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Journal articles on the topic 'Element insertion ADN'

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Published: 4 June 2021

Last updated: 28 July 2025

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1

Olmeda-López, Héctor, Andrés Corral-Lugo, and Michael J. McConnell. "Effect of Subinhibitory Concentrations of Antibiotics and Disinfectants on ISAba-Mediated Inactivation of Lipooligosaccharide Biosynthesis Genes in Acinetobacter baumannii." Antibiotics 10, no. 10 (2021): 1259. http://dx.doi.org/10.3390/antibiotics10101259.

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Inactivation of the lipooligosaccharide (LOS) biosynthesis genes lpxA, lpxC and lpxD by ISAba insertion elements results in high-level resistance to colistin in A. baumannii. In the present study, we quantify the rate of spontaneous insertional inactivation of LOS biosynthesis genes by ISAba elements in the ATCC 19606-type strain and two multidrug clinical isolates. Using insertional inactivation of lpxC by ISAba11 in the ATCC 19606 strain as a model, we determine the effect of several subinhibitory concentrations of the antibiotics, namely tetracycline, ciprofloxacin, meropenem, kanamycin and

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Burns, Kathleen H. "Comprehensive Mapping of Transposon Insertions in Human Hematopoietic Neoplasias." Blood 114, no. 22 (2009): 1103. http://dx.doi.org/10.1182/blood.v114.22.1103.1103.

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Abstract 1103 Poster Board I-125 Our genomes are replete with mobile DNAs, many of which are retrotransposons that have accumulated over time by “copy-and-paste” mechanisms involving reverse transcription of RNA intermediates. Subsets of human transposable elements have been recently active or remain active today, resulting in many insertional polymorphisms in modern populations. In vitro studies in human tumor cell lines have unequivocally shown that expressed retrotransposons can generate new insertions and potentiate large scale genomic rearrangements. Though normally transposon sequences a

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Bessais, L., M. Phejar, and V. Paul-Boncour. "Structural and Magnetocaloric Properties of Ball Milled LaFe13−xSix(H,C)y." MRS Advances 2, no. 56 (2017): 3447–52. http://dx.doi.org/10.1557/adv.2017.351.

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ABSTRACTLaFe13−xSix compounds display a giant magnetocaloric effect near 200 K. The insertion of light elements (H, C) is used to improve the Curie temperature near ambient temperature for magnetic refrigeration applications. We have developed a synthesis method with a short annealing treatment compared to classical melting techniques. The parent intermetallic alloys were synthesized by high energy ball milling. The insertion of H atoms was carried out using a Sievert apparatus and the carbon atom was inserted by solid/solid reaction. Moreover, structural and magnetic results were carried out

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Miller, Danny E., Ana P. Dorador, Kelley Van Vaerenberghe, et al. "Off-target piRNA gene silencing in Drosophila melanogaster rescued by a transposable element insertion." PLOS Genetics 19, no. 2 (2023): e1010598. http://dx.doi.org/10.1371/journal.pgen.1010598.

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Transposable elements (TE) are selfish genetic elements that can cause harmful mutations. In Drosophila, it has been estimated that half of all spontaneous visible marker phenotypes are mutations caused by TE insertions. Several factors likely limit the accumulation of exponentially amplifying TEs within genomes. First, synergistic interactions between TEs that amplify their harm with increasing copy number are proposed to limit TE copy number. However, the nature of this synergy is poorly understood. Second, because of the harm posed by TEs, eukaryotes have evolved systems of small RNA-based

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Ho, Timothy B. L., Brian D. Robertson, G. Michael Taylor, Rory J. Shaw, and Douglas B. Young. "Comparison of Mycobacterium tuberculosis Genomes Reveals Frequent Deletions in a 20 kb Variable Region in Clinical Isolates." Yeast 1, no. 4 (2000): 272–82. http://dx.doi.org/10.1155/2000/147574.

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The Mycobacterium tuberculosis complex is associated with a remarkably low level of structural gene polymorphism. As part of a search for alternative forms of genetic variation that may act as a source of biological diversity in M. tuberculosis, we have identified a region of the genome that is highly variable amongst a panel of unrelated clinical isolates. Fifteen of 24 isolates examined contained one or more copies of the M. tuberculosis-specific IS6110 insertion element within this 20 kb variable region. In nine of the isolates, including the laboratory-passaged strain H37Rv, genomic deleti

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Mitchell, L. E., E. S. Dennis, and W. J. Peacock. "Molecular analysis of an alcohol dehydrogenase (Adh) gene from chromosome 1 of wheat." Genome 32, no. 3 (1989): 349–58. http://dx.doi.org/10.1139/g89-454.

