Abstract
Miniature inverted-repeat transposable elements (MITEs) are a subset of short, non-autonomous class II transposable elements and also a major source of eukaryotic genomic variation. Therefore, genome-wide identification of MITE insertions can help to shed light on their copy number variation and genome insertion features. Here, we present a protocol for targeted MITE identification and genotyping by high-throughput sequencing. By introducing genome-wide detection of the rice mJing MITE as an example, we describe DNA extraction, DNA fragmentation, targeted DNA fragment enrichment, library construction for high-throughput sequencing, and sequence analysis.
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Acknowledgement
This work was supported by Chinese Universities Scientific Fund (Grant No. 2019TC087).
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Tang, Y., Liu, F., Tan, L. (2021). Genome-Wide Identification of Miniature Inverted-Repeat Transposable Elements by Targeted High-Throughput Sequencing. In: Cho, J. (eds) Plant Transposable Elements. Methods in Molecular Biology, vol 2250. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-1134-0_6
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DOI: https://doi.org/10.1007/978-1-0716-1134-0_6
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Publisher Name: Humana, New York, NY
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Online ISBN: 978-1-0716-1134-0
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