Genome-wide profiling of histone modifications and histone variants in Arabidopsis thaliana and Marchantia polymorpha

Ramesh Yelagandula; Akihisa Osakabe; Elin Axelsson; Frederic Berger; Tomokazu Kawashima

doi:10.1007/978-1-4939-7003-2_7

Genome-wide profiling of histone modifications and histone variants in Arabidopsis thaliana and Marchantia polymorpha

Ramesh Yelagandula
, Akihisa Osakabe
, Elin Axelsson
, Frederic Berger
, Tomokazu Kawashima

Producción científica: Chapter › revisión exhaustiva

8 Citas (Scopus)

Resumen

Histone modifications and histone variants barcode the genome and play major roles in epigenetic regulations. Chromatin immunoprecipitation (ChIP) coupled with next-generation sequencing (NGS) is a well-established method to investigate the landscape of epigenetic marks at a genomic level. Here, we describe procedures for conducting ChIP, subsequent NGS library construction, and data analysis on histone modifications and histone variants in Arabidopsis thaliana. We also describe an optimized nuclear isolation procedure to prepare chromatin for ChIP in the liverwort, Marchantia polymorpha, which is the emerging model plant ideal for evolutionary studies.

Idioma original	English
Título de la publicación alojada	Methods in Molecular Biology
Páginas	93-106
Número de páginas	14
DOI	https://doi.org/10.1007/978-1-4939-7003-2_7
Estado	Published - 2017

Serie de la publicación

Nombre	Methods in Molecular Biology
Volumen	1610
ISSN (versión impresa)	1064-3745

Nota bibliográfica

Publisher Copyright:
© Springer Science+Business Media LLC 2017.

Financiación

Thanks to S. Akimcheva and J. S. Russell for technical assistance and critical reading, respectively. AO was supported by a Grant-in-Aid for the Japan Society for the Promotion of Science (JSPS) Fellows. RY, TK, EA, and FB were funded by GMI and FWF (grants 2163-B16 linked to ERA-CAPS project EVOREPRO).

Financiadores	Número del financiador
GMI
Japan Society for the Promotion of Science
Austrian Science Fund/FWF	2163-B16
Austrian Science Fund/FWF

ASJC Scopus subject areas

Molecular Biology
Genetics

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abstract = "Histone modifications and histone variants barcode the genome and play major roles in epigenetic regulations. Chromatin immunoprecipitation (ChIP) coupled with next-generation sequencing (NGS) is a well-established method to investigate the landscape of epigenetic marks at a genomic level. Here, we describe procedures for conducting ChIP, subsequent NGS library construction, and data analysis on histone modifications and histone variants in Arabidopsis thaliana. We also describe an optimized nuclear isolation procedure to prepare chromatin for ChIP in the liverwort, Marchantia polymorpha, which is the emerging model plant ideal for evolutionary studies.",

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AU - Axelsson, Elin

AU - Berger, Frederic

AU - Kawashima, Tomokazu

N1 - Publisher Copyright: © Springer Science+Business Media LLC 2017.

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AB - Histone modifications and histone variants barcode the genome and play major roles in epigenetic regulations. Chromatin immunoprecipitation (ChIP) coupled with next-generation sequencing (NGS) is a well-established method to investigate the landscape of epigenetic marks at a genomic level. Here, we describe procedures for conducting ChIP, subsequent NGS library construction, and data analysis on histone modifications and histone variants in Arabidopsis thaliana. We also describe an optimized nuclear isolation procedure to prepare chromatin for ChIP in the liverwort, Marchantia polymorpha, which is the emerging model plant ideal for evolutionary studies.

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KW - Histone modifications

KW - Histone variants

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Genome-wide profiling of histone modifications and histone variants in Arabidopsis thaliana and Marchantia polymorpha

Resumen

Serie de la publicación

Nota bibliográfica

Financiación

ASJC Scopus subject areas

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