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We have cloned and determined the nucleotide sequence of a gene encoding alcohol dehydrogenase (Adh) from Triticum aestivum cv. Millewa. Southern analysis using cv. Chinese Spring nullisomic–tetrasomic and ditelosomic lines established that the cloned gene mapped to the long arm of chromosome 1A and does not correspond to any previously identified wheat Adh locus. Southern analysis also provided evidence for triplicate copies of this Adh gene on the homoeologous group 1 chromosomes, while Northern blots indicated that the homoeologous group 1 Adh genes, like several other plant Adh genes, are

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Dorsey, Caleb W., Andrew P. Tomaras, and Luis A. Actis. "Genetic and Phenotypic Analysis of Acinetobacter baumannii Insertion Derivatives Generated with a Transposome System." Applied and Environmental Microbiology 68, no. 12 (2002): 6353–60. http://dx.doi.org/10.1128/aem.68.12.6353-6360.2002.

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ABSTRACT Acinetobacter baumannii is a metabolically versatile pathogen that causes severe infections in compromised patients. However, little is known about the genes and factors involved in its basic physiology and virulence properties. Insertion mutagenesis was used to initiate the identification and characterization of some of these factors and genes in the prototype strain 19606. The utilization of the pLOFKm suicide delivery vector, which harbors a suicide mini-Tn10 derivative, proved to be unsuccessful for this purpose. The EZ::TN 〈R6Kγori/KAN-2〉 Tnp transposome system available from Epi

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Kristich, Christopher J., Vy T. Nguyen, Thinh Le, Aaron M. T. Barnes, Suzanne Grindle, and Gary M. Dunny. "Development and Use of an Efficient System for Random mariner Transposon Mutagenesis To Identify Novel Genetic Determinants of Biofilm Formation in the Core Enterococcus faecalis Genome." Applied and Environmental Microbiology 74, no. 11 (2008): 3377–86. http://dx.doi.org/10.1128/aem.02665-07.

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ABSTRACT Enterococcus faecalis is a gram-positive commensal bacterium of the gastrointestinal tract and an important opportunistic pathogen. Despite the increasing clinical significance of the enterococci, most of the genetic analysis of these organisms has focused on mobile genetic elements, and existing tools for manipulation and analysis of the core E. faecalis chromosome are limited. We are interested in a comprehensive analysis of the genetic determinants for biofilm formation encoded within the core E. faecalis genome. To identify such determinants, we developed a substantially improved

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9

White, Lisa D., and James W. Jacobson. "Insertion of the retroposable element, jockey, near the Adh gene of Drosophila melanogaster is associated with altered gene expression." Genetical Research 68, no. 3 (1996): 203–9. http://dx.doi.org/10.1017/s0016672300034170.

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SummaryThe alcohol dehydrogenase (Adh) gene of Drosophila melanogaster is well suited to be a gene expression reporter system. Adh produces a measurable phenotype at both the enzyme and mRNA levels. We recovered a spontaneous transposable element (TE) insertion mutation near the Adh gene. The insertion is a truncated retroposable element, jockey, inserted upstream of the adult Adh enhancer region. Comparisons between the Adhjockey allele and its direct wild-type ancestral allele were made in an isogenic background (i.e. identical cis and trans factors). Differences in Adhjockey expression comp

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Chen, Xun, and Dawei Li. "ERVcaller: identifying polymorphic endogenous retrovirus and other transposable element insertions using whole-genome sequencing data." Bioinformatics 35, no. 20 (2019): 3913–22. http://dx.doi.org/10.1093/bioinformatics/btz205.

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Abstract Motivation Approximately 8% of the human genome is derived from endogenous retroviruses (ERVs). In recent years, an increasing number of human diseases have been found to be associated with ERVs. However, it remains challenging to accurately detect the full spectrum of polymorphic (unfixed) ERVs using whole-genome sequencing (WGS) data. Results We designed a new tool, ERVcaller, to detect and genotype transposable element (TE) insertions, including ERVs, in the human genome. We evaluated ERVcaller using both simulated and real benchmark WGS datasets. Compared to existing tools, ERVcal

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Chakravarty, Leena, Joseph D. Kittle Jr., and Olli H. Tuovinen. "Insertion sequence IST3091 of Thiobacillus ferrooxidans." Canadian Journal of Microbiology 43, no. 6 (1997): 503–8. http://dx.doi.org/10.1139/m97-072.

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An insertion sequence, designated as IST3091, was located adjacent to the putative origin of replication region of plasmid pTFI91 of Thiobacillus ferrooxidans TFI-91. The DNA sequence of the transposase gene of IST3091 revealed similarity with that of IS30, IS1086, IS4351, and the integrase gene of SpV1-R8A2 B (a bacteriophage of Spiroplasma citri). The sequence of IST3091 is 1063 bp long with partially matched 30-bp terminal inverted repeats. Several restriction fragments of plasmid pTFI91 of T. ferrooxidans containing the IST3091 element were cloned into the vector pHSG398. The hybrid plasmi

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Schalkwyk, Leonard C., Robert L. Charlebois, and W. Ford Doolittle. "Insertion sequences on plasmid pHV1 of Haloferax volcanii." Canadian Journal of Microbiology 39, no. 2 (1993): 201–6. http://dx.doi.org/10.1139/m93-028.

