjacent highly conserved sequences improves human papillomavirus detection by PCR. (nih.gov)
Protein13
- In this study, the gene encoding this enzyme was amplified, cloned and sequenced and the protein deduced from gene sequencing was found to be highly homologous with a number of putative nitrilases in Aspergillus and Penicillium . (biomedcentral.com)
- Two sets of PCR primers were designed which directed amplification of the N-terminus of the capsid protein gene and the hypervariable region (region E) of the capsid protein of these and 7 additional SMSV serotypes. (usda.gov)
- however, highly conserved residues were identified which are also conserved in the E region of the FCV capsid protein gene. (usda.gov)
- In Streptomycetes, this protein is highly conserved, with 75-91 percent amino acid sequence identity, especially in the DNA binding domain. (alliedacademies.org)
- This protein was classified in the A-6 group of DREB subfamily based on multiple sequence alignments and phylogenetic characterization. (hindawi.com)
- Homeobox proteins are related to one another primarily in the sequence of the 60-amino acid residue DNA-binding-site portion of the protein, the homeodomain. (nih.gov)
- Furthermore, the protein sequence databases ( SWISS-PROT and PIR ) each developed their own taxonomic classifications that were very different from each other and from the nucleotide database taxonomies. (nih.gov)
- The mouse gene, tsg101, appears to suppress malignant cell growth, and the putative protein encoded by tsg 101 has the sequence characteristics of a transcription factor. (davidson.edu)
- An open reading frame of 1140 nucleotides found in the cDNA sequence was predicted to encode a 380 amino acid protein with a mass of 42.841 kDa. (davidson.edu)
- Alignment of the putative human and mouse TSG101 proteins (Figure 1B) shows 94% identity between the protein sequences, with 20 amino acid mismatches and one gap. (davidson.edu)
- A coiled-coil domain and a proline-rich region, both typical features of the activation domain of transcription factors, are highly conserved (only one mismatch), and the leucine zipper motifs in that coiled-coil domain of each protein are identical. (davidson.edu)
- In addition, the human TSG101 amino acid sequence also contains seven possible protein kinase C phosphorylation sites, five possible casein kinase II phosphorylation sites, and three possible N-glycosylation sites that are found in the mouse protein. (davidson.edu)
- Firstly, using both S. mansoni DNA methyltransferase 2 (SmDNMT2) and methyl-CpG binding domain protein (SmMBD) as query sequences, we illustrate that essential DNA methylation machinery components are well conserved throughout the phylum. (aber.ac.uk)
Primers were designed1
Genomic3
- Methods: In this study, a novel O1 superfamily conotoxin Tx6.7 was directly cloned from the genomic DNA of Conus textile using primers corresponding to the conserved intronic sequence and 3' UTR elements. (figshare.com)
- Conclusion: Our results suggested that direct cloning of conotoxin sequences from the genomic DNA of cone snails would be an alternative approach to obtaining novel conotoxins. (figshare.com)
- Other conserved genomic loci have been exploited as additional molecular markers for phytoplasma differentiation. (unibo.it)
Cytochrome1
- Sequence evolution and phylogenetic signal in control-region and cytochrome b sequences of rainbow fishes (Melanotaeniidae). (nih.gov)
Highly8
- Within the ROR family, the DNA-binding domain is highly conserved, and the ligand-binding domain is only moderately conserved. (wikipedia.org)
- In conclusion, the occurrence of highly conserved, repeated DNA sequences in the XMRV genome deeply undermines the reliability of diagnostic PCRs by leading to artifactual and spurious amplifications. (frontiersin.org)
- This sequence is highly conserved across the E2F family, but the ability to bind Deup1 and SAS6 is specific to E2F4 and E2F5, consistent with their shared roles in multiciliogenesis. (molbiolcell.org)
- Here, the EuroClonality-NGS Working Group presents a multicentre technical feasibility study of a novel approach involving next-generation sequencing (NGS) of IGH and IGK loci rearrangements that is highly suitable for detecting IG gene rearrangements in frozen and formalin-fixed paraffin-embedded tissue specimens. (nature.com)
- The nitrilase from Aspergillus niger K10 is highly homologous (≥86%) with proteins deduced from gene sequencing in Aspergillus and Penicillium genera. (biomedcentral.com)
- Highly conserved regions are less likely to mutate, therefore there is a high likelihood that the diagnostic test will remain accurate in the presence of variants. (who.int)
