Insertion sequence element. Medical search. Frequent questions

The efficacy of pSelAct-KO was demonstrated in C. michiganensis and confirmed using whole genome sequencing. (biorxiv.org)
We sequenced 689 participants with autism spectrum disorder (ASD) and other developmental abnormalities to construct a genome-wide map of large SV. (biomedcentral.com)
Using long-insert jumping libraries at 105X mean physical coverage and linked-read whole-genome sequencing from 10X Genomics, we document seven major SV classes at ~5 kb SV resolution. (biomedcentral.com)
Within species, genomes vary in both gene content (e.g., tandem duplicated genes, CNVs dispersed throughout the genome, and PAVs of genes) and repetitive portions of the genome (e.g., transposable elements, knob repeats, centromere repeats). (biomedcentral.com)
the complete genome sequence of Mycobacterium tuberculosis continues to provide an invaluable resource to understand tuberculosis (TB), the leading cause of global infectious disease mortality. (jci.org)
The increasing accessibility of whole-genome sequencing across research and clinical settings has improved our ability to predict antibacterial susceptibility, to track epidemics at the level of individual outbreaks and wider historical trends, to query the efficacy of the bacille Calmette-Guérin (BCG) vaccine, and to uncover targets for novel antitubercular therapeutics. (jci.org)
While the genome sequence was already transformative at the time, the past 25 years of progress have substantially increased its impact on TB taxonomy, drug discovery, resistance mechanisms, epidemiology, vaccine development, and pathogenesis. (jci.org)
Whole-genome sequencing (WGS) of M. tuberculosis and related mycobacteria is now routine, allowing comparisons across time and space. (jci.org)
Both methods, using a non-radioactive detection system, are sensitive enough to detect one copy of an insertion element in a strain's genome. (uni-bielefeld.de)
8 provided an update to the OryzaGenome database which includes short-read sequencing data for several non-AA genome Oryza species. (nature.com)
Optical Genome Mapping is non-sequencing technology capable of analyzing large eukaryotic genomes and their structural features at a high resolution by evaluation of patterns generated by fluorophore tags labeled to specific sequence motifs within extremely long DNA molecules, of more than 300 kb (3, 4). (mdanderson.org)
A transposable element te is a mobile sequence present in the genome of an organism. (web.app)
Fedoroff 9 780470 959947 plant transposons and genome dynamics in evolution f ed oro ff t he transposable genetic elements, or transposons, as they are now known, have had a tumultuous history. (web.app)
Transposons are mobile elements that can move about the plant or animal genome. (web.app)
An analysis of small RNA populations from symptomatic tissue was carried out to determine the genome sequence of the rhabdovirus-like particles observed in the citrus leprosis samples. (bvsalud.org)
The complete genome sequence showed that the nuclear type of CiLV (CiLV-N) present in the samples consisted of two negative-sense RNAs: 6,268-nucleotide (nt)-long RNA1 and 5,847-nt-long RNA2, excluding the poly(A) tails. (bvsalud.org)
A transposable element is a DNA sequence that can change its position within a genome, sometimes creating or reversing mutations and altering the cell's genetic identity and genome size. (wikimili.com)
Innovative features of the project include the direct sequencing and assembly of haplotypes via whole-genome amplification of isolated sperm, and the application of maximum-likelihood methods for estimating patterns of within- and among-individual variation and linkage disequilibrium. (grantome.com)
Spoligotyping: Identifies the M. tuberculosis genotype based on presence or absence of spacer sequences found in a direct-repeat region of the M. tuberculosis genome where 43 identical sequences and 36 base pairs are interspersed by spacer sequences. (cdc.gov)
IS 6110 -based RFLP: This method detects variations in a specific section of the M. tuberculosis genome called insertion element IS 6110 . (cdc.gov)