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We have searched the cloned 86 kilo base pair plasmid pHV1 from Haloferax volcanii for repeated sequence elements, of which we expected it to be a rich source. It contains five copies of the previously characterized element ISH51 and a total of five copies of three uncharacterized elements. pHV1 is part of an AT-rich fraction of the DNA that is likely to be a preferred site for IS insertion.Key words: Haloferax volcanii, pHV1 repeated sequence elements, ISH51.

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Shynkarenko, V. I., A. Yu Doroshenko, O. A. Yatsenko, V. V. Raznosilin, and K. K. Halanin. "Bicomponent sorting algorithms." PROBLEMS IN PROGRAMMING, no. 3-4 (December 2022): 32–41. http://dx.doi.org/10.15407/pp2022.03-04.032.

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he possibilities of improving sorting time parameters through preprocessing by stochastic sorting were investigated. The hypothesis that two-component stochastic + classical sorting outperforms classic one-component sorting in terms of time efficiency was experimentally confirmed. Sorting with different computational complexity is accepted as classical sorting algorithms: shaker sort- ing with computational complexity O(n2), insertions O(n2), Shell O(n·(log n)2) ... O(n3/2), fast with optimization of ending sequences O(n·log n). The greatest effect is obtained when performing comparisons using

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Kalendar, Ruslan, Asset Amenov, and Asset Daniyarov. "Use of retrotransposon-derived genetic markers to analyse genomic variability in plants." Functional Plant Biology 46, no. 1 (2019): 15. http://dx.doi.org/10.1071/fp18098.

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Transposable elements (TEs) are common mobile genetic elements comprising several classes and making up the majority of eukaryotic genomes. The movement and accumulation of TEs has been a major force shaping the genes and genomes of most organisms. Most eukaryotic genomes are dominated by retrotransposons and minimal DNA transposon accumulation. The ‘copy and paste’ lifecycle of replicative transposition produces new genome insertions without excising the original element. Horizontal TE transfer among lineages is rare. TEs represent a reservoir of potential genomic instability and RNA-level to

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Athma, P., and T. Peterson. "Ac induces homologous recombination at the maize P locus." Genetics 128, no. 1 (1991): 163–73. http://dx.doi.org/10.1093/genetics/128.1.163.

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Abstract The maize P gene conditions red phlobaphene pigmentation to the pericarp and cob. Starting from two unstable P alleles which carry insertions of the transposable element Ac, we have derived 51 P null alleles; 47 of the 51 null alleles have a 17-kb deletion which removes the 4.5-kb Ac element and 12.5 kb of P sequences flanking both sides of Ac. The deletion endpoints lie within two 5.2-kb homologous direct repeats which flank the P gene. A P allele which contains the direct repeats, but does not have an Ac insertion between the direct repeats, shows very little sporophytic or gametoph

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16

Fitria, Tira Nur. "An Analysis of Code Mixing of an Australian Youtuber “Dave Jephcott” in His Instagram “Londo Kampung”." Rainbow : Journal of Literature, Linguistics and Culture Studies 10, no. 1 (2021): 57–68. http://dx.doi.org/10.15294/rainbow.v10i1.44701.

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Code mixing is a phenomenon in the form of the use of elements from a particular language in one sentence or another language discourse. The objective of this research is to find out the type of code-mixing uttered by an Australian Youtuber in his Instagram “Londo Kampung”. This study uses a descriptive qualitative method. In Instagram “Londo Kampung”. It is found the mixing of various linguistic units in the grammatical system within a sentence. There are some types of insertion of code-mixing, such as in elements of word, phrase, clause, hybrid, and repetition. There 182 code mixing found in

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17

Parlianti, Rurani Adinda, Septriana. "CAMPUR KODE PENYISIPAN UNSUR BAHASA KOREA DALAM NOVEL 사랑해요 (SARANGHAEYO) KARYA KARUMI IYAGI". AKSARABACA Jurnal Bahasa, Sastra, dan Budaya 3, № 1 (2024): 395–401. http://dx.doi.org/10.47313/aksarabaca.v3i1.1412.

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ABSTRAKPenelitian ini untuk mengetahui campur kode penyisipan unsur bahasa Korea dalam Novel 사랑해요 (Saranghaeyo) Karya Karumi Iyagi. Novel ini menjadi sumber data penelitian, sebab belakangan ini sudah banyak novel yang berlatar belakang Korea yang telah diterbitkan di Indonesia. Novel yang berlatarbelakang Korea sering kali menggunakan tokoh, latar,budaya, dan istilah-istilah bahasa Korea.. Tujuan penelitian ini untuk mendeskripsikan wujud campur kode penyisipan unsur bahasa Korea. Penelitian ini menggunakan metode kualitatif dan pengumpulan data menggunakan teknik simak libat bebas cakap. Pen

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Morozova, Maria S. "Albanian Elements in the Slavic speech of Golo Bordo Bilinguals: Code-Mixing or Borrowing?" Slovene 9, no. 2 (2020): 372–94. http://dx.doi.org/10.31168/2305-6754.2020.9.2.16.