- Both the amino acid sequence of the homeodomain encoded by each gene and the order of the genes within the four mammalian Antp-Ubx clusters of genes have been highly conserved during evolution. (nih.gov)
- Multiple species of oligodeoxynucleotides that correspond to highly conserved sequences in the ho- meoboxes of many mouse homeobox genes were synthesized with the aid of an Applied Biosystems DNA synthesizer model 380B and purified by OPC (Applied Biosystems) column chromatography. (nih.gov)
Phylogenetic analysis3
Regions13
- Regions of the L. killicki ( L. tropica ) and L. major genes sequences were scanned using BLAST program and subsequently compared using appropriate bioinformatic tools Chromas and MEGA. (who.int)
- The sequences identified in the previous section of the work were used to design a combinations of 6 primers in 8 distinct regions of the target sequences for the amplification of a selection of reference DNAs belonging to the different Old World Leishmania species. (who.int)
- The complete genome of PyRV1 consists of 13,509 nucleotides, the organization of which was typical of rhabdoviruses, containing six open reading frames encoding proteins N-P-P3-M-G-L on the anti-sense strand, separated by conserved intergenic regions and flanked by complementary 3'-leader and 5'-trailer sequences. (bvsalud.org)
- In the case of B cell lymphoma, the germline variable (V), diversity (D), and joining (J) genes of the IG loci become rearranged during early development and undergo random deletion and insertion of nucleotides within the junctional regions, thereby generating specific and unique sequences for each B lymphocyte [ 3 ]. (nature.com)
- A sequence comparison of the seven DNA regions showed that both types were closely related to IncA/C plasmids found in Escherichia , Salmonella , Yersinia , Photobacterium , Vibrio and Aeromonas . (biomedcentral.com)
- So internal primers can be used to sequence the regions that cannot be reached by the main (external) forward and reverse primers. (stackexchange.com)
- Otherwise, you would need to align the existing sequences from the other populations, and look through regions of the alignment that are conserved which could act as potential priming sites. (stackexchange.com)
- By aligning all HBV genotypes (A-H), we found that the surface antigen gene and precore-core gene regions of HBV are the most conserved regions among the different HBV genotypes. (biomedcentral.com)
- RNA was isolated from patient plasma and a two step RT-PCR amplification of the gag p24, env gp41 IDR, env gp120 V3 and pol genome regions performed. (sun.ac.za)
- Conserved regions identified in the Khayelitsha sequences can induce CD4+ T-cell responses and are important antibody recognition target sites. (sun.ac.za)
- These conserved regions can play a key role in the development of an effective HIV-1 immunogen reactive against all HIV-1 subtypes. (sun.ac.za)
- In this report, the nucleotide sequences of the homeobox regions of Hox-/.1] and Hox-4.9 genes are described. (nih.gov)
- This location lends further credence to the hypothesis that human TSG101 is a genuine homologue of the mouse tsg101 given the presence of conserved syntenic regions on human chromosome 11p and mouse chromosome 7. (davidson.edu)
Complementary1
- The essential steps include thermal denaturation of the double-stranded target molecules, annealing of the primers to their complementary sequences, and extension of the annealed primers by enzymatic synthesis with DNA polymerase. (lookformedical.com)
RRNA genes1
- Additionally, EES give a biased view of the diversity present in a given biotope because of the difficult amplification of SSU rRNA genes in some taxonomic groups. (biomedcentral.com)
Species6
- We opted for conserved sequences between species, presenting enough sequence heterogeneities to be considered for the design of species- specific LAMP primers: such primers would allow the selective amplification of the DNA targets. (who.int)
- According to a procedure that has been previously validated for the identification of species - specific targets among which some fragments would fit into the second category of sequences expected. (who.int)
- In case of homologies identified with the other Leishmania species, these sequences were compared to L. major and/or L. tropica using MEGA software. (who.int)
- First of all we proceeded to an alignment using the CLUSTAL W program to each Leishmania species and for the selected gene (cysteine protase b) (the alignment use published sequences and sequences which were sequenced in our laboratory). (who.int)
- Thus, no full genome sequence of a gymnosperm species is available at present, whereas 30 angiosperm and more basal plant genomes have been sequenced. (nature.com)