We sought to determine the distribution of seven IS elements from strain W83 among nine P. gingivalis laboratory strains and nine clinical isolates and to use these findings to determine strain relationships. (elsevierpure.com)
Four of the clinical isolates had identical RFLP patterns for all seven IS elements. (elsevierpure.com)
About 3,000 isolates have been selectively sequenced for different projects, Snesrud said. (genomeweb.com)
To further investigate the genomic diversity among this group and to help characterize lineages of the plague organism that have no sequenced members, we present here the genomes of two isolates of the "classical" antiqua biovar, strains Antiqua and Nepal516. (asm.org)
The goal of this project is to obtain high-quality sequence for the genomes of ~150 isolates of the microcrustacean Daphnia pulex, as well as lower-coverage data for ~5000 additional geographically distributed genotypes for population-genetic analysis. (grantome.com)
Several methods have been employed to identify Coxiella burnetii isolates based on the specific Coxiella burnetii QpH1 plasmid to distinguish the acute form from the chronic form of Q fever disease in humans and animals owing to the presence of unique gene sequences in this plasmid. (ijmm.ir)
Mycobacterium tuberculosis isolates from previously treated patients ( n = 88) from all regions of Syrian Arab Republic were characterized in terms of antibiotic sensitivity and genotyping using double-repetitive- element polymerase chain reaction (DRE-PCR) method for the proximity of the repetitive DNA elements IS 6110 (a mobile genetic element) and PGRS. (who.int)

Most large genomes contain thousands of large structural variants (SVs), repetitive regions composed of identical or similar stretches of sequences, mobile elements such as transposons, large insertions, deletions, translocations, and inversions up to millions of bases, with even partial or entire chromosomes altered. (mdanderson.org)
The seven conserved helicase motifs, the point mutations of BLM protein as well as the insertion and deletions are displayed above the sequences, the ATP-binding (Ã Â ) and DNA-binding residues (Ã Â¤) of PcrA helicase are shown (24-26). (lu.se)

We compare all five currently sequenced Y. pestis genomes and the corresponding features in Yersinia pseudotuberculosis . (asm.org)
Prior to the development of DNA technology and the sequencing of organismal genomes, Charles Darwin suggested that the "tree" of life can be traced back to a single root (Koonin and Wolf, 2012). (bartleby.com)
digIS: in direction of detecting distant and putative novel insertion sequence components in prokaryotic genomes Background: The insertion sequence components (IS components) symbolize the smallest and probably the most plentiful cell components in prokaryotic genomes. (mutationdetection.org)
As more and more genomes have been sequenced and annotated, it has become increasingly apparent that the genomes of all organisms are rife with genetic elements that are able to move into and out of the genomes where they reside. (microbiologynotes.org)

High frequencies of sequence duplications and transposable element insertions contributed to the degeneration of the MSY resulting in low gene density. (usda.gov)
Realtime transposable element activity in individual live cells pnas. (web.app)
DRs, direct repeats in host DNA, flank a transposable element. (microbiologynotes.org)
Tn 10 is a transposable element , which is a sequence of DNA that is capable of mediating its own movement from one position in the DNA of the host organism to another. (wikimili.com)

During investigation of the molecular mechanism of large DNA fragmentation in apoptosis, we found that one of our clones, which were derived from 30kb DNA fragments generated from heat-treated human cells, mached perfectly with many sequences in E. coli genomic DNA, E. coli cDNA, a Neiserria plasmid, and several human genomic DNAs and cDNAs. (go.jp)
Methods: Southern blots of BamHI digested genomic DNA digests were probed with insertion sequence elements ISPg1-7. (elsevierpure.com)
In Chile, although a sustained increase in CR- Kp infections has been observed, few strains have been described at the genomic level, lacking molecular details of their resistance and virulence determinants and the mobile elements mediating their dissemination. (biorxiv.org)
These high-risk pathogens have developed mainly by acquiring different mobile genetic elements (MGEs), including plasmids and genomic islands (GIs) encoding an array of virulence and antibiotic resistance factors[ 2 ]. (biorxiv.org)
Megabase size molecules of genomic DNA are isolated and labelled at a specific 6 or 7 base pair sequence motifs. (mdanderson.org)
Transposable elements (TEs) are mobile genetic sequences that comprise around 50% of our genomic DNA. (lu.se)

