Complete chloroplast genome sequence and phylogenetic analysis of wasabi (Eutrema japonicum) and its relatives
Abstract In Japan, two Eutrema species, wasabi (Eutrema japonicum, the important traditional Japanese condiment) and yuriwasabi (E. tenue), have been recognized as endemic species. We sequenced complete chloroplast (cp) genomes of seven wasabi and yuriwasabi accessions from Japan to study their phyl...
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doaj-d96912763871401abf103d226cd734342020-12-08T09:02:04ZengNature Publishing GroupScientific Reports2045-23222019-10-019111010.1038/s41598-019-49667-zComplete chloroplast genome sequence and phylogenetic analysis of wasabi (Eutrema japonicum) and its relativesNatsuko Haga0Masaaki Kobayashi1Nana Michiki2Tomoyuki Takano3Fujio Baba4Keiko Kobayashi5Hajime Ohyanagi6Jun Ohgane7Kentaro Yano8Kyoko Yamane9Gifu University, Faculty of Applied Biological SciencesSchool of Agriculture, Meiji UniversityGifu University, Faculty of Applied Biological SciencesSchool of Agriculture, Meiji UniversityIzu Agricultural Research Center, Shizuoka Prefectural Research Institute of Agriculture and Forestry, 3012 Inatori, Higashiizu-cho, KamoGifu University, Faculty of Applied Biological SciencesSchool of Agriculture, Meiji UniversitySchool of Agriculture, Meiji UniversitySchool of Agriculture, Meiji UniversityGifu University, Faculty of Applied Biological SciencesAbstract In Japan, two Eutrema species, wasabi (Eutrema japonicum, the important traditional Japanese condiment) and yuriwasabi (E. tenue), have been recognized as endemic species. We sequenced complete chloroplast (cp) genomes of seven wasabi and yuriwasabi accessions from Japan to study their phylogeny and evolution, using molecular dating of species divergence. Phylogenetic analyses of the complete cp DNA of these two Japanese species and five other Eurasian Eutrema species revealed that wasabi and yuriwasabi did not form a monophyletic group. One yuriwasabi accession (Gifu) formed a clade with E. yunnanense from China, indicating that this accession should be considered as a different species from the other yuriwasabi accessions. We reveal that Japanese Eutrema species diverged from the ‘E. yunnanense–yuriwasabi (Gifu)’ clade approximately 1.3 million years ago (Mya), suggesting that the connection between Japan and the Eurasian continent has existed more recently than the Quaternary period. The abundance of cp sequence data in this study also allowed the detection of genetic differentiation among wasabi cultivars. The two polymorphic sites detected between ‘Fujidaruma’ and ‘Shimane No.3’ were used to develop genotyping markers. The cp genome information provided here will thus inform the evolutionary histories of Japanese Eutrema species and help in genotyping wasabi cultivars.https://doi.org/10.1038/s41598-019-49667-z |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Natsuko Haga Masaaki Kobayashi Nana Michiki Tomoyuki Takano Fujio Baba Keiko Kobayashi Hajime Ohyanagi Jun Ohgane Kentaro Yano Kyoko Yamane |
spellingShingle |
Natsuko Haga Masaaki Kobayashi Nana Michiki Tomoyuki Takano Fujio Baba Keiko Kobayashi Hajime Ohyanagi Jun Ohgane Kentaro Yano Kyoko Yamane Complete chloroplast genome sequence and phylogenetic analysis of wasabi (Eutrema japonicum) and its relatives Scientific Reports |
author_facet |
Natsuko Haga Masaaki Kobayashi Nana Michiki Tomoyuki Takano Fujio Baba Keiko Kobayashi Hajime Ohyanagi Jun Ohgane Kentaro Yano Kyoko Yamane |
author_sort |
Natsuko Haga |
title |
Complete chloroplast genome sequence and phylogenetic analysis of wasabi (Eutrema japonicum) and its relatives |
title_short |
Complete chloroplast genome sequence and phylogenetic analysis of wasabi (Eutrema japonicum) and its relatives |
title_full |
Complete chloroplast genome sequence and phylogenetic analysis of wasabi (Eutrema japonicum) and its relatives |
title_fullStr |
Complete chloroplast genome sequence and phylogenetic analysis of wasabi (Eutrema japonicum) and its relatives |
title_full_unstemmed |
Complete chloroplast genome sequence and phylogenetic analysis of wasabi (Eutrema japonicum) and its relatives |
title_sort |
complete chloroplast genome sequence and phylogenetic analysis of wasabi (eutrema japonicum) and its relatives |
publisher |
Nature Publishing Group |
series |
Scientific Reports |
issn |
2045-2322 |
publishDate |
2019-10-01 |
description |
Abstract In Japan, two Eutrema species, wasabi (Eutrema japonicum, the important traditional Japanese condiment) and yuriwasabi (E. tenue), have been recognized as endemic species. We sequenced complete chloroplast (cp) genomes of seven wasabi and yuriwasabi accessions from Japan to study their phylogeny and evolution, using molecular dating of species divergence. Phylogenetic analyses of the complete cp DNA of these two Japanese species and five other Eurasian Eutrema species revealed that wasabi and yuriwasabi did not form a monophyletic group. One yuriwasabi accession (Gifu) formed a clade with E. yunnanense from China, indicating that this accession should be considered as a different species from the other yuriwasabi accessions. We reveal that Japanese Eutrema species diverged from the ‘E. yunnanense–yuriwasabi (Gifu)’ clade approximately 1.3 million years ago (Mya), suggesting that the connection between Japan and the Eurasian continent has existed more recently than the Quaternary period. The abundance of cp sequence data in this study also allowed the detection of genetic differentiation among wasabi cultivars. The two polymorphic sites detected between ‘Fujidaruma’ and ‘Shimane No.3’ were used to develop genotyping markers. The cp genome information provided here will thus inform the evolutionary histories of Japanese Eutrema species and help in genotyping wasabi cultivars. |
url |
https://doi.org/10.1038/s41598-019-49667-z |
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