- Positive identification of major species, and species with differing prevalence in moisture damaged homes and reference homes, will be performed by extraction of DNA from DGGE gels, followed by cloning and sequencing. (cdc.gov)
Molecular3
- The Committee concluded that additional work may be needed to assess the viability of the stocks held in VECTOR, and that further molecular characterization of additional strains may be valuable in helping to identify strains from which further DNA sequences could be determined. (who.int)
- To ensure that amplicons are generated from the viral genome rather than an amplification carryover contamination, several common methods have been proposed, including the use of molecular beacons with fluorophores and expensive quenchers. (jogl.io)
- Complicated techniques of molecular amplification, requiring serious infrastructure and biosafety procedures, limit people everywhere from knowing whether the virus is really in their environment or not. (jogl.io)
Organisms1
- Inheritance, homology by common descent, and the conservation of sequence and structure in the determination of function are all central ideas in biology that are directly related to the evolutionary history of any group of organisms. (nih.gov)
CDNA5
- The CgPKAR gene and its corresponding cDNA have been cloned and sequenced. (scialert.net)
- The sequence of the amplification produced affirmed its identity as a segment of FMO4 cDNA. (nih.gov)
- First, the mouse tsg101 cDNA sequence was used to query the Expressed Sequences Tags (ESTs) database of the National Center for Biotechnology Information (NCBI) by the BLAST program in order to find homologous sequences in the human genome. (davidson.edu)
- The query yielded ten sequences of cDNA with 85%-95% identity to the mouse tsg101 cDNA (Figure 1Aa). (davidson.edu)
- With these primers and others corresponding to sequences bracketing the Lambda gt10 cloning site of a human cDNA library, the human TSG101 cDNA was amplified by PCR (Figure 1Ab). (davidson.edu)
Oligonucleotide2
- In vitro method for producing large amounts of specific DNA or RNA fragments of defined length and sequence from small amounts of short oligonucleotide flanking sequences (primers). (lookformedical.com)
- A poorly conserved region of FMO transcripts was used to design five sets of oligonucleotide primers. (nih.gov)
Human genome1
- The recently obtained reference human genome sequence, and the ongoing development of advanced sequencing technologies provide a good starting point to consider large-scale, comprehensive sequencing of tumor samples and the corresponding constitutional tissue. (nih.gov)
Sanger1
- Confirmation by actual sequence information of the clone is warranted, but Sanger sequencing of less pronounced clones is labor intensive and not always feasible. (nature.com)
Unique sequences2
Mutations5
- NIH is seeking input from the community on a project with an ultimate goal of large-scale identification of somatic mutations in cancer through the comparison of sequences of multiple tumor samples to reference sequence from normal tissue from the same individuals. (nih.gov)
- The results were then confirmed by DNA sequencing, which had failed to identify the mutations prior to sample enrichment with PointMan, the company said. (genomeweb.com)
- Webb also noted that the technology is "extremely effective on low-level mutations where other technologies such as DNA sequencing may often fail. (genomeweb.com)
- K222R and S227R mutations on rHA sequence shifted affinity towards Sialyl-Lewis X and led to an increased affinity for chicken mucosa, confirming the involvement of these two mutations in the glycan-binding specificity of the HA. (biomedcentral.com)
- The pol sequences analysed indicate that mutations associated with minor resistance to Protease Inhibitors (PIs) might be present in the Khayelitsha community. (sun.ac.za)
Samples4
- Amplification and direct sequencing were possible using unpurified mtDNA from nanogram samples of fresh specimens and microgram amounts of tissues preserved for months in alcohol or decades in the dry state. (nih.gov)
- The results showed that Cas-16S-seq substantially reduces the fraction of rice 16S rRNA gene sequences from 63.2 to 2.9% in root samples and from 99.4 to 11.6% in phyllosphere samples on average. (biomedcentral.com)
- Accumulation analysis of the gene cassettes amplified from soil samples showed no signs of saturation, and soil samples taken at 1-m intervals along transects demonstrated different amplification profiles. (edu.au)
- In her pilot study, Segre and her team took samples from five patients with no apparent skin disorders at the NIH Clinical Center, amplified their 16S rRNA , and determined the resulting DNA sequences. (nih.gov)