Autonomous mobile genetic elements such as transposon or insertion sequences (IS) encode an enzyme, called transposase, required for excising and inserting the mobile element. (expasy.org)
Contain genes unrelated to transposition bounded at each end by IS elements, which supply the transposase activity needed for transposition. (microbiologynotes.org)
The recombinase used by a specific mobile genetic element may be called an integrase , resolvase , or transposase . (microbiologynotes.org)
It contains only the gene for the enzyme transposase , and it is surrounded at each ends by inverted repeats-identical or extremely same sequences of nucleotides in reversed orientation. (microbiologynotes.org)
Insertion sequences (IS) consist only of IRs on either side of the transposase gene. (microbiologynotes.org)
The flanking IS elements encode the transposase used by the transposon to move. (microbiologynotes.org)
In composite transposons, the additional genes are flanked by insertion sequences, which supply the transposase. (microbiologynotes.org)
[1] The transposase protein recognizes the ends of the element and cuts it from the original locus . (wikimili.com)
To accomplish this reaction the 50 kDa transposase protein must break four DNA strands to free the transposon from the donor site, and perform two strand exchange reactions to integrate the element at the target site. (wikimili.com)
Only one of the IS 10 elements encodes a functional transposase. (wikimili.com)
[4] Since the ends of the IS 10 element contain the transposase recognition sites, Tn 10 has a total of four such sites. (wikimili.com)
If the transposase binds the two recognition sites flanking an IS 10 element, the IS 10 element undergoes transposition independently of the larger composite structure. (wikimili.com)

In addition to the variable element patterns, the genes also have a variety of repeats that has enabled a second alignment that correlates the elements with the repeats. (gwu.edu)
Detailed analysis of the repeat and element sequences strongly suggests that the genes undergo frequent recombination. (gwu.edu)
Comparisons between the sequences of the genes and the message for individual animals have identified a second level of diversification. (gwu.edu)
There is very low sequence identity between genes and messages, suggesting an unknown mechanism for editing the messages either during or after transcription. (gwu.edu)
The gain and losses of important genes and regulatory elements due to SVs will impact phenotype causing disease such as cancer and sex development disorders. (mdanderson.org)
We also identified mobile genetic elements including prophages and insertion sequences, genes related to biotin synthesis and metabolism. (biomedcentral.com)
Composite transposons contain genes for antibiotic resistance some have multiple resistance genes can move rapidly between plasmids and through a bacterial population gene cassettes sets of resistance genes can exist as separate genetic elements. (web.app)
Of the remaining 95% of nonfunctioning genes, nearly 50% is thought to consist of transposable elements or transposons. (web.app)
Transposable elements are often referred to as " jumping genes ," mobile genetic elements , and transposable elements . (microbiologynotes.org)
are composed of a central region containing genes unrelated to transposition (e.g., antibiotic-resistance genes) flanked on each sides by IS elements that are similar or very similar in sequence. (microbiologynotes.org)
Some transposons bear transfer genes and can easily move between bacteria during the process of conjugation, They are called conjugative transposons or integrative conjugative elements (ICEs) . (microbiologynotes.org)
Tn 10 has a composite structure and it is composed of a pair of insertion sequence elements (IS 10 ) flanking five genes. (wikimili.com)
Carbapenemase-producing CRE are of particular concern given that carbapenemase-encoding genes often are located on mobile genetic elements that may spread between different organisms and species. (cdc.gov)
Polymerase chain reaction (PCR) assays and sequencing was used to determine the presence of β-lactamase encoding genes (bla) including bla NDM-1 and plasmid-mediated quinolone and aminoglycoside resistance determinants. (who.int)