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The article considers contact-related phenomena found in the Slavic speech of bilinguals in the multiethnic region of Golo Bordo, Northeastern Albania. Most inhabitants of the Slavic part of the region master the local Western Macedonian dialect and the literary Albanian language. The material for the study includes dialect texts previously published in [Steinke, Ylli 2008; Соболев et al. 2013], examples from [Asenova 2016] and field materials collected by the author. Particular attention is paid to the insertion of Albanian nouns and verbs in the Macedonian speech of bilinguals. The article a

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Wilson, Patrick C., Odette de Bouteiller, Yong-Jun Liu, et al. "Somatic Hypermutation Introduces Insertions and Deletions into Immunoglobulin V Genes." Journal of Experimental Medicine 187, no. 1 (1998): 59–70. http://dx.doi.org/10.1084/jem.187.1.59.

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During a germinal center reaction, random mutations are introduced into immunoglobulin V genes to increase the affinity of antibody molecules and to further diversify the B cell repertoire. Antigen-directed selection of B cell clones that generate high affinity surface Ig results in the affinity maturation of the antibody response. The mutations of Ig genes are typically basepair substitutions, although DNA insertions and deletions have been reported to occur at a low frequency. In this study, we describe five insertion and four deletion events in otherwise somatically mutated VH gene cDNA mol

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McKerrow, Wilson, Zuojian Tang, Jared P. Steranka, et al. "Human transposon insertion profiling by sequencing (TIPseq) to map LINE-1 insertions in single cells." Philosophical Transactions of the Royal Society B: Biological Sciences 375, no. 1795 (2020): 20190335. http://dx.doi.org/10.1098/rstb.2019.0335.

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Long interspersed element-1 (LINE-1, L1) sequences, which comprise about 17% of human genome, are the product of one of the most active types of mobile DNAs in modern humans. LINE-1 insertion alleles can cause inherited and de novo genetic diseases, and LINE-1-encoded proteins are highly expressed in some cancers. Genome-wide LINE-1 mapping in single cells could be useful for defining somatic and germline retrotransposition rates, and for enabling studies to characterize tumour heterogeneity, relate insertions to transcriptional and epigenetic effects at the cellular level, or describe cellula

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Callanan, M. J., T. P. Beresford, and R. P. Ross. "Genetic Diversity in the Lactose Operons of Lactobacillus helveticus Strains and Its Relationship to the Role of These Strains as Commercial Starter Cultures." Applied and Environmental Microbiology 71, no. 3 (2005): 1655–58. http://dx.doi.org/10.1128/aem.71.3.1655-1658.2005.

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ABSTRACT Two novel insertion sequence elements, ISLhe1 and ISLhe15, were located upstream of the genes encoding the β-galactosidase enzyme in Lactobacillus helveticus commercial starter strains. Strains with the IS982 family element, ISLhe1, demonstrated reduced β-galactosidase activity compared to the L. helveticus type strain, whereas strains with the ISLhe15 element expressed β-galactosidase in the absence of lactose.

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Pfeifer, Felicitas, Ulrike Blaseio, and Mary Horne. "Genome structure of Halobacterium halobium: plasmid dynamics in gas vacuole deficient mutants." Canadian Journal of Microbiology 35, no. 1 (1989): 96–100. http://dx.doi.org/10.1139/m89-015.

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Halobacterium halobium contains two gas vacuole protein genes that are located in plasmid pHH1 (p-vac) and in the chromosomal DNA (c-vac). The mutation frequency for these genes is different: the constitutively expressed p-vac gene is mutated with a frequency of 10−2, while the chromosomal gene expressed in the stationary phase of growth is mutated with a frequency of 10−5. The difference in the mutation susceptibility is due to the dynamics of plasmid pHH1. p-vac gene mutations are caused (i) by the integration of an insertion element or (ii) by a deletion event encompassing the p-vac gene re

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Kofler, Robert. "piRNA Clusters Need a Minimum Size to Control Transposable Element Invasions." Genome Biology and Evolution 12, no. 5 (2020): 736–49. http://dx.doi.org/10.1093/gbe/evaa064.

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Abstract piRNA clusters are thought to repress transposable element (TE) activity in mammals and invertebrates. Here, we show that a simple population genetics model reveals a constraint on the size of piRNA clusters: The total size of the piRNA clusters of an organism must exceed 0.2% of a genome to repress TE invasions. Moreover, larger piRNA clusters accounting for up to 3% of the genome may be necessary when populations are small, transposition rates are high, and TE insertions are recessive. If piRNA clusters are too small, the load of deleterious TE insertions that accumulate during a TE

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Paulino, Glaucio H., Waldemar Celes, Rodrigo Espinha, and Zhengyu (Jenny) Zhang. "A general topology-based framework for adaptive insertion of cohesive elements in finite element meshes." Engineering with Computers 24, no. 1 (2007): 59–78. http://dx.doi.org/10.1007/s00366-007-0069-7.

