Characterization of a single-locus minisatellite DNA in Xenopus laevis

Genome ◽  
1996 ◽  
Vol 39 (1) ◽  
pp. 230-233
Author(s):  
Daniel H. Shain ◽  
Mauricio X. Zuber ◽  
Roger T. Stone ◽  
Jakyoung Yoo
Keyword(s):  
Xenopus Laevis ◽  
Key Words ◽  
Restriction Endonuclease ◽  
Repetitive Dna ◽  
Single Locus ◽  
Repeat Number ◽  
Minisatellite Dna ◽  
Coding Regions ◽  
Flanking Sequences

We have cloned a minisatellite tandem array (XTA) from Xenopus laevis that contains approximately 200 copies of the 20-bp repeat 5′-CCAACAGCCTGCCCATCCAT-3′. The XTA sequence is present only once per haploid genome and is polymorphic with respect to repeat number and location of flanking restriction endonuclease sites. Although the 20-bp repeat has not previously been described, flanking sequences suggest that it lies proximal to coding regions in the Xenopus genome. Key words : repetitive DNA, minisatellite DNA, VNTR, evolution, tetraploid, polymorphic.

Characterization of a repetitive element detected by NheI in the genomes of Salmo species

Genome ◽  
1994 ◽  
Vol 37 (4) ◽  
pp. 639-645 ◽  
Author(s):  
John L. Goodier ◽  
William S. Davidson
Keyword(s):  
Atlantic Salmon ◽  
Key Words ◽  
Repetitive Dna ◽  
Brown Trout ◽  
Restriction Enzyme ◽  
Satellite Dna ◽  
Repetitive Element ◽  
Recognition Sequence ◽  
Transposon Evolution

The genomes of the two species in the genus Salmo (Atlantic salmon, S. salar; brown trout, S. trutta) contain a 380-bp repetitive element that is flanked by the recognition sequence of the restriction enzyme NheI. These elements, which comprise approximately 1.2% of the salmon genome, do not exist in long tandem arrays as is typical of satellite DNA. A comparison of the sequences of 16 salmon and 7 trout elements revealed that members of this family of repetitive DNA are closely related to one another (over 95% identity). Subfamily structure exists and there is evidence that members of the same subfamilies are found in both Salmo species. A search of the GenBank database indicated that sequences homologous to the NheI repeat are located within a 1424-bp segment inserted immediately downstream of the 5′ end of a Tc1 transposon-like sequence isolated from Atlantic salmon (A.R. Radice, B. Bugaj, D.H. Fitch, and S.W. Emmons, unpublished data; GenBank accession No. L12206).Key words: satellite DNA, Atlantic salmon, brown trout, Tc1-like transposon, evolution.

Molecular characterization of GATA/GACA microsatellite repeats in tomato

Genome ◽  
1997 ◽  
Vol 40 (1) ◽  
pp. 25-33 ◽  
Author(s):  
B. Vosman ◽  
P. Arens
Keyword(s):  
Repetitive Dna ◽  
Cultivar Identification ◽  
Single Point ◽  
Point Mutations ◽  
Single Point Mutation ◽  
New Class ◽  
Microsatellite Repeats ◽  
Flanking Sequences ◽  
Simple Sequence

Microsatellite repeats like GATA or GACA display a degree of variability that allows their use in cultivar identification. Southern hybridization with oligonucleotide probes complementary to these microsatellites were used for the detection of polymorphisms. To understand the molecular structure of the detected DNA, fragments hybridizing to GATA and GACA probes were cloned and sequenced. In the four clones analyzed, repeats of GATA and GACA were found intertwined. The GATA and GACA arrays were not perfect but were heavily degenerated, in that they contained many tetranucleotides that might have been derived by a single point mutation from GATA or GACA. Some of these derived sequences, like GGTA and GGAT, were present as relatively long stretches that also contained some point mutations. This supports the hypothesis that long stretches of repeats are stabilized by the accumulation of point mutations. Analysis of the flanking sequences of the fragments obtained with the GACA probe showed that one of them was homologous to a Lilium henryi retrotransposon and the other to a sequence upstream of a potato patatin gene. The two fragments obtained using the GATA probe were flanked by DNA that had no homology to any known sequence but they were highly homologous to each other. This DNA was frequently associated with GATA elements and was present in the tomato genome in approximately 4300 copies. The function of this new class of repetitive DNA, here termed U30, is presently unknown.Key words: simple sequence repeats, Lycopersicon esculentum, cultivar identification, repetitive DNA.