While many bacteria have intrinsic, chromosomally encoded ARDs and the capability of increasing resistance through mutation, they can also enrich their resistance capabilities through the acquisition of exogenous ARDs located on mobile genetic elements (MGEs) such as plasmids, transposons or phages. (nature.com)
The key property of transposons is that a copy of the entire transposon sequence can at a low frequency become inserted at a new chromosomal site. (web.app)
The most widely used constructs were derived from the insertion sequences, is containing composite elements transposons, or from bacteriophages. (web.app)
Lecture 12 transposable elements transposons are usually from 103 to 104 base pairs in length, depending on the transposon type. (web.app)
Maize has many different types of transposons, including acds elements dna transposon and mites. (web.app)
Transposons are more complex in structure than IS elements. (microbiologynotes.org)
Other transposons lack IS elements and encode their own transposition enzymes. (microbiologynotes.org)
Unit transposons are not associated with insertion sequences. (microbiologynotes.org)

Illumina single nucleotide polymorphism (SNP) chips, kompetitive allele-specific PCR (KASP) assays, genotyping-by-sequencing (GBS)) and sequencing (e.g. (biomedcentral.com)
We also report SNV numbers for three additional O. australiensis genotypes based on Illumina re-sequencing. (nature.com)

Results: The restriction fragment length polymorphism (RFLP) patterns revealed that five of the nine laboratory strains, including strain W83, were nearly identical for all seven IS elements. (elsevierpure.com)
Several strains lacked from one to four of the IS elements. (elsevierpure.com)
Califano, JV , Arimoto, T & Kitten, T 2003, ' The genetic relatedness of Porphyromonas gingivalis clinical and laboratory strains assessed by analysis of insertion sequence (IS) element distribution ', Journal of Periodontal Research , vol. 38, no. 4, pp. 411-416. (elsevierpure.com)
Rhizobium meliloti strains isolated from alfalfa plants grown in a mining recultivation field, in a model ecosystem (microcosm) and in soil core containers were characterized by two new taxonomic methods, fingerprinting and handprinting, using insertion sequence elements (IS) as hybridization probes. (uni-bielefeld.de)
A novel monitoring method, IS-handprinting, in which the presence of certain endogenous insertion elements within a strain is registered, was successfully employed to characterize genetically the field R. meliloti strains with simplicity and speed. (uni-bielefeld.de)
More than 68 percent had less than 5 copies of the IS sequence suggesting that our local M.tuberculosis strains have a fewer number of copies compared to data shown in most countries. (who.int)
Among the strains tested there were two strains that lacked the IS 6110 element. (who.int)

The 3' UTRs of selenoprotein mRNAs contain a conserved stem-loop structure, designated the Sec insertion sequence (SECIS) element, that is necessary for the recognition of UGA as a Sec codon, rather than as a stop signal. (nih.gov)
The selenocysteine insertion sequence (SECIS)-binding protein 2 (Secisbp2) binds to SECIS elements located in the 3'-untranslated region of eukaryotic selenoprotein mRNAs. (nih.gov)

Phylogenetic trees constructed with the amino acid sequences of the nucleocapsid (N) and glycoproteins (G) and the RNA polymerase (L protein) showed that CiLV-N clusters with OFV. (bvsalud.org)
protein sequences were analysed with a major concern [1,2]. (who.int)
After 4 weeks of conversion, we performed global analyses of RNA and protein levels by RNA-sequencing and mass spectrometry. (lu.se)

Introns are nucleotide sequences universal amongst the Eukarya domain. (bartleby.com)
The products were sequenced and the and the emergence of resistance to patients had lung congestion, burning nucleotide sequences and deduced- expanded-spectrum cephalosporins is upon urination and fever. (who.int)

This is an example virus tn elements integrated into the eukaryotic dna. (web.app)

The ribosomal frameshifting element stimulates frameshifting which is known to be required for transposition. (wikipedia.org)