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Fridborg, Ingela, Alan Williams, Aidong Yang, Stuart MacFarlane, Katherine Coutts, and Susan Angell. "Enhancer Trapping Identifies TRI, an Arabidopsis Gene Up-Regulated by Pathogen Infection." Molecular Plant-Microbe Interactions® 17, no. 10 (2004): 1086–94. http://dx.doi.org/10.1094/mpmi.2004.17.10.1086.

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Enhancer trap Arabidopsis thaliana plants were screened for genes up-regulated by virus infection. The plants carried T-DNA insertions comprising a minimal -60-bp Cauliflower mosaic virus 35S promoter fused to the β-glucuronidase (GUS) reporter gene. Approximately 12,000 plants were assayed for GUS activity before and after rub-inoculation with Tobacco rattle virus (TRV) tagged with the green fluorescent protein (GFP). One plant and its progeny consistently showed upregulation of GUS activity in response to TRV-GFP infection, indicating that a virus-responsive enhancer element was “tagged” by

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Li, Shengjun, Shangang Jia, Lili Hou, et al. "Mapping of transgenic alleles in soybean using a nanopore-based sequencing strategy." Journal of Experimental Botany 70, no. 15 (2019): 3825–33. http://dx.doi.org/10.1093/jxb/erz202.

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Abstract Transgenic technology was developed to introduce transgenes into various organisms to validate gene function and add genetic variations >40 years ago. However, the identification of the transgene insertion position is still challenging in organisms with complex genomes. Here, we report a nanopore-based method to map the insertion position of a Ds transposable element originating in maize in the soybean genome. In this method, an oligo probe is used to capture the DNA fragments containing the Ds element from pooled DNA samples of transgenic soybean plants. The Ds element-enriched DN

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Hesselbarth, Judith, Christiane Werckenthin, Babett Liebisch, and S. Schwarz. "Insertion elements in Staphylococcus intermedius." Letters in Applied Microbiology 20, no. 3 (1995): 180–83. http://dx.doi.org/10.1111/j.1472-765x.1995.tb00421.x.

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Paulat, Nicole S., Erin McGuire, Krishnamurthy Subramanian, et al. "Transposable Elements in Bats Show Differential Accumulation Patterns Determined by Class and Functionality." Life 12, no. 8 (2022): 1190. http://dx.doi.org/10.3390/life12081190.

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Bat genomes are characterized by a diverse transposable element (TE) repertoire. In particular, the genomes of members of the family Vespertilionidae contain both active retrotransposons and active DNA transposons. Each TE type is characterized by a distinct pattern of accumulation over the past ~40 million years. Each also exhibits its own target site preferences (sometimes shared with other TEs) that impact where they are likely to insert when mobilizing. Therefore, bats provide a great resource for understanding the diversity of TE insertion patterns. To gain insight into how these diverse

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Rabinow, Leonard, and W. J. Dickinson. "COMPLEX CIS-ACTING REGULATORS AND LOCUS STRUCTURE OF DROSOPHILA TISSUE-SPECIFIC ADH VARIANTS." Genetics 112, no. 3 (1986): 523–37. http://dx.doi.org/10.1093/genetics/112.3.523.

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ABSTRACT Diverse patterns of tissue-specific expression of alcohol dehydrogenase (ADH) among species of the grimshawi subgroup of Hawaiian picture-winged Drosophila suggests control by complex or multiple, independently acting regulatory elements. These elements act by controlling Adh mRNA accumulation in individual tissue types. Restriction mapping of the Adh loci from these species reveals several insertion/deletion differences, one of which lies just outside the 5' end of the structural sequences and correlates with differences in larval patterns of ADH expression. No tissue-specific rearra

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Ji, Guobiao, Liang Cheng, Shaohua Fei, Jiangxiong Li, and Yinglin Ke. "A novel model of Z-pin insertion in prepreg based on fracture mechanics." Proceedings of the Institution of Mechanical Engineers, Part B: Journal of Engineering Manufacture 235, no. 12 (2021): 1971–82. http://dx.doi.org/10.1177/09544054211014442.

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Through-thickness reinforcement is a promising solution to the problem of delamination susceptibility in laminated composites. Modeling Z-pin–prepreg interaction is essential for accurate robotics-assisted Z-pin insertion. In this paper, a novel Z-pin insertion force model combining the classical cohesive finite element (FE) method with a dynamic analytical fracture mechanics model is proposed. The velocity-dependent cohesive elements, in which the fracture toughness is provided by the analytical model, are implemented in Z-pin insertion FE model to predict the crack initiation and propagation

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Jiang, Tao, Bo Liu, Junyi Li, and Yadong Wang. "rMETL: sensitive mobile element insertion detection with long read realignment." Bioinformatics 35, no. 18 (2019): 3484–86. http://dx.doi.org/10.1093/bioinformatics/btz106.

