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Comparison of structural variants detected by PacBio-CLR and ONT sequencing in pear by Yueyuan Liu; Mingyue Zhang; Runze Wang; Benping Li; Yafei Jiang; Manyi Sun; Yaojun Chang; Jun Wu is a Biochemistry, Genetics and Molecular Biology article available to read on EtoBox.

What is Comparison of structural variants detected by PacBio-CLR and ONT sequencing in pear about?

## Abstract ## Background Structural variations (SVs) have recently become a topic of great interest in the area of genetic diversity and trait regulation. As genomic sequencing technologies have rapidly advanced, longer reads have been used to identify SVs at high resolution and with increased accuracy. It is important to choose a suitable sequencing platform and appropriate sequencing depth for SV detection in the pear genome. ## Results In this study, two types of long reads from sequencing platforms, continuous long reads from Pacific Biosciences (PB-CLR) and long reads from Oxford Nanopore Technologies (ONT), were used to comprehensively analyze and compare SVs in the pear genome. The mapping rate of long reads was higher when the program Minimap2 rather than the other three mapping tools (NGMLR, LRA and Winnowmap2) was used. Three SV detection programs (Sniffles\_v2, CuteSV, and Nanovar) were compared, and Nanovar had the highest sensitivity in detecting SVs at low sequencing depth (10–15×). A sequencing depth of 15× was suitable for SV detection in the pear genome using Nanovar. SVs detected by Sniffles\_v2 and CuteSV with ONT reads had the high overlap with presence/absence

Who reads Comparison of structural variants detected by PacBio-CLR and ONT sequencing in pear?

Author

Yueyuan Liu; Mingyue Zhang; Runze Wang; Benping Li; Yafei Jiang; Manyi Sun; Yaojun Chang; Jun Wu

Publisher

Springer Science and Business Media LLC

Published

2022

Language

EN

Field

Biochemistry, Genetics and Molecular Biology (Life Sciences)