Since the first independent reports by Australian and implemented to detect C. burnetii in milk by targeting a American investigators in 1935, Q fever has been found transposon-like sequence found only in C. burnetii (10). (cdc.gov)

Conclusions: Transposition and recombination between IS elements are not sufficiently pervasive to obscure strain relationships, though this does not preclude the possibility that such events play an important role in allowing P. gingivalis to adapt to new environments. (elsevierpure.com)
Transposition refers to the movement of a mobile genetic element. (microbiologynotes.org)

6. Savinelli EA, Mallavia LP. Comparison of Coxiella burnetii plasmids to homologous chromosomal sequences present in a plasmidless endocarditis-causing isolate. (ijmm.ir)

Finally, as only about half of the genotypes to be sequenced are capable of male production, comparative analyses will provide insight into the mechanisms of sex determination in this system, clarifying the proposed existence of a nonrecombining mating-system chromosome, and evaluating the consequences of such a genetic environment on an otherwise freely recombining genetic background. (grantome.com)

In this study, the potential use of PCR was investigated using the primers Pt8-Pt9 based on the insertion sequence IS 6110 of the Mycobacterium tuberculosis complex (Kolk etal, 1992). (who.int)
In conclution, DNA amplification is a rapid, reliable and accurate method with a high degree of sensitivity and specificity for the detection of Mycobacterium tuberculosis DNA sequences and it can replace the conventional culture method in the diagnosis of extra pulmonary tuberculosis and tuberculosis meningitis except in the situation when antibiotic sensitivity results are required. (who.int)

We report a papaya primitive Y chromosome with a small male-specific region, the MSY, that is about 10% of the chromosome showing severe suppression of recombination and degeneration of DNA sequences. (usda.gov)
After several careful studies, she found that certain genetic elements were moving from one site to an entirely different site in the chromosome. (web.app)
5. Willems H, Ritter M, Jäger C, Thiele D. Plasmid-homologous sequences in the chromosome of plasmidless Coxiella burnetii Scurry Q217. (ijmm.ir)

Inverted repeats are normally about 15 to 25 base pairs long and vary among IS elements so that each type of IS has its own characteristic inverted repeats. (microbiologynotes.org)

There are four distinct classes of ESBLs, termed A, B C and D based on specific sequence motifs and hydrolytic mechanism in Ambler classification system. (biomedcentral.com)

Detection of the IS Ecp1B sequence munity, mostly in hospitals and often in ité de l'Antibiogramme de la Société was performed by PCR using primers intensive care units (ICUs) [3]. (who.int)

Isolate relatedness was determined by multilocus sequence typing (MLST). (who.int)

This organism contains a large number of insertion sequence (IS) elements. (elsevierpure.com)

Sequencing data showed that the tdnQ sequences of A, C, B were very closely related, while the tdnQ fragment of BN3.1 and P. putida were only about 83% identical to the other sequences. (sciepub.com)

The intestinal microbiota is considered to be a major reservoir of antibiotic resistance determinants (ARDs) that could potentially be transferred to bacterial pathogens via mobile genetic elements. (nature.com)
Bacterial transposable elements bacterial transposable elements were initially detected because of the genetic instability of phenotypes. (web.app)

High-throughput single-cell RNA-sequencing (scRNA-seq) methodologies enable characterization of complex biological samples by increasing the number of cells that can be profiled contemporaneously. (bvsalud.org)

The particular plasmid type that contains the resistance elements is important to the epidemiology. (genomeweb.com)

CTX-M gene and primers for insertion tant resistance mechanisms into the sequences IS Ecp1 and IS 903 ( 4,5 ). (cdc.gov)