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Abstract Summary Mobile element insertion (MEI) is a major category of structure variations (SVs). The rapid development of long read sequencing technologies provides the opportunity to detect MEIs sensitively. However, the signals of MEI implied by noisy long reads are highly complex due to the repetitiveness of mobile elements as well as the high sequencing error rates. Herein, we propose the Realignment-based Mobile Element insertion detection Tool for Long read (rMETL). Benchmarking results of simulated and real datasets demonstrate that rMETL enables to handle the complex signals to disco

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Uzunović, Jasmina, Emily B. Josephs, John R. Stinchcombe, and Stephen I. Wright. "Transposable Elements Are Important Contributors to Standing Variation in Gene Expression in Capsella Grandiflora." Molecular Biology and Evolution 36, no. 8 (2019): 1734–45. http://dx.doi.org/10.1093/molbev/msz098.

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Abstract Transposable elements (TEs) make up a significant portion of eukaryotic genomes and are important drivers of genome evolution. However, the extent to which TEs affect gene expression variation on a genome-wide scale in comparison with other types of variants is still unclear. We characterized TE insertion polymorphisms and their association with gene expression in 124 whole-genome sequences from a single population of Capsella grandiflora, and contrasted this with the effects of single nucleotide polymorphisms (SNPs). Population frequency of insertions was negatively correlated with d

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Dal Grande, Francesco, Véronique Jamilloux, Nathalie Choisne, et al. "Transposable Elements in the Genome of the Lichen-Forming Fungus Umbilicaria pustulata and Their Distribution in Different Climate Zones along Elevation." Biology 11, no. 1 (2021): 24. http://dx.doi.org/10.3390/biology11010024.

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Transposable elements (TEs) are an important source of genome plasticity across the tree of life. Drift and natural selection are important forces shaping TE distribution and accumulation. Fungi, with their multifaceted phenotypic diversity and relatively small genome size, are ideal models to study the role of TEs in genome evolution and their impact on the host’s ecological and life history traits. Here we present an account of all TEs found in a high-quality reference genome of the lichen-forming fungus Umbilicaria pustulata, a macrolichen species comprising two climatic ecotypes: Mediterra

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Ramakrishnan, Muthusamy, Mingbing Zhou, Chunfang Pan, et al. "Affinities of Terminal Inverted Repeats to DNA Binding Domain of Transposase Affect the Transposition Activity of Bamboo Ppmar2 Mariner-Like Element." International Journal of Molecular Sciences 20, no. 15 (2019): 3692. http://dx.doi.org/10.3390/ijms20153692.

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Mariner-like elements (MLE) are a super-family of DNA transposons widespread in animal and plant genomes. Based on their transposition characteristics, such as random insertions and high-frequency heterogeneous transpositions, several MLEs have been developed to be used as tools in gene tagging and gene therapy. Two active MLEs, Ppmar1 and Ppmar2, have previously been identified in moso bamboo (Phyllostachys edulis). Both of these have a preferential insertion affinity to AT-rich region and their insertion sites are close to random in the host genome. In Ppmar2 element, we studied the affiniti

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Surlemont, Chantal, and Pierre Vandewalle. "Développement postembryonnaire du squelette et de la musculature de la tête de Clarias gariepinus (Pisces, Siluriformes) depuis l'éclosion jusqu'à 6,8 mm." Canadian Journal of Zoology 69, no. 4 (1991): 1094–103. http://dx.doi.org/10.1139/z91-154.

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Upon hatching, the 4.2-mm fry of Clarias gariepinus has no skeleton (except for the notochord) or cephalic muscles. At 4.7 mm, the first elements of the chondrocranium have appeared, the few muscles that are present still have no definite insertion and there is no movement. At 6.8 mm, the chondrocranium is partially divided, the first elements of the osteocranium are present and most of the muscles are of the general type encountered in Teleosts and all have their proximal and distal insertions. Movements are then generally synchronyzed and can ensure ventilation of the gill arches. Exogeneous

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Fu, Rongdian, and Gerrit Voordouw. "ISD1, an Insertion Element from the Sulfate-Reducing Bacterium Desulfovibrio vulgaris Hildenborough: Structure, Transposition, and Distribution." Applied and Environmental Microbiology 64, no. 1 (1998): 53–61. http://dx.doi.org/10.1128/aem.64.1.53-61.1998.

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ABSTRACT Insertion element ISD1, discovered when its transposition caused the insertional inactivation of an introducedsacB gene, is present in two copies in the genome ofDesulfovibrio vulgaris Hildenborough. Southern blot analysis indicated at least two insertion sites in the sacBgene. Cloning and sequencing of a transposed copy of ISD1indicated a length of 1,200 bp with a pair of 44-bp imperfect inverted repeats at the ends, flanked by a direct repeat of the 4-bp target sequence. AAGG and AATT were found to function as target sequences. ISD1 encodes a transposase from two overlapping open re

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Alzohairy, Ahmed M., Gábor Gyulai, Mohamed F. Ramadan, et al. "Retrotransposon-based molecular markers for assessment of genomic diversity." Functional Plant Biology 41, no. 8 (2014): 781. http://dx.doi.org/10.1071/fp13351.

