Molecular Mechanisms of Transposon Epigenetic Regulation

Martienssen, Robert A.; Chandler, Vicki L.

doi:10.1002/9781118500156.ch5

Cited by 6 publications

(1 citation statement)

References 200 publications

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“…We infer that there are more complex linking structures in DNA, and that just via these 'trivial' DNA fragments (see the yellow and red parts in Figure 5) the primers have realized 'jump' amplification. Here we define these 'trivial' DNA fragments as medium genes that may be a transposon of the DNA (Guo et al, 2013;Katter et al, 2013;Martienssen and Chandler, 2013;van Opijnen, and Camilli, 2013), or linkages in DNA or linkages between one DNA and another DNA. The role of the medium genes in DNA structure is not yet known to us.…”

Section: Discussionmentioning

confidence: 99%

Shortening distance of forward and reverse primers for nucleic acid isothermal amplification

Zhang

et al. 2014

Biological Chemistry

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Existent nucleic acid isothermal detection techniques for clinical diseases are difficult to promote greatly due to limitations in such aspects as methodology, costs of detection, amplification efficiency and conditions for operation. There is therefore an urgent need for a new isothermal amplification method with the characteristics of high accuracy, easy operation, short time of detection and low costs. We have devised a new method of nucleic acid isothermal amplification using Bst DNA polymerase under isothermal conditions (60-65°C). We call this method of amplification by shortening the distance between forward and reverse primers for nucleic acid isothermal amplification SDAMP. The results demonstrated that this technique is highly sensitive, specific and has short reaction times (40-60 min). Results of sequencing show that the products of SDAMP amplification are mainly polymers formed by series connection of monomers formed through linkage of forward primer and complementary sequences in reverse primer via a few bases. The method is different from current methods of nucleic acid amplification. Our study shows, however, that it is a specific method of nucleic acid isothermal amplification depending on interactions between primers and DNA template.

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Section: Discussionmentioning

confidence: 99%

Shortening distance of forward and reverse primers for nucleic acid isothermal amplification

Zhang

et al. 2014

Biological Chemistry

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In Silico Identification of Stress-Associated Transposable Elements in Arabidopsis thaliana Using Public Transcriptome Data

Eskier

Karakülah

2021

Methods in Molecular Biology

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Marker utility of transposable elements for plant genetics, breeding, and ecology: a review

et al. 2014

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Variation is the primary source for plant and animal breeding and evolution, and hence, the detection of variation is an integral part of genetics, breeding, and ecology. Various molecular marker systems have been developed to detect genetic variation. They detect sequence variations (e.g., restriction fragment length polymorphism, randomly amplified polymorphic DNA, amplified fragment length polymorphism) or simple sequence motif variations. However, a large portion of genomic variation is derived from the transposition of transposable elements (TEs), which are major denizens of most eukaryote genomes. Therefore, molecular markers derived from TEs are valuable resources for dissecting genomes in plants and animals. Because class I retrotransposons transpose by a ''copy-and-paste'' semi-conservative manner, retrotransposon-based markers (e.g., Inter-retrotransposon amplified polymorphism, retrotransposon-microsatellite amplified polymorphism, sequence-specific amplified polymorphism) can reveal highly accurate phylogenetic relationships among related taxa as well as among accessions within a species. Transposon display based on class II DNA transposons has also been used in various genetics fields. A large amount of fairly accurate genome sequences are now being generated, and computational biology allows us to mine the TEs on a genome-wide scale. Thus, TE-based molecular markers are adding another venue to the other marker systems used for the molecular dissection of genomes.

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Molecular Mechanisms of Transposon Epigenetic Regulation

Cited by 6 publications

References 200 publications

Shortening distance of forward and reverse primers for nucleic acid isothermal amplification

Shortening distance of forward and reverse primers for nucleic acid isothermal amplification

In Silico Identification of Stress-Associated Transposable Elements in Arabidopsis thaliana Using Public Transcriptome Data

Marker utility of transposable elements for plant genetics, breeding, and ecology: a review

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