DNA methylation landscape of 16 canine somatic tissues by methylation-sensitive restriction enzyme-based next generation sequencing

Abstract DNA methylation plays important functions in gene expression regulation that is involved in individual development and various diseases. DNA methylation has been well studied in human and model organisms, but only limited data exist in companion animals like dog. Using methylation-sensitive...

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Autores principales:	Jumpei Yamazaki, Yuki Matsumoto, Jaroslav Jelinek, Teita Ishizaki, Shingo Maeda, Kei Watanabe, Genki Ishihara, Junya Yamagishi, Mitsuyoshi Takiguchi
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/ed805d32d9d44ff9ae3bc26058b39e3f
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spelling	oai:doaj.org-article:ed805d32d9d44ff9ae3bc26058b39e3f2021-12-02T15:36:14ZDNA methylation landscape of 16 canine somatic tissues by methylation-sensitive restriction enzyme-based next generation sequencing10.1038/s41598-021-89279-02045-2322https://doaj.org/article/ed805d32d9d44ff9ae3bc26058b39e3f2021-05-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-89279-0https://doaj.org/toc/2045-2322Abstract DNA methylation plays important functions in gene expression regulation that is involved in individual development and various diseases. DNA methylation has been well studied in human and model organisms, but only limited data exist in companion animals like dog. Using methylation-sensitive restriction enzyme-based next generation sequencing (Canine DREAM), we obtained canine DNA methylation maps of 16 somatic tissues from two dogs. In total, we evaluated 130,861 CpG sites. The majority of CpG sites were either highly methylated (> 70%, 52.5–64.6% of all CpG sites analyzed) or unmethylated (< 30%, 22.5–28.0% of all CpG sites analyzed) which are methylation patterns similar to other species. The overall methylation status of CpG sites across the 32 methylomes were remarkably similar. However, the tissue types were clearly defined by principle component analysis and hierarchical clustering analysis with DNA methylome. We found 6416 CpG sites located closely at promoter region of genes and inverse correlation between DNA methylation and gene expression of these genes. Our study provides basic dataset for DNA methylation profiles in dogs.Jumpei YamazakiYuki MatsumotoJaroslav JelinekTeita IshizakiShingo MaedaKei WatanabeGenki IshiharaJunya YamagishiMitsuyoshi TakiguchiNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-10 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Jumpei Yamazaki Yuki Matsumoto Jaroslav Jelinek Teita Ishizaki Shingo Maeda Kei Watanabe Genki Ishihara Junya Yamagishi Mitsuyoshi Takiguchi DNA methylation landscape of 16 canine somatic tissues by methylation-sensitive restriction enzyme-based next generation sequencing
description	Abstract DNA methylation plays important functions in gene expression regulation that is involved in individual development and various diseases. DNA methylation has been well studied in human and model organisms, but only limited data exist in companion animals like dog. Using methylation-sensitive restriction enzyme-based next generation sequencing (Canine DREAM), we obtained canine DNA methylation maps of 16 somatic tissues from two dogs. In total, we evaluated 130,861 CpG sites. The majority of CpG sites were either highly methylated (> 70%, 52.5–64.6% of all CpG sites analyzed) or unmethylated (< 30%, 22.5–28.0% of all CpG sites analyzed) which are methylation patterns similar to other species. The overall methylation status of CpG sites across the 32 methylomes were remarkably similar. However, the tissue types were clearly defined by principle component analysis and hierarchical clustering analysis with DNA methylome. We found 6416 CpG sites located closely at promoter region of genes and inverse correlation between DNA methylation and gene expression of these genes. Our study provides basic dataset for DNA methylation profiles in dogs.
format	article
author	Jumpei Yamazaki Yuki Matsumoto Jaroslav Jelinek Teita Ishizaki Shingo Maeda Kei Watanabe Genki Ishihara Junya Yamagishi Mitsuyoshi Takiguchi
author_facet	Jumpei Yamazaki Yuki Matsumoto Jaroslav Jelinek Teita Ishizaki Shingo Maeda Kei Watanabe Genki Ishihara Junya Yamagishi Mitsuyoshi Takiguchi
author_sort	Jumpei Yamazaki
title	DNA methylation landscape of 16 canine somatic tissues by methylation-sensitive restriction enzyme-based next generation sequencing
title_short	DNA methylation landscape of 16 canine somatic tissues by methylation-sensitive restriction enzyme-based next generation sequencing
title_full	DNA methylation landscape of 16 canine somatic tissues by methylation-sensitive restriction enzyme-based next generation sequencing
title_fullStr	DNA methylation landscape of 16 canine somatic tissues by methylation-sensitive restriction enzyme-based next generation sequencing
title_full_unstemmed	DNA methylation landscape of 16 canine somatic tissues by methylation-sensitive restriction enzyme-based next generation sequencing
title_sort	dna methylation landscape of 16 canine somatic tissues by methylation-sensitive restriction enzyme-based next generation sequencing
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/ed805d32d9d44ff9ae3bc26058b39e3f
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DNA methylation landscape of 16 canine somatic tissues by methylation-sensitive restriction enzyme-based next generation sequencing

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