Ultra-long DNA molecule isolation from plant nuclei for ultra-long read genome sequencing

Dessireé Zerpa-Catanho; Xiaodan Zhang; Jinjin Song; Alvaro G. Hernandez; Ray Ming

doi:10.1016/j.xpro.2021.100343

Ultra-long DNA molecule isolation from plant nuclei for ultra-long read genome sequencing

Dessireé Zerpa-Catanho, Xiaodan Zhang, Jinjin Song, Alvaro G. Hernandez, Ray Ming

Research output: Contribution to journal › Article › peer-review

Abstract

Long and ultra-long read DNA sequencing technologies require high molecular weight DNA with high quality and sufficient quantity, which could be challenging to obtain from recalcitrant plant tissues. We describe a protocol to isolate ultra-long DNA from 12 species for ultra-long read genome sequencing. A suitable nuclei lysis buffer is critical for DNA quality and yield. This protocol will enable individual labs to isolate high molecular weight DNA at a rapid pace with low cost from a variety of plant species. For complete information on the use and execution of this protocol, please refer to: Zhang et al. (2020).

Original language	English (US)
Article number	100343
Journal	STAR Protocols
Volume	2
Issue number	1
DOIs	https://doi.org/10.1016/j.xpro.2021.100343
State	Published - Mar 19 2021

Keywords

Genomics
Molecular biology
Sequencing

ASJC Scopus subject areas

Biochemistry, Genetics and Molecular Biology(all)
Neuroscience(all)
Immunology and Microbiology(all)
Medicine(all)

Online availability

10.1016/j.xpro.2021.100343

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abstract = "Long and ultra-long read DNA sequencing technologies require high molecular weight DNA with high quality and sufficient quantity, which could be challenging to obtain from recalcitrant plant tissues. We describe a protocol to isolate ultra-long DNA from 12 species for ultra-long read genome sequencing. A suitable nuclei lysis buffer is critical for DNA quality and yield. This protocol will enable individual labs to isolate high molecular weight DNA at a rapid pace with low cost from a variety of plant species. For complete information on the use and execution of this protocol, please refer to: Zhang et al. (2020).",

keywords = "Genomics, Molecular biology, Sequencing",

author = "Dessire{\'e} Zerpa-Catanho and Xiaodan Zhang and Jinjin Song and Hernandez, {Alvaro G.} and Ray Ming",

note = "Funding Information: We thank Tracie Matsumoto for providing plant materials of Caricaceae species and Tyler Jones and Ming-Li Wang for providing sugarcane and papaya samples. This protocol was developed as part of the Plant Genome Research Program DBI-1546890 awarded to R.M. by the National Science Foundation (NSF). Sequencing was done by the Roy J. Carver Biotechnology Center at the University of Illinois. Publisher Copyright: {\textcopyright} 2021 The Author(s)",

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day = "19",

doi = "10.1016/j.xpro.2021.100343",

language = "English (US)",

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AU - Zerpa-Catanho, Dessireé

AU - Zhang, Xiaodan

AU - Song, Jinjin

AU - Hernandez, Alvaro G.

AU - Ming, Ray

N1 - Funding Information: We thank Tracie Matsumoto for providing plant materials of Caricaceae species and Tyler Jones and Ming-Li Wang for providing sugarcane and papaya samples. This protocol was developed as part of the Plant Genome Research Program DBI-1546890 awarded to R.M. by the National Science Foundation (NSF). Sequencing was done by the Roy J. Carver Biotechnology Center at the University of Illinois. Publisher Copyright: © 2021 The Author(s)

PY - 2021/3/19

Y1 - 2021/3/19

N2 - Long and ultra-long read DNA sequencing technologies require high molecular weight DNA with high quality and sufficient quantity, which could be challenging to obtain from recalcitrant plant tissues. We describe a protocol to isolate ultra-long DNA from 12 species for ultra-long read genome sequencing. A suitable nuclei lysis buffer is critical for DNA quality and yield. This protocol will enable individual labs to isolate high molecular weight DNA at a rapid pace with low cost from a variety of plant species. For complete information on the use and execution of this protocol, please refer to: Zhang et al. (2020).

AB - Long and ultra-long read DNA sequencing technologies require high molecular weight DNA with high quality and sufficient quantity, which could be challenging to obtain from recalcitrant plant tissues. We describe a protocol to isolate ultra-long DNA from 12 species for ultra-long read genome sequencing. A suitable nuclei lysis buffer is critical for DNA quality and yield. This protocol will enable individual labs to isolate high molecular weight DNA at a rapid pace with low cost from a variety of plant species. For complete information on the use and execution of this protocol, please refer to: Zhang et al. (2020).

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KW - Molecular biology

KW - Sequencing

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Ultra-long DNA molecule isolation from plant nuclei for ultra-long read genome sequencing

Abstract

Keywords

ASJC Scopus subject areas

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