scholarly journals Diverse long terminal repeats are associated with murine retroviruslike (VL30) elements.

1986 ◽  
Vol 6 (4) ◽  
pp. 1276-1282 ◽  
Author(s):  
A Itin ◽  
E Keshet
Keyword(s):  
Nucleic Acid ◽  
Sequence Analysis ◽  
Dna Sequences ◽  
Mouse Genome ◽  
Diverse Population ◽  
Long Terminal Repeats ◽  
Genome Sequence Analysis ◽  
Mouse Genome Sequence ◽  
The Family ◽  
Dna Elements

The VL30 family is a retroviruslike gene family with no apparent nucleic acid homology to any known retrovirus. Over 100 copies of VL30 DNA elements are dispersed throughout the mouse genome. Sequence analysis of the VL30 long terminal repeat (LTR) units showed that, whereas the LTR units of a given VL30 DNA element were almost identical, the LTR units associated with distinct members of the family were very different from one another. Comparison of the LTR sequences possessed by two particular VL30 DNA elements revealed a pattern of extensively homologous DNA segments adjacent to only distantly related DNA sequences. With the aid of sub-LTR probes, it was shown that a certain LTR is composed of both U5 sequences that are abundantly present in all species of the genus Mus and a U3 region detected only in Mus musculus. In addition, we isolated a VL30 DNA element in which the LTR units were replaced by the LTR units of an apparently novel retroviruslike family. These findings suggest that recombinations have played a role in generating the diverse population of VL30-associated LTRs.

Diverse long terminal repeats are associated with murine retroviruslike (VL30) elements

1986 ◽  
Vol 6 (4) ◽  
pp. 1276-1282
Author(s):  
A Itin ◽  
E Keshet
Keyword(s):  
Nucleic Acid ◽  
Sequence Analysis ◽  
Dna Sequences ◽  
Mouse Genome ◽  
Diverse Population ◽  
Long Terminal Repeats ◽  
Genome Sequence Analysis ◽  
Mouse Genome Sequence ◽  
The Family ◽  
Dna Elements

The VL30 family is a retroviruslike gene family with no apparent nucleic acid homology to any known retrovirus. Over 100 copies of VL30 DNA elements are dispersed throughout the mouse genome. Sequence analysis of the VL30 long terminal repeat (LTR) units showed that, whereas the LTR units of a given VL30 DNA element were almost identical, the LTR units associated with distinct members of the family were very different from one another. Comparison of the LTR sequences possessed by two particular VL30 DNA elements revealed a pattern of extensively homologous DNA segments adjacent to only distantly related DNA sequences. With the aid of sub-LTR probes, it was shown that a certain LTR is composed of both U5 sequences that are abundantly present in all species of the genus Mus and a U3 region detected only in Mus musculus. In addition, we isolated a VL30 DNA element in which the LTR units were replaced by the LTR units of an apparently novel retroviruslike family. These findings suggest that recombinations have played a role in generating the diverse population of VL30-associated LTRs.

scholarly journals Characterization of LpGPAT Gene inLilium pensylvanicumand Response to Cold Stress

2015 ◽  
Vol 2015 ◽  
pp. 1-8 ◽  
Author(s):  
Shao-kun Sun ◽  
Ni-na Yang ◽  
Li-jing Chen ◽  
Muhammad Irfan ◽  
Xing-hua Zhao ◽  
...  
Keyword(s):  
Amino Acids ◽  
Nucleic Acid ◽  
Sequence Analysis ◽  
Molecular Size ◽  
High Homology ◽  
Rt Pcr ◽  
Real Time Quantitative Pcr ◽  
The Family ◽  
Rapid Amplification

LpGPAT was obtained fromL. pensylvanicumusing RT-PCR and rapid amplification of cDNA ends. The cloned full-length cDNA was 1544 bp; it encoded 410 amino acids and had a molecular size of 46 KDa. The nucleic acid sequence analysis showed that it shared high homology with other known GPATs. SMAT result suggests that there is a PlsC that exists in 176-322 amino acid sequence of LpGAPT; it means LpGPAT protein is a member of the family of acyltransferase and has acyltransferase enzymatic activity. Result of real-time quantitative PCR and semiquantitative PCR support LpGPAT gene is definitely induced by low temperature stress.

scholarly journals Genome Sequence Analysis of Cronobacter Phage PF-CE2 and Proposal of a New Species in the Escherichia Virus RB16 Genus

