Genomic diversity of 39 samples of Pyropia species grown in Japan.

Some Pyropia species, such as nori (P. yezoensis), are important marine crops. We conducted a phylogenetic analysis of 39 samples of Pyropia species grown in Japan using organellar genome sequences. A comparison of the chloroplast DNA sequences with those from China showed a clear genetic separation...

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Autores principales:	Yukio Nagano, Kei Kimura, Genta Kobayashi, Yoshio Kawamura
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/6d3b17fcc88b445783eb9dd0d5d31e6d
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spelling	oai:doaj.org-article:6d3b17fcc88b445783eb9dd0d5d31e6d2021-12-02T20:10:53ZGenomic diversity of 39 samples of Pyropia species grown in Japan.1932-620310.1371/journal.pone.0252207https://doaj.org/article/6d3b17fcc88b445783eb9dd0d5d31e6d2021-01-01T00:00:00Zhttps://doi.org/10.1371/journal.pone.0252207https://doaj.org/toc/1932-6203Some Pyropia species, such as nori (P. yezoensis), are important marine crops. We conducted a phylogenetic analysis of 39 samples of Pyropia species grown in Japan using organellar genome sequences. A comparison of the chloroplast DNA sequences with those from China showed a clear genetic separation between Japanese and Chinese P. yezoensis. Conversely, comparing the mitochondrial DNA sequences did not separate Japanese and Chinese P. yezoensis. Analysis of organellar genomes showed that the genetic diversity of Japanese P. yezoensis used in this study is lower than that of Chinese wild P. yezoensis. To analyze the genetic relationships between samples of Japanese Pyropia, we used whole-genome resequencing to analyze their nuclear genomes. In the offspring resulting from cross-breeding between P. yezoensis and P. tenera, nearly 90% of the genotypes analyzed by mapping were explained by the presence of different chromosomes originating from two different parental species. Although the genetic diversity of Japanese P. yezoensis is low, analysis of nuclear genomes genetically separated each sample. Samples isolated from the sea were often genetically similar to those being farmed. Study of genetic heterogeneity of samples within a single aquaculture strain of P. yezoensis showed that samples were divided into two groups and the samples with frequent abnormal budding formed a single, genetically similar group. The results of this study will be useful for breeding and the conservation of Pyropia species.Yukio NaganoKei KimuraGenta KobayashiYoshio KawamuraPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 16, Iss 6, p e0252207 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Yukio Nagano Kei Kimura Genta Kobayashi Yoshio Kawamura Genomic diversity of 39 samples of Pyropia species grown in Japan.
description	Some Pyropia species, such as nori (P. yezoensis), are important marine crops. We conducted a phylogenetic analysis of 39 samples of Pyropia species grown in Japan using organellar genome sequences. A comparison of the chloroplast DNA sequences with those from China showed a clear genetic separation between Japanese and Chinese P. yezoensis. Conversely, comparing the mitochondrial DNA sequences did not separate Japanese and Chinese P. yezoensis. Analysis of organellar genomes showed that the genetic diversity of Japanese P. yezoensis used in this study is lower than that of Chinese wild P. yezoensis. To analyze the genetic relationships between samples of Japanese Pyropia, we used whole-genome resequencing to analyze their nuclear genomes. In the offspring resulting from cross-breeding between P. yezoensis and P. tenera, nearly 90% of the genotypes analyzed by mapping were explained by the presence of different chromosomes originating from two different parental species. Although the genetic diversity of Japanese P. yezoensis is low, analysis of nuclear genomes genetically separated each sample. Samples isolated from the sea were often genetically similar to those being farmed. Study of genetic heterogeneity of samples within a single aquaculture strain of P. yezoensis showed that samples were divided into two groups and the samples with frequent abnormal budding formed a single, genetically similar group. The results of this study will be useful for breeding and the conservation of Pyropia species.
format	article
author	Yukio Nagano Kei Kimura Genta Kobayashi Yoshio Kawamura
author_facet	Yukio Nagano Kei Kimura Genta Kobayashi Yoshio Kawamura
author_sort	Yukio Nagano
title	Genomic diversity of 39 samples of Pyropia species grown in Japan.
title_short	Genomic diversity of 39 samples of Pyropia species grown in Japan.
title_full	Genomic diversity of 39 samples of Pyropia species grown in Japan.
title_fullStr	Genomic diversity of 39 samples of Pyropia species grown in Japan.
title_full_unstemmed	Genomic diversity of 39 samples of Pyropia species grown in Japan.
title_sort	genomic diversity of 39 samples of pyropia species grown in japan.
publisher	Public Library of Science (PLoS)
publishDate	2021
url	https://doaj.org/article/6d3b17fcc88b445783eb9dd0d5d31e6d
work_keys_str_mv	AT yukionagano genomicdiversityof39samplesofpyropiaspeciesgrowninjapan AT keikimura genomicdiversityof39samplesofpyropiaspeciesgrowninjapan AT gentakobayashi genomicdiversityof39samplesofpyropiaspeciesgrowninjapan AT yoshiokawamura genomicdiversityof39samplesofpyropiaspeciesgrowninjapan
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Genomic diversity of 39 samples of Pyropia species grown in Japan.

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