Characterization of repetitive DNA transcripts isolated from a Xenopus laevis gastrula-stage cDNA clone bank

1987 ◽  
Vol 196 (1) ◽  
pp. 22-29 ◽  
Author(s):  
Wolfgang Meyerhof ◽  
Elke Korge ◽  
Walter Kn�chel
Keyword(s):  
Xenopus Laevis ◽  
Repetitive Dna ◽  
Cdna Clone ◽  
Gastrula Stage

Establishment and characterization of hamster cell lines transformed by restriction endonuclease fragments of adenovirus 5.

1984 ◽  
Vol 49 (1) ◽  
pp. 162-170 ◽  
Author(s):  
D T Rowe ◽  
P E Branton ◽  
S P Yee ◽  
S Bacchetti ◽  
F L Graham
Keyword(s):  
Restriction Endonuclease ◽  
Cell Lines ◽  
Adenovirus 5

scholarly journals Non-Coding Variants in Cancer: Mechanistic Insights and Clinical Potential for Personalized Medicine

2021 ◽  
Vol 7 (3) ◽  
pp. 47
Author(s):  
Marios Lange ◽  
Rodiola Begolli ◽  
Antonis Giakountis
Keyword(s):  
Disease Onset ◽  
Cancer Genome ◽  
Driver Mutations ◽  
Nucleotide Polymorphisms ◽  
Structural Variations ◽  
Coding Regions ◽  
Functional Variants ◽  
Coding Variants ◽  
Clinical Potential

The cancer genome is characterized by extensive variability, in the form of Single Nucleotide Polymorphisms (SNPs) or structural variations such as Copy Number Alterations (CNAs) across wider genomic areas. At the molecular level, most SNPs and/or CNAs reside in non-coding sequences, ultimately affecting the regulation of oncogenes and/or tumor-suppressors in a cancer-specific manner. Notably, inherited non-coding variants can predispose for cancer decades prior to disease onset. Furthermore, accumulation of additional non-coding driver mutations during progression of the disease, gives rise to genomic instability, acting as the driving force of neoplastic development and malignant evolution. Therefore, detection and characterization of such mutations can improve risk assessment for healthy carriers and expand the diagnostic and therapeutic toolbox for the patient. This review focuses on functional variants that reside in transcribed or not transcribed non-coding regions of the cancer genome and presents a collection of appropriate state-of-the-art methodologies to study them.

scholarly journals Cloning and characterization of an endothelin-3 specific receptor (ETC receptor) from Xenopus laevis dermal melanophores.

1993 ◽  
Vol 268 (25) ◽  
pp. 19126-19133 ◽  
Author(s):  
S. Karne ◽  
C.K. Jayawickreme ◽  
M.R. Lerner
Keyword(s):  
Xenopus Laevis ◽  
Specific Receptor ◽  
Endothelin 3

scholarly journals Isolation and characterization of bone marrow-derived mesenchymal stem cells in Xenopus laevis

2021 ◽  
pp. 102341
Author(s):  
Rina Otsuka-Yamaguchi ◽  
Masaaki Kitada ◽  
Yasumasa Kuroda ◽  
Yoshihiro Kushida ◽  
Shohei Wakao ◽  
...  
Keyword(s):  
Stem Cells ◽  
Bone Marrow ◽  
Mesenchymal Stem Cells ◽  
Xenopus Laevis ◽  
Isolation And Characterization
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