Mobile genetic elements were first discovered in the 1940s by Barbara McClintock (1902-1992) during her studies on maize genetics (a discovery for which she was awarded the Nobel Prize in 1983). (microbiologynotes.org)
As more and more types of mobile genetic elements were discovered, new nomenclature was developed to distinguish one type from another. (microbiologynotes.org)
The simplest mobile genetic elements in bacteria are insertion sequences , or IS elements for short . (microbiologynotes.org)

A restriction enzyme is added that cuts the DNA into hundreds of different fragments at specific sequences. (cdc.gov)

The 6-9 base pairs that flank the sequence also influence selection of the insertion site. (wikimili.com)

This new definition encompasses elements that differ in structure, mechanisms of integration and excision, target sites, and ability to be transferred from one cell to another by HGT. (microbiologynotes.org)

The simplest te, an insertion sequence, is a code for an enzyme. (web.app)

Also, the comparison of nucliec acid sequences shows greater similarity between archaea and eukaryotes. (bartleby.com)
IS elements have been observed in a variety of bacteria and some archaea. (microbiologynotes.org)

Positive results were cattle varies widely from 1 country to another and from 1 confirmed by nested PCR and DNA sequencing. (cdc.gov)
In Japan, a prevalence sequencing results of the 687-bp PCR product were consis- of 1.1% to 3.9% of C. burnetii infection in cattle was tent with the published sequence of IS 1111 with 100% reported in the 1950s. (cdc.gov)
The results of the nucleic acid sequencing of all 4 samples indicated that they had a Coxiella burnetii type (Nine Mile RSA493 strain). (ijmm.ir)
More so, our results show that the epigenetic regulation of TE transcription is dynamically regulated throughout life (Paper II), upon the beginning of neuroinflammation (Paper III), and in a disease-driving polymorphic TE insertion (Paper IV). (lu.se)

In fact, 1147bp DNA, containing the 153bp sequence, was apparently shared between human chromosomes 12, 13, and 21 and E. coli . (go.jp)
This DNA was identified as E. coli insertion element 5. (go.jp)

The Insertion sequence IS1222 ribosomal frameshifting element is an RNA element found in the insertion sequence IS222. (wikipedia.org)
A total of two prophages and 256 insertion sequences were found. (biomedcentral.com)

The high level of sequence diversity among the messages is primarily based on the presence/absence of elements in addition to small indels and SNPs. (gwu.edu)

Similar strain relationships were suggested regardless of the IS element examined. (elsevierpure.com)

The MSY consists of a mosaic of conserved, X-degenerated, and ampliconic sequences. (usda.gov)
the second exon is composed of mosaic patterns of blocks of sequence called elements that are observed in the messages. (gwu.edu)

Crop genomics has seen dramatic advances in recent years due to improvements in sequencing technology, assembly methods, and computational resources. (biomedcentral.com)
As a result, Bionano mapping yields hundreds of times more contiguous assembly than sequencing technologies alone can provide with unparalleled sensitivity for large structural variations (SVs) from 500 bp to mega base pair lengths. (mdanderson.org)

Anatomy8

Organisms35

Diseases7

Chemicals and Drugs70

Analytical, Diagnostic and Therapeutic Techniques and Equipment28

Phenomena and Processes115

Disciplines and Occupations4

Anthropology, Education, Sociology and Social Phenomena1

Technology, Industry, Agriculture1

Information Science5

Health Care3

Genome20

Isolates7

Deletions2

Genomes4

Transposable element4

Genomic6

Transposase12

Genes14

Transposons8

Illumina2

Strains7

SECIS2

Protein3

Nucleotide2

Eukaryotic1

Required for transposition1

Transposon1

Transposition2

Plasmids1

Genotypes1

Mycobacterium2

Chromosome3

Repeats1

Specific sequence motifs1

Detection1

MLST1

Organism1

Identical1

Bacterial2

Characterization1

Plasmid1

Resistance mechanisms1

Genetic elements3

Fragments1

Flank1

Mechanisms1

Simplest1

Archaea2

Results4

Coli2

Found2

Absence1

Strain1

Mosaic2

Assembly2