Amplicon2
- Primers generally give good reads from the 5' end for about 600-700 bp and after that the quality of base calling deteriorates, so if your target amplicon is above 1500bp or so, you would need internal primers because the 'external' primers would give you good sequences for only 1400 bp or so (600-700 bp from both directions, for fwd and rev primers). (stackexchange.com)
- To date, efficiently mitigating such host contamination without a bias is challenging in 16S rRNA gene-based amplicon sequencing. (biomedcentral.com)
Alignment2
- Alignment analysis showed that the two PvCOLs had the highest sequence similarity to rice Hd1. (biomedcentral.com)
- Based on a detailed screening of an exhaustive alignment of eukaryotic SSU rRNA gene sequences and the phylogenetic re-analysis of previously published environmental sequences using Bayesian methods, our results suggest that the number of novel higher-level taxa revealed by previously published EES was overestimated. (biomedcentral.com)
Motifs1
Specific7
- In previous studies, we have identified cysteine protease b sequences, which are specific to L. infantum . (who.int)
- Experimental studies that have been conducted to detect EV sequences in cardiac tissues 12 15 17 have used generic and specific primers 22 . (rsbmt.org.br)
- In addition, he wrote that "the method is not allele-specific and will amplify any/all variants in the target sequence. (genomeweb.com)
- I need additional COI sequences from a specific population. (stackexchange.com)
- Homeobox genes code for proteins that bind to specific nucleotide sequences in DNA and either activate or inhibit the expression of the corresponding genes (for reviews, see refs. (nih.gov)
- Our solution consists of developing a cell-free sensor that is sequence-specific and capable of generating a visible colorimetric output. (jogl.io)
- For this project, toehold and ribozyme-sensors will be designed using Nupack and Ribosoft softwares, respectively, to recognize sequences specific to Sars-CoV-2 and not other respiratory viruses to allow the expression of a reporter gene only when interaction with the RNA target has occurred. (jogl.io)
Analysis3
- Among them, a potential autonomous element was identified by similarity analysis against the whole-genome sequence of Phalaenopsis equestris and named PePIF1 . (biomedcentral.com)
- allow proceeding to the in silico comparative genomics analysis of Leishmania DNAs and annotating the sequences identified. (who.int)
- Sequence analysis revealed that CgPKAR contains one intron located at position -475 to -539 from the start codon (ATG). (scialert.net)
Fragment1
- The size of the sequences varies from 760 to 900 base pairs, which corresponds to the average size expected for the amplified fragment (helices 27 to 50 of the SSU rRNA secondary structure). (biomedcentral.com)
Enterovirus3
- Abstract In the present report we describe the results from a pilot study aimed at detecting enterovirus sequence in cardiac tissues, obtained through endomyocardial biopsies, from patients suffering from cardiac diseases in the Amazon region. (rsbmt.org.br)
- Direct nucleotide sequencing of PCR products was used to characterise the enterovirus. (bmj.com)
- There is an association between abnormal lactate response to exercise, reflecting impaired muscle energy metabolism, and the presence of enterovirus sequences in muscle in a proportion of CFS patients. (bmj.com)
Analyses3
- According to the morphology and sequence analyses, the isolate was identified as F. solani (Chehri et al. (bvsalud.org)
- Bioinformatics analyses of the high-throughput sequencing data with ARResT/Interrogate, a platform developed within the EuroClonality-NGS Working Group, allowed accurate identification of clonotypes in both polyclonal cell populations and monoclonal lymphoproliferative disorders. (nature.com)
- The availability of conifer genome sequences would enable comparative analyses of genome architecture and the evolution of key traits for seed plants, including flower or fruit development and life history (perennial versus annual), and help to determine how and why conifer genomes became so large. (nature.com)
GenBank2
- We analyze these sequences together with 403 complete or nearly complete environmental eukaryotic sequences available in GenBank. (biomedcentral.com)
- When new sequences are submitted to GenBank, the submission is checked for new organism names, which are then classified and added to the Taxonomy database. (nih.gov)
Mismatches1
- If there are few mismatches between the DNA sequences of the different populations you may be able to amplify them all with the same primer set by making your annealing less stringent. (stackexchange.com)
