LTR retrotransposon
The Application of a Homologous Recombination Assay Revealed Amino Acid Residues in an LTR-Retrotransposon That Were Critical for Integration
... the LTR-retrotransposons, possess an integrase protein (IN) that is required for the insertion of reverse transcripts into the genome of host ...an LTR-retrotransposon with integration activity that ...
10
A subtelomeric non-LTR retrotransposon Hebe in the bdelloid rotifer Adineta vaga is subject to inactivation by deletions but not 5' truncations
... Figure 1 Structure and polymorphism of the Adineta vaga Hebe retrotransposon. (a) Genomic environment of the subtelomeric Hebe copy (K in panel b), including two head-to-tail Athena retroelements and a ...
10
Rapid and Differential Proliferation of the Ty3-Gypsy LTR Retrotransposon Atlantys in the Genus Oryza
... We demonstrated through phylogenetic and comparative approaches that the Atlantys element has proliferated rapidly in various Oryza genomes. In many cases, its copy number increase postdates speciation events (e.g., O. ...
15
TGTT and AACA: two transcriptionally active LTR retrotransposon subfamilies with a specific LTR structure and horizontal transfer in four Rosaceae species
... AACA LTR-RT elements has been widely used in previous studies [3, 13, ...identified LTR sequences of the intact elements with clearly defined boundaries were used as queries to detect additional intact ...
15
Targeted gene knockin in zebrafish using the 28S rDNA-specific non-LTR-retrotransposon R2Ol
... The above results confirmed that the medaka fish R2Ol exhibited the precise and efficient retrotransposition activity into the 28S rDNA target sequence in the heterologous zebrafish host[r] ...
12
Non-long terminal repeat (non-LTR) retrotransposons: mechanisms, recent developments, and unanswered questions
... Surprisingly, hypermutation of the integrated ret- rotransposition product does not occur upon APOBEC3 member coexpression with non-LTR retrotransposons, and cytidine deaminase activity was shown to be dispens- ...
12
A Reference Viral Database (RVDB) To Enhance Bioinformatics Analysis of High-Throughput Sequencing for Novel Virus Detection
... and LTR retrotransposon sequences by using a list of knowledge-based keywords that were developed to broadly capture all viral, virus-related, and virus-like sequences in GenBank, with less emphasis on the ...
18
A benchmark of transposon insertion detection tools using real data
... and LTR-retrotransposons repre- sent extreme examples based on their length and com- plexity, and the performance of the tools when used with other TEs will probably be in the range of this ...LINEs, LTR- ...
19
NeSL-1, an Ancient Lineage of Site-Specific Non-LTR Retrotransposons From Caenorhabditis elegans
... al. 1996) was concomitant with the subsequent loss of Structure of NeSL-1 elements: Screens of reverse tran- site specificity in most but not all non-LTR element scriptase-like sequences in the C. elegans genome ...
11
A specific insertion of a solo LTR characterizes the Y chromosome of Bryonia dioica (Cucurbitaceae)
... the retrotransposon via genome ...lying retrotransposon (hereafter RLC-sequence) had a final consensus length of 5008 bp ...of LTR-retrotransposons in the Copia superfamily [33], while a BLASTn ...
7
A genomic survey of transposable elements in the choanoflagellate Salpingoeca rosetta reveals selection on codon usage
... The LTR retrotrans- poson families were named Salpingoeca rosetta chromo- virus-1 to Salpingoeca rosetta chromovirus-5 (Sroscv1–5), Salpingoeca rosetta gypsy-like element-1 and Salpingoeca rosetta gypsy-like ...
19
Enhanced Autointegration in Hyperstable Simian Immunodeficiency Virus Capsid Mutants Blocked after Reverse Transcription
... Quantitative real-time PCR. HeLa cells were seeded into 6-well plates to achieve 80% confluence at the time of infection. Viral suspensions were treated with DNase Turbo (catalog number AM2238; Ambion), accord- ing to ...
12
Long Terminal Repeat Regions from Exogenous but Not Endogenous Feline Leukemia Viruses Transactivate Cellular Gene Expression
... FeLV LTR-specific RNA ...FeLV LTR-specific fragment was amplified when the P3-P6 or P4-P6 primer pair was used (lanes 4 and ...FeLV-specific LTR transcripts are not generated in AH927 cells, even ...
7
Birth and Death of LTR-Retrotransposons in Aegilops tauschii
... of LTR-RTs, we modeled the insertion rates of the 35 most abundant LTR-RT families in the genome of Aegilops tauschii, one of the progenitors of ...in LTR divergence and the deletion rate (death) of ...
13
Locus-specific hypomethylation of the mouse IAP retrotransposon is associated with transcription factor-binding sites
... an LTR alone is present. The sequence of IAP LTR is 300- to 450-bp long, and contains 15–25 CpG ...(i.e., LTR copies in the A vy , A iap , and Axin fu loci) [7, ...
12
In vivo transcriptional regulation of the human immunodeficiency virus in the central nervous system in transgenic mice.
... the highest occupancy according to the in vivo footprinting analysis [regions 2 111 to 2 161 and 2 296 to 2 256]), electro- phoretic mobility shift assays (EMSA) were performed. A primer to the region encompassing 2 111 ...
9
Function of a unique sequence motif in the long terminal repeat of feline leukemia virus isolated from an unusual set of naturally occurring tumors.
... The region of the retroviral long terminal repeat (LTR) designated U3 contains the transcriptional promoter and en- hancer elements necessary for viral gene expression. These regulatory sequences not only provide ...
9
Disruption of a silencer domain by a retrotransposon.
... Be- cause the recombination between the URA3 insertion and the MATa allele was only about 1 %, the allele of MAT could be inferred from the Ura phenotype: the nonmati[r] ...
11
Cytokine regulation of human immunodeficiency virus type 1 gene expression in cells of neural origin
... augmented LTR-driven CAT expression 3- to 4-fold relative to Tat alone when SK-N-MC cells were similarly transiently co-transfected with a Tat expression ...activate LTR-driven expression. CAT expression ...
351
The Enigma of Y Chromosome Degeneration: TRAM, a Novel Retrotransposon is Preferentially Located on the Neo-Y Chromosome of Drosophila miranda
... Together with the distribution of the non-LTR TRIM retrotransposon (STEINEMANN and STEINEMANN 1991) and the ISY3 insertion elements (STEINEMANN and STEINEMANN 1992, 1993),[r] ...
6