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Retrotransposons (RTs) are major components of most eukaryotic genomes. They are ubiquitous, dispersed throughout the genome, and their abundance correlates with genome size. Their copy-and-paste lifestyle in the genome consists of three molecular steps involving transcription of an RNA copy from the genomic RT, followed by reverse transcription to generate cDNA, and finally, reintegration into a new location in the genome. This process leads to new genomic insertions without excision of the original element. The target sites of insertions are relatively random and independent for different ta

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Humphreys, Luke H., Eric M. Van Horn, and David E. Scarborough. "A theoretical and experimental investigation of the nonlinear acoustic response of acoustic insertion elements." Journal of the Acoustical Society of America 151, no. 3 (2022): 1971–77. http://dx.doi.org/10.1121/10.0009848.

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In a previous paper, a model was developed for the nonlinear acoustic resistance for compact insertion elements. Within the model, two loss coefficients are used to tune the model for each type of element, and data were used to empirically determine these coefficients for an area contraction. This paper extends the nonlinear model, developing expressions based on physical principles for the forward and reverse loss coefficients for both an area contraction and orifice. In addition, experimental data for the acoustic resistance of both elements was taken using an impedance tube. Utilizing the e

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Haandrikman, A. J., C. van Leeuwen, J. Kok, P. Vos, W. M. de Vos, and G. Venema. "Insertion elements on lactococcal proteinase plasmids." Applied and Environmental Microbiology 56, no. 6 (1990): 1890–96. http://dx.doi.org/10.1128/aem.56.6.1890-1896.1990.

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Lucci, L., G. Manara, P. Nepa, G. Pelosi, and S. Selleri. "Cylindrical Dielectric Resonator Antennas with Harmonic Control as an Active Antenna Radiator." International Journal of Antennas and Propagation 2009 (2009): 1–7. http://dx.doi.org/10.1155/2009/519850.

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A cylindrical dielectric resonator antenna is proposed as a radiator for an active integrated antenna. Harmonic tuning, which is the key step in designing active antenna radiators, is achieved via a combination of shape factor control over the resonator and insertion of reactive elements in the feed system. Numerical simulations are carried out in a finite elements framework and a layout for the complete antenna is proposed, aimed at compactness for subsequent utilization of the radiator as an element in an active array for satellite communications.

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Ayliffe, M. A., and A. J. Pryor. "Transposon-based activation tagging in cereals." Functional Plant Biology 36, no. 11 (2009): 915. http://dx.doi.org/10.1071/fp09130.

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Advances in DNA sequencing technologies have produced an ever increasing number of sequenced genomes. However, many of the genes identified in these sequencing efforts have unknown functions or functions inferred based upon sequence homology, highlighting the necessity for functional gene analysis. Mutagenesis combined with phenotypic analyses remains a key mechanism for identifying and establishing gene function. Activation tagging is a mutagenic process that uses altered gene expression, usually gene overexpression, to generate mutant phenotypes. We have developed an activation tagging syste

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Pinto, Albano, Catarina Cunha, Raquel Chaves, Matthew E. R. Butchbach, and Filomena Adega. "Comprehensive In Silico Analysis of Retrotransposon Insertions within the Survival Motor Neuron Genes Involved in Spinal Muscular Atrophy." Biology 11, no. 6 (2022): 824. http://dx.doi.org/10.3390/biology11060824.

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Transposable elements (TEs) are interspersed repetitive and mobile DNA sequences within the genome. Better tools for evaluating TE-derived sequences have provided insights into the contribution of TEs to human development and disease. Spinal muscular atrophy (SMA) is an autosomal recessive motor neuron disease that is caused by deletions or mutations in the Survival Motor Neuron 1 (SMN1) gene but retention of its nearly perfect orthologue SMN2. Both genes are highly enriched in TEs. To establish a link between TEs and SMA, we conducted a comprehensive, in silico analysis of TE insertions withi

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Nicoloff, Hervé, and Françoise Bringel. "ISLpl1 Is a Functional IS30-Related Insertion Element in Lactobacillus plantarum That Is Also Found in Other Lactic Acid Bacteria." Applied and Environmental Microbiology 69, no. 10 (2003): 6032–40. http://dx.doi.org/10.1128/aem.69.10.6032-6040.2003.

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ABSTRACT We describe the first functional insertion sequence (IS) element in Lactobacillus plantarum. ISLpl1, an IS30-related element, was found on the pLp3 plasmid in strain FB335. By selection of spontaneous mutants able to grow in the presence of uracil, it was demonstrated that the IS had transposed into the uracil phosphoribosyltransferase-encoding gene upp on the FB335 chromosome. The plasmid-carried IS element was also sequenced, and a second potential IS element was found: ISLpl2, an IS150-related element adjacent to ISLpl1. When Southern hybridization was used, the copy number and gen

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Bychkov, Igor, Galina Baydakova, Alexandra Filatova, et al. "Complex Transposon Insertion as a Novel Cause of Pompe Disease." International Journal of Molecular Sciences 22, no. 19 (2021): 10887. http://dx.doi.org/10.3390/ijms221910887.