Detect1
Clones1
- Sequencing of 81 clones from an EES of the small river, the Seymaz (Geneva, Switzerland) yielded 58 distinct SSU rRNA phylotypes. (biomedcentral.com)
Determination1
- Amplification and determination of gB sequences. (monossabios.com)
Target1
- Sample lysis and amplification is also tolerant of residual amounts of common reagents such as cell growth media, culture dish coatings and transfection/transduction reagents (see table below and figure Increased presence of medium might affect CRISPR target amplification. MCF7 or Jurkat cells (1000 cells/µL) were lysed according to the QIAprep& CRISPR Kit protocol. Before cell lysis, cells were either washed or remained unwashed. Additionally, culture medium was stepwise added to washed cells before lysis until 50% of the lysate was culture medium. All downstream steps were performed according to the QIAprep& CRISPR Kit protocol. "> Increased presence of medium might affect CRISPR target amplification ). (qiagen.com)
Fluorescent1
Results2
- All components of the project were sequence-based to allow easier integration of the results. (nih.gov)
- Plasmid-derived standards consist of bare, unprotected double-stranded DNA and may become degraded in the clinical specimen before nucleic acid extraction or during storage in the working stock, which could lead to unreliable amplification results. (biomedcentral.com)
Homology1
- A query of the NCBI database returned no human gene sequences that had significant homology to the TSG101 gene, supporting the notion that the gene is a unique human homologue to the mouse tsg101. (davidson.edu)
Region8
- Amplification was carried out using primers corresponding to conserved sequences of the surface region. (medscape.com)
- Besides of the conserved untranslated region (UTR) at the 5′ end , (600-1200nt), there is a shorter untranslated region at the 3′ extremity (3′ UTR) (50-100nt) and a coding region for single polyprotein of 2100 to 2400 amino acids in the middle of the genome. (rsbmt.org.br)
- One question, are the primer annealing inside the coding sequence of COI or on the flanking region? (stackexchange.com)
- There are other issues to be taken care of before you can consider a 'conserved region' a 'priming site' and go ahead and order primers. (stackexchange.com)
- The gag p24 genome region was found to be more conserved than the env gp41 IDR, with the env gp41 IDR more conserved than the env gp120 V3. (sun.ac.za)
- DNA sequencing of PMEL17 in Silver and non-Silver horses revealed a missense mutation in exon 11 changing the second amino acid in the cytoplasmic region from arginine to cysteine (Arg618Cys). (biomedcentral.com)
- Size variations occur mainly in the variable region V7, but expansions were observed in the variable region V8 for some sequences. (biomedcentral.com)
- The authors then report (without showing the data) that PCR amplification of the 3'-untranslated region of the TSG101 gene generated a 210 bp PCR product when each of the following sources of template DNA was used: human cells, human-Chinese hamster hybrid cells containing human chromosome 11, and human-Chinese hamster cells containing the p arm of chromosome 11. (davidson.edu)
Eukaryotic2
- In order to review the evolutionary importance of this novel high-level eukaryotic diversity critically, and to test the potential technical and analytical pitfalls and limitations of eukaryotic environmental DNA surveys (EES), we analysed 484 environmental SSU rRNA gene sequences, including 81 new sequences from sediments of the small river, the Seymaz (Geneva, Switzerland). (biomedcentral.com)
- Confirm your CRISPR editing events in adherent or suspension-cultured eukaryotic cells using direct and enhanced PCR amplification. (qiagen.com)
Direct1
- Collectively, these findings provide the first direct evidence for a functionally conserved and enzymatically active DNA methylation system throughout the Platyhelminthes. (aber.ac.uk)
Typically1
- They are typically composed of conserved backbone modules coding for replication, maintenance and transfer functions as well as variable accessory modules. (biomedcentral.com)
Components1
- 2000). Components of this cascade are conserved in a variety of fungi. (scialert.net)
Partial1
- Here we report 81 new partial SSU rRNA gene sequences of eukaryotes from sediments of the small river, the Seymaz (Geneva, Switzerland). (biomedcentral.com)
Variant2
- If possible, try aligning the sequences for many known COI alleles from your organism and see which bases in particular are variant. (stackexchange.com)
- The mix of primers you get back will then have every possible variant for a given position, and that might help you to get amplification. (stackexchange.com)