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Related Concept Videos

DNA-only Transposons02:57

DNA-only Transposons

14.4K
DNA-only transposons are called autonomous transposons since they code for the enzyme transposase that is required for the transposition mechanism. Insertion of transposons can alter gene functions in multiple ways. They can mutate the gene, alter gene expression by introducing a novel promoter or insulator sequence, introduce new splice sites, and change the mRNA transcripts produced, or remodel chromatin structure.
The donor site from where the transposon is excised is either degraded or...
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Overview of Transposition and Recombination02:13

Overview of Transposition and Recombination

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Transposons make up a significant part of genomes of various organisms. Therefore, it is believed that transposition played a major evolutionary role in speciation by changing genome sizes and modifying gene expression patterns. For example, in bacteria, transposition can lead to conferring antibiotic resistance. Movement of transposable elements within the genetic pool of pathogenic bacteria can aid in transfer of antibiotic-resistant genetic elements. In eukaryotes, transposons can carry out...
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Related Experiment Video

Updated: Jun 7, 2025

Generating Transposon Insertion Libraries in Gram-Negative Bacteria for High-Throughput Sequencing
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PIMMS-Dash: Accessible analysis, interrogation, and visualisation of high-throughput transposon insertion sequencing

Adam M Blanchard1, Adam Taylor2, Andrew Warry2

  • 1University of Nottingham, School of Veterinary Medicine and Science, Leicestershire LE12 5RD, United Kingdom.

Computational and Structural Biotechnology Journal
|November 11, 2024
PubMed
Summary

Researchers can now easily analyze transposon insertion sequencing (TIS) data with PIMMS-Dash, a new web tool. This tool simplifies identifying fitness-contributing genes and generating publication-quality figures without extensive bioinformatics expertise.

Keywords:
TISTransposon Mutagenesis

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Area of Science:

  • Genomics
  • Bioinformatics
  • Molecular Biology

Background:

  • High-throughput transposon insertion sequencing (TIS) data analysis is complex and time-consuming.
  • Existing methods often require significant bioinformatics expertise and produce static visualizations.
  • Lack of accessible tools hinders real-time data interrogation and understanding of gene function.

Purpose of the Study:

  • To develop an accessible web-based tool for visualizing and analyzing TIS data.
  • To enable researchers of all bioinformatics skill levels to interrogate TIS datasets.
  • To facilitate the identification of genes contributing to fitness in experimental systems.

Main Methods:

  • Creation of PIMMS-Dash, a web-based browser tool.
  • Integration with the PIMMS analysis pipeline for TIS data processing.
  • Implementation of interactive and sortable tables for data exploration.

Main Results:

  • PIMMS-Dash provides interactive visualization of TIS data.
  • The tool allows for easy identification of genes of interest and their contribution to fitness.
  • Researchers can generate publication-quality figures directly from the tool.

Conclusions:

  • PIMMS-Dash democratizes TIS data analysis, making it accessible to a wider research community.
  • The tool enhances understanding of gene fitness contributions through intuitive data interrogation.
  • PIMMS-Dash supports efficient generation of high-quality figures for scientific publications.