2021 ◽  
Author(s):  
Mengshi Xiao ◽  
Xinmiao Ren ◽  
Ying Yu ◽  
Han Sun ◽  
Haijin Mou ◽  
...  
Keyword(s):  
New Species ◽  
Sequence Analysis ◽  
Heterologous Expression ◽  
Theoretical Basis ◽  
Taxonomic Status ◽  
Average Nucleotide Identity ◽  
Cronobacter Sakazakii ◽  
Genome Sequence Analysis ◽  
The Family ◽  
A New Species

Abstract The genome of Cronobacter sakazakii M1 phage named PF-CE2 was characterized in this work. And a new species named Cronobacter virus PF-CE2, in the Escherichia virus RB16 genus of the subfamily Tevenvirinae of the family Myoviridae was established. The Gp190 gene of phage PF-CE2 was first proposed to encode a bacteriophage-borne glycanase, which is capable of degrading fucose-containing exopolysaccharides produced by C. sakazakii M1. Further, the taxonomic status of eight additional phages was modified according to average nucleotide identity analysis. This finding provides a theoretical basis for subsequent heterologous expression of the phage PF-CE2 glycanase and provides an important reference for the preservation and sharing of these phages.

DNA methylation in satellite repeats disorders

2019 ◽  
Vol 63 (6) ◽  
pp. 757-771 ◽  
Author(s):  
Claire Francastel ◽  
Frédérique Magdinier
Keyword(s):  
Dna Methylation ◽  
Human Genome ◽  
Repetitive Dna ◽  
Dna Sequences ◽  
Satellite Repeats ◽  
Tremendous Progress ◽  
Genes Encoding ◽  
Dna Elements ◽  
Near Future

Abstract Despite the tremendous progress made in recent years in assembling the human genome, tandemly repeated DNA elements remain poorly characterized. These sequences account for the vast majority of methylated sites in the human genome and their methylated state is necessary for this repetitive DNA to function properly and to maintain genome integrity. Furthermore, recent advances highlight the emerging role of these sequences in regulating the functions of the human genome and its variability during evolution, among individuals, or in disease susceptibility. In addition, a number of inherited rare diseases are directly linked to the alteration of some of these repetitive DNA sequences, either through changes in the organization or size of the tandem repeat arrays or through mutations in genes encoding chromatin modifiers involved in the epigenetic regulation of these elements. Although largely overlooked so far in the functional annotation of the human genome, satellite elements play key roles in its architectural and topological organization. This includes functions as boundary elements delimitating functional domains or assembly of repressive nuclear compartments, with local or distal impact on gene expression. Thus, the consideration of satellite repeats organization and their associated epigenetic landmarks, including DNA methylation (DNAme), will become unavoidable in the near future to fully decipher human phenotypes and associated diseases.

Phylogeny and taxonomy of the family Arthrodermataceae (dermatophytes) using sequence analysis of the ribosomal ITS region

1999 ◽  
Vol 37 (2) ◽  
pp. 105-114 ◽  
Author(s):  
Y. GRAser ◽  
M. EL Fari ◽  
R. Vilgalys ◽  
A. F. A. Kuijpers ◽  
G. S. DE Hoog ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Its Region ◽  
The Family

Species-diagnostic and species-specific DNA sequences evenly distributed throughout pine and spruce chromosomes

Genome ◽  
2010 ◽  
Vol 53 (10) ◽  
pp. 769-777 ◽  
Author(s):  
Melanie Mehes-Smith ◽  
Paul Michael ◽  
Kabwe Nkongolo
Keyword(s):  
Dna Sequences ◽  
Random Amplified Polymorphic Dna ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Pinus Monticola ◽  
The Family ◽  
Species Specific ◽  
Rapd And Issr ◽  
Specific Sequences

Genome organization in the family Pinaceae is complex and largely unknown. The main purpose of the present study was to develop and physically map species-diagnostic and species-specific molecular markers in pine and spruce. Five RAPD (random amplified polymorphic DNA) and one ISSR (inter-simple sequence repeat) species-diagnostic or species-specific markers for Picea mariana , Picea rubens , Pinus strobus , or Pinus monticola were identified, cloned, and sequenced. In situ hybridization of these sequences to spruce and pine chromosomes showed the sequences to be present in high copy number and evenly distributed throughout the genome. The analysis of centromeric and telomeric regions revealed the absence of significant clustering of species-diagnostic and species-specific sequences in all the chromosomes of the four species studied. Both RAPD and ISSR markers showed similar patterns.

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