Elucidation of Japanese pepper (Zanthoxylum piperitum De Candolle) domestication using RAD-Seq

Abstract Japanese pepper, Zanthoxylum piperitum, is native to Japan and has four well-known lineages (Asakura, Takahara, Budou, and Arima), which are named after their production area or morphology. Restriction-site associated DNA sequencing (RAD-Seq) was used to analyse 93 accessions from various a...

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Autores principales:	Maddumage Dona Ginushika Priyadarshani Premarathne, Nami Fukutome, Kazuaki Yamasaki, Fumiyo Hayakawa, Atsushi J. Nagano, Hisataka Mizuno, Nobuo Ibaragi, Yukio Nagano
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/638f68b868a646d79f6033abfe71322d
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spelling	oai:doaj.org-article:638f68b868a646d79f6033abfe71322d2021-12-02T13:18:09ZElucidation of Japanese pepper (Zanthoxylum piperitum De Candolle) domestication using RAD-Seq10.1038/s41598-021-85909-92045-2322https://doaj.org/article/638f68b868a646d79f6033abfe71322d2021-03-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-85909-9https://doaj.org/toc/2045-2322Abstract Japanese pepper, Zanthoxylum piperitum, is native to Japan and has four well-known lineages (Asakura, Takahara, Budou, and Arima), which are named after their production area or morphology. Restriction-site associated DNA sequencing (RAD-Seq) was used to analyse 93 accessions from various areas, including these four lineages. Single nucleotide variant analysis was used to classify the plants into eight groups: the Asakura and Arima lineages each had two groups, the Takahara and Budou lineages each had one group, and two additional groups were present. In one Asakura group and two Arima groups, the plants were present in agricultural fields and mountains, thus representing the early stage of domestication of the Japanese pepper. The second Asakura lineage group was closely related to plants present in various areas, and this represents the second stage of domestication of this plant because, after early domestication, genetically related lineages with desirable traits spread to the periphery. These results demonstrate that domestication of Japanese pepper is ongoing. In addition, this study shows that spineless plants are polyphyletic, despite the spineless lineage being considered a subspecies of Japanese pepper.Maddumage Dona Ginushika Priyadarshani PremarathneNami FukutomeKazuaki YamasakiFumiyo HayakawaAtsushi J. NaganoHisataka MizunoNobuo IbaragiYukio NaganoNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-16 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Maddumage Dona Ginushika Priyadarshani Premarathne Nami Fukutome Kazuaki Yamasaki Fumiyo Hayakawa Atsushi J. Nagano Hisataka Mizuno Nobuo Ibaragi Yukio Nagano Elucidation of Japanese pepper (Zanthoxylum piperitum De Candolle) domestication using RAD-Seq
description	Abstract Japanese pepper, Zanthoxylum piperitum, is native to Japan and has four well-known lineages (Asakura, Takahara, Budou, and Arima), which are named after their production area or morphology. Restriction-site associated DNA sequencing (RAD-Seq) was used to analyse 93 accessions from various areas, including these four lineages. Single nucleotide variant analysis was used to classify the plants into eight groups: the Asakura and Arima lineages each had two groups, the Takahara and Budou lineages each had one group, and two additional groups were present. In one Asakura group and two Arima groups, the plants were present in agricultural fields and mountains, thus representing the early stage of domestication of the Japanese pepper. The second Asakura lineage group was closely related to plants present in various areas, and this represents the second stage of domestication of this plant because, after early domestication, genetically related lineages with desirable traits spread to the periphery. These results demonstrate that domestication of Japanese pepper is ongoing. In addition, this study shows that spineless plants are polyphyletic, despite the spineless lineage being considered a subspecies of Japanese pepper.
format	article
author	Maddumage Dona Ginushika Priyadarshani Premarathne Nami Fukutome Kazuaki Yamasaki Fumiyo Hayakawa Atsushi J. Nagano Hisataka Mizuno Nobuo Ibaragi Yukio Nagano
author_facet	Maddumage Dona Ginushika Priyadarshani Premarathne Nami Fukutome Kazuaki Yamasaki Fumiyo Hayakawa Atsushi J. Nagano Hisataka Mizuno Nobuo Ibaragi Yukio Nagano
author_sort	Maddumage Dona Ginushika Priyadarshani Premarathne
title	Elucidation of Japanese pepper (Zanthoxylum piperitum De Candolle) domestication using RAD-Seq
title_short	Elucidation of Japanese pepper (Zanthoxylum piperitum De Candolle) domestication using RAD-Seq
title_full	Elucidation of Japanese pepper (Zanthoxylum piperitum De Candolle) domestication using RAD-Seq
title_fullStr	Elucidation of Japanese pepper (Zanthoxylum piperitum De Candolle) domestication using RAD-Seq
title_full_unstemmed	Elucidation of Japanese pepper (Zanthoxylum piperitum De Candolle) domestication using RAD-Seq
title_sort	elucidation of japanese pepper (zanthoxylum piperitum de candolle) domestication using rad-seq
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/638f68b868a646d79f6033abfe71322d
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Elucidation of Japanese pepper (Zanthoxylum piperitum De Candolle) domestication using RAD-Seq

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