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High-throughput Identification of Gene Regulatory Sequences Using Next-generation Sequencing of Circular Chromosome Conformation Capture 4C-seq

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Published on: October 5, 2018

Library Construction for High-Throughput Mobile Element Identification and Genotyping.

Hongseok Ha^1,2, Nan Wang^1,2, Jinchuan Xing^3,4

¹Department of Genetics, Rutgers, the State University of New Jersey, Piscataway, NJ, USA.

Methods in Molecular Biology (Clifton, N.J.)

|May 31, 2015

Summary

This summary is machine-generated.

Mobile genetic elements drive genome variation. We developed Mobile Element Scanning (ME-Scan), a high-throughput sequencing method for detecting mobile elements across the entire genome.

Keywords:

High-throughput sequencing ME-Scan Mobile element Polymorphism Population diversity

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Area of Science:

Genomics
Molecular Biology
Bioinformatics

Background:

Mobile genetic elements (MGEs) are DNA sequences capable of moving or copying themselves within a genome.
MGEs are significant contributors to genetic and epigenetic variation, influencing genome evolution and function.
Understanding the genome-wide distribution of MGEs is crucial for studying their impact.

Purpose of the Study:

To present a novel, targeted high-throughput sequencing protocol for efficient genome-wide mobile element detection.
To provide a comprehensive description of the Mobile Element Scanning (ME-Scan) protocol, including key steps and considerations.

Main Methods:

Development of a targeted high-throughput sequencing protocol named Mobile Element Scanning (ME-Scan).
Detailed description of oligonucleotide design strategies for MGE enrichment.
Explanation of sequencing library construction and computational analysis pipelines for ME-Scan data.

Main Results:

The ME-Scan protocol enables targeted, high-throughput detection of mobile elements.
The protocol facilitates the determination of genome-wide mobile element distribution.
The study outlines the necessary steps for successful implementation of ME-Scan.

Conclusions:

ME-Scan offers a powerful approach for comprehensive mobile element analysis.
This protocol aids in understanding the role of mobile elements in genome variation and evolution.
The described methodology provides a foundation for future research on mobile element dynamics.