Tandem repetition of baculovirus ie1 promoter results in upregulation of transcription

2001 ◽  
Vol 146 (7) ◽  
pp. 1407-1414 ◽  
Author(s):  
K. Kojima ◽  
T. Hayakawa ◽  
S. Asano ◽  
H. Bando
Keyword(s):  
Tandem Repetition

scholarly journals Comparative Evaluation of Band-Based Genotyping Methods for Mycobacterium intracellulare and Its Application for Epidemiological Analysis

2020 ◽  
Vol 8 (9) ◽  
pp. 1315
Author(s):  
Jeong-Ih Shin ◽  
Jong-Hun Ha ◽  
Dong-Hae Lee ◽  
Jeong-Gyu Choi ◽  
Kyu-Min Kim ◽  
...  
Keyword(s):  
Minimum Spanning Tree ◽  
Variable Number ◽  
Clinical Isolates ◽  
Epidemiological Analysis ◽  
Mycobacterium Intracellulare ◽  
Fundamental Information ◽  
Tandem Repetition ◽  
Comparative Results ◽  
Geographical Characteristics ◽  
Discriminatory Index

Mycobacterium intracellulare is a leading cause of nontuberculous mycobacterial pulmonary disease, with a rapidly increasing prevalence worldwide. This bacterium, commonly distributed in soil and water, is known to be transmitted through the environment rather than between people. Therefore, it is imperative to establish distinguishable genotyping methods to understand the clinical outcome, disease relapses, and epidemiology. Therefore, in this study, representative band-based genotyping methods were performed using M. intracellualre clinical isolates, and their Hunter–Gaston discriminatory index (HGDI) was 0.947, 0.994, and 1 for variable number tandem repetition (VNTR), VNTR-mycobacterial interspersed repetitive units, pulsed field gel electrophoresis, and repetitive sequence based-PCR, respectively. Although VNTR showed relatively low HGDI, co-infection with other M. intracellualre strains could be determined by loci showing allele diversity from 0 to 0.69. Additionally, genetic distance of clinical isolates from Gyeongnam/Korea, and other regions/countries were visualized by minimum spanning tree (MST) using the globally available VNTR profiles. The results of MST revealed that M. intracellulare isolated from patients in Gyeongnam/Korea had specific VNTR genotypes, which may be evidence of the geographic distribution of M. intracellulare specific genotypes. The comparative results of genotyping techniques and geographical characteristics in this study may provide fundamental information for the epidemiology of M. intracellulare.

scholarly journals MUC Gene Abnormalities in Sporadic and Hereditary Mucinous Colon Cancers with Microsatellite Instability

2005 ◽  
Vol 21 (3) ◽  
pp. 121-126 ◽  
Author(s):  
Chiara Pastrello ◽  
Manuela Santarosa ◽  
Mara Fornasarig ◽  
Roberto Sigon ◽  
Tiziana Perin ◽  
...  
Keyword(s):  
Microsatellite Instability ◽  
Southern Blotting ◽  
Repetitive Sequences ◽  
Variable Number ◽  
Molecular Pathway ◽  
Colon Cancers ◽  
Tandem Repetition ◽  
Indirect Consequence ◽  
Muc Genes ◽  
Gene Alterations

Aim of this study was verifying whether mucin producing colon cancers (CRCs) could develop through a molecular pathway involving microsatellite instability (MSI) and MUC gene alterations. Out of 49 CRCs expressing variable amounts of mucin, 22 (44.9%) were MSI-H and 5 (10.2%) were MSI-L. MUC genes were analyzed by Southern blotting and extra bands were evident in the Variable Number Tandem Repetition (VNTR) regions of MUC2 (5 cases) and MUC5AC (2 cases), but not MUC1 and MUC4 genes. Since the somatic VNTR abnormalities were detected in 6 MSI-H and in 1 MSI-L tumors, they seem to be peculiar of mismatch repair defective CRCs. Our finding suggests that alteration and/or loss of structurally normal MUC genes may be an important step in the neoplastic molecular pathway of a subset of CRCs and that mutations involving VNTR repetitive sequences may exist in MSI tumors as a direct and/or indirect consequence of an inefficient MMR system.

Patterns of tandem repetition in plant whole genome assemblies

2009 ◽  
Vol 281 (6) ◽  
pp. 579-590 ◽  
Author(s):  
Rafael Navajas-Pérez ◽  
Andrew H. Paterson
Keyword(s):  
Whole Genome ◽  
Tandem Repetition ◽  
Genome Assemblies

scholarly journals Differential regulation of a hydroxyproline-rich glycoprotein gene family in wounded and infected plants.