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Pompe disease (OMIM#232300) is an autosomal recessive lysosomal storage disorder caused by mutations in the GAA gene. According to public mutation databases, more than 679 pathogenic variants have been described in GAA, none of which are associated with mobile genetic elements. In this article, we report a novel molecular genetic cause of Pompe disease, which could be hardly detected using routine molecular genetic analysis. Whole genome sequencing followed by comprehensive functional analysis allowed us to discover and characterize a complex mobile genetic element insertion deep in the intron

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Kraiß, Anita, Stefan Schlör, and Joachim Reidl. "In Vivo Transposon Mutagenesis inHaemophilus influenzae." Applied and Environmental Microbiology 64, no. 12 (1998): 4697–702. http://dx.doi.org/10.1128/aem.64.12.4697-4702.1998.

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ABSTRACT In order to devise an in vivo insertion mutagenesis scheme forHaemophilus influenzae, a novel set of transposons has been constructed. These are Tn10-based minitransposons carried on pACYC184- and pACYC177-based replicons, which are suitable for in vivo transposition in H. influenzae. The transposon delivery system was designed to contain an H. influenzae-specific uptake signal sequence which facilitates DNA transformation into H. influenzae. The following mini-Tn10 elements have been made suitable for specific tasks in H. influenzae: (i) Tn10d-cat, which can be used to generate chlor

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Yang, In-Jun, Si-Woo Song, Dong-Ho Kim, Kwang-Soo Kim, and Won-Ho Kim. "Improvement in Torque Density by Ferrofluid Injection into Magnet Tolerance of Interior Permanent Magnet Synchronous Motor." Energies 14, no. 6 (2021): 1736. http://dx.doi.org/10.3390/en14061736.

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In an interior permanent magnet synchronous motor, an adhesive such as bond is generally injected into the magnet tolerance to prevent vibration of the permanent magnet within the insertion space. In this case, a disadvantage is that the magnet tolerance does not contribute to the performance. In this paper, ferrofluid is inserted to improve the torque density, utilizing the magnet tolerance. When inserting ferrofluid into the magnet tolerance, it is important to fix the magnet because conventional adhesives are not used, and it is important that the ferrofluid does not act as a leakage path w

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Jobim, José Luís. "Literary and Cultural Circulation: Machado de Assis and Théodule-Armand Ribot." European Review 23, no. 3 (2015): 406–20. http://dx.doi.org/10.1017/s1062798715000083.

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This paper’s argument is that in the case of Ibero-America, the literary or cultural insertion of elements from other places is not only or predominantly determined by the meaning that the element had in its supposed place of origin, but, rather, by the specific context where this element is subsequently placed. It is the study of this context that can generate better explanations not only about the reasons for this (and not another) element having been ‘imported’ but also about the meaning that it will have in the new context, in connection with the other elements that are also present there.

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KOGA, AKIHIKO, and HIROSHI HORI. "Albinism Due to Transposable Element Insertion in Fish." Pigment Cell Research 10, no. 6 (1997): 377–81. http://dx.doi.org/10.1111/j.1600-0749.1997.tb00695.x.

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Woodruff, Gavin C., and Anastasia A. Teterina. "Degradation of the Repetitive Genomic Landscape in a Close Relative of Caenorhabditis elegans." Molecular Biology and Evolution 37, no. 9 (2020): 2549–67. http://dx.doi.org/10.1093/molbev/msaa107.

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Abstract The abundance, diversity, and genomic distribution of repetitive elements is highly variable among species. These patterns are thought to be driven in part by reproductive mode and the interaction of selection and recombination, and recombination rates typically vary by chromosomal position. In the nematode Caenorhabditis elegans, repetitive elements are enriched at chromosome arms and depleted on centers, and this mirrors the chromosomal distributions of other genomic features such as recombination rate. How conserved is this genomic landscape of repeats, and what evolutionary forces

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Mahillon, Jacques, and Michael Chandler. "Insertion Sequences." Microbiology and Molecular Biology Reviews 62, no. 3 (1998): 725–74. http://dx.doi.org/10.1128/mmbr.62.3.725-774.1998.

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SUMMARY Insertion sequences (ISs) constitute an important component of most bacterial genomes. Over 500 individual ISs have been described in the literature to date, and many more are being discovered in the ongoing prokaryotic and eukaryotic genome-sequencing projects. The last 10 years have also seen some striking advances in our understanding of the transposition process itself. Not least of these has been the development of various in vitro transposition systems for both prokaryotic and eukaryotic elements and, for several of these, a detailed understanding of the transposition process at

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