1987 ◽  
Vol 7 (12) ◽  
pp. 4337-4344 ◽  
Author(s):  
D R Corbin ◽  
N Sauer ◽  
C J Lamb
Keyword(s):  
Higher Plants ◽  
Differential Regulation ◽  
Glycoprotein Gene ◽  
The Third ◽  
Rich Domain ◽  
Signal Systems ◽  
Tandem Repetition ◽  
Low Copy Number ◽  
Stress Signal ◽  
Acid Unit

We have characterized three different transcripts induced by fungal elicitor, wounding, or infection which encode apoproteins of cell wall hydroxyproline-rich glycoproteins involved in plant defense against infection. The proteins encoded by two of these transcripts contain a proline-rich domain involving tandem repetition of the 16-amino-acid unit Tyr3-Lys-Ser-Pro4-Ser-Pro-Ser-Pro4. The third transcript encodes a protein with a proline-rich domain involving a variant of this 16-mer canonical repeat: Tyr3-His-Ser-Pro4-Lys-His-Ser-Pro4. Each transcript is encoded by a separate gene present at single or low copy number in the haploid genome. These transcripts exhibit markedly different patterns of accumulation in different stress conditions, indicating the operation of several distinct intercellular stress signal systems in higher plants.

scholarly journals IS THE NOTCH LOCUS OF DROSOPHILA MELANOGASTER A TANDEM REPEAT? CORRELATION OF THE GENETIC MAP AND COMPLEMENTATION PATTERN OF SELECTED MUTATIONS

Genetics ◽  
1973 ◽  
Vol 73 (3) ◽  
pp. 435-438
Author(s):  
Geoffrey G Foster
Keyword(s):  
Drosophila Melanogaster ◽  
Genetic Map ◽  
Tandem Repeat ◽  
Tertiary Structure ◽  
Genetic Material ◽  
Tandem Repetition ◽  
Notch Locus ◽  
Locus Product

ABSTRACT Correlation of the complementation relationships between the Notch locus alleles fag, fano, Ax59d and nd, with their genetic map order, suggests a tandem repetition within the locus of functionally related sites. This observation is discussed in relation to two hypotheses: (1) that the Notch locus contains a tandem repeat of genetic material; and (2) that the tertiary structure of the Notch locus product has a spiral configuration.

Tandem repetition of the 5′ mini-exon of variant surface glycoprotein genes: A multiple promoter for VSG gene transcription?

Cell ◽  
1983 ◽  
Vol 34 (3) ◽  
pp. 891-900 ◽  
Author(s):  
Titia De Lange ◽  
Alvin Y.C. Liu ◽  
Piet Borst ◽  
Marijke C. Tromp ◽  
Jacques H. Van Boom ◽  
...  
Keyword(s):  
Gene Transcription ◽  
Surface Glycoprotein ◽  
Variant Surface Glycoprotein ◽  
Tandem Repetition ◽  
Multiple Promoter

Differential regulation of a hydroxyproline-rich glycoprotein gene family in wounded and infected plants

1987 ◽  
Vol 7 (12) ◽  
pp. 4337-4344
Author(s):  
D R Corbin ◽  
N Sauer ◽  
C J Lamb
Keyword(s):  
Higher Plants ◽  
Differential Regulation ◽  
Glycoprotein Gene ◽  
The Third ◽  
Rich Domain ◽  
Signal Systems ◽  
Tandem Repetition ◽  
Low Copy Number ◽  
Stress Signal ◽  
Acid Unit

We have characterized three different transcripts induced by fungal elicitor, wounding, or infection which encode apoproteins of cell wall hydroxyproline-rich glycoproteins involved in plant defense against infection. The proteins encoded by two of these transcripts contain a proline-rich domain involving tandem repetition of the 16-amino-acid unit Tyr3-Lys-Ser-Pro4-Ser-Pro-Ser-Pro4. The third transcript encodes a protein with a proline-rich domain involving a variant of this 16-mer canonical repeat: Tyr3-His-Ser-Pro4-Lys-His-Ser-Pro4. Each transcript is encoded by a separate gene present at single or low copy number in the haploid genome. These transcripts exhibit markedly different patterns of accumulation in different stress conditions, indicating the operation of several distinct intercellular stress signal systems in higher plants.

scholarly journals Comparison of genomes of different species of coronaviruses using spectra of periodicities

2021 ◽  
Vol 2099 (1) ◽  
pp. 012038
Author(s):  
L A Miroshnichenko ◽  
V D Gusev ◽  
Yu P Dzhioev
Keyword(s):  
Rna Sequences ◽  
Pathogenic Potential ◽  
Random Sequences ◽  
Tandem Repetition ◽  
Complete Genomes ◽  
Noise Threshold ◽  
Almost All

Abstract In the genomes of different organisms, there are periodicities, i.e. fragments of DNA (RNA)-sequences formed by tandem repetition of the basic monomer (period). The spectra of periodicities with lengths exceeding the ‘noise’ threshold are quite compact and visible even for complete genomes. This makes them an acceptable tool for differentiating closely related objects. The objects of analysis in this work are the periodicities at genomes of three species of coronavirus: MERS, SARS, and SARS-CoV-2. It has been shown that there are markers in the form of periodicities that make it possible to distinguish between these species of coronaviruses. None of the periodicities identified in the genomes of the MERS species (except for the poly-a tract in the 3‘UTR) is found in the genomes of SARS and SARS-CoV-2 and vice versa. Revealed periodicities common to SARS and SARS-CoV-2, as well as inherent only to genomes of one species. The number of periodicities in SARS and SARS-CoV-2 significantly exceeds the number of periodicities in random sequences. The periodicities found in almost all genomes of only ‘their’ species are of the greatest interest in terms of revealing the pathogenic potential of the virus.

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