Faculty Profiles - OKADA Moeko

写真a

OKADA Moeko

Organization

Academic Assembly Institute of Science and Technology NOUGAKU KEIRETSU Assistant Professor
Graduate School of Science and Technology Life and Food Sciences Assistant Professor
Faculty of Agriculture Department of Agriculture Assistant Professor

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Degree

Ph. D. in Agricultural Science ( 2021.3 Kobe University )
Master of Agriculture ( 2018.3 Kobe University )
Bachelor of Agriculture ( 2016.3 Kobe University )

Research History (researchmap)

Niigata University Faculty of Agriculture Assistant Professor

2023.4

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University of Zurich Department of Evolutionary Biology and Environmental Studies Postdoc researcher

2022.7 - 2023.9

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Yokohama City University Kihara Institute for Biological Research Project Assistant Professor.

2022.4 - 2023.3

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Kobe University Graduate School of Agricultural Science JSPS research fellow

2021.4 - 2022.3

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Country：Japan

Notes：PD

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Kobe University Graduate School of Agricultural Science JSPS research fellow JSPS research fellow

2020.4 - 2021.3

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Country：Japan

Notes：DC2

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Research History

Niigata University Life and Food Sciences, Graduate School of Science and Technology Assistant Professor

2023.4
Niigata University Department of Agriculture, Faculty of Agriculture Assistant Professor

2023.4
Niigata University Environmental Science and Technology, Institute of Science and Technology, Academic Assembly Assistant Professor

2023.4
Yokohama City University Kihara Institute for Biological Research Specially Appointed Assistant Professor

2022.4 - 2023.3
Kobe University Graduate School of Agricultural Science Special researcher of the Japan Society for the Promotion of Science

2020.4 - 2022.3

Education

Kobe University Graduate School of Agricultural Science Department of Agrobioscience

2018.4 - 2021.3

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Country： Japan

Notes： PhD

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University of Zurich Department of Evolutionary Biology and Environmental Studies (IEU)

2019.11 - 2020.10

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Country： Switzerland

Notes： Invited Visiting Student

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Kobe University Graduate School of Agricultural Science Department of Agrobioscience

2016.4 - 2018.3

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Country： Japan

Notes： Msc

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Kobe University Faculty of Agriculture Department of Agrobioscience

2012.4 - 2016.3

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Country： Japan

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Professional Memberships

Genetics Society of Japan

2019

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International Association of Sexual Plant Reproduction

2019

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Japanese Society of Breeding

2014

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Studying abroad experiences

University of Zurich Postdoctral researcher

2022.7 - 2023.9
University of Zurich Invited Visiting Student

2019.11 - 2020.10

Papers

Discrepancy of flowering time between genetically close sublineages of Aegilops umbellulata Zhuk. Reviewed

In Son, Nozomi Kasazumi, Moeko Okada, Shigeo Takumi, Kentaro Yoshida

Scientific Reports 14 ( 1 ) 2024.3

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Authorship：Lead author Language：English Publishing type：Research paper (scientific journal) Publisher：Springer Science and Business Media LLC

Abstract

Aegilops umbellulata Zhuk., a wild diploid wheat-related species, has been used as a genetic resource for several important agronomic traits. However, its genetic variations have not been comprehensively studied. We sequenced RNA from 114 accessions of Ae. umbellulata to evaluate DNA polymorphisms and phenotypic variations. Bayesian clustering and phylogenetic analysis based on SNPs detected by RNA sequencing revealed two divergent lineages, UmbL1 and UmbL2. The main differences between them were in the sizes of spikes and spikelets, and culm diameter. UmbL1 is divided into two sublineages, UmbL1e and UmbL1w. These genetic differences corresponded to geographic distributions. UmbL1e, UmbL1w, and UmbL2 are found in Turkey, Iran/Iraq, and Greece, respectively. Although UmbL1e and UmbL1w were genetically similar, flowering time and other morphological traits were more distinct between these sublineages than those between the lineages. This discrepancy can be explained by the latitudinal and longitudinal differences in habitats. Specifically, latitudinal clines of flowering time were clearly observed in Ae. umbellulata, strongly correlated with solar radiation in the winter season. This observation implies that latitudinal differences are a factor in differences in the flowering times of Ae. umbellulata. Differences in flowering time could influence other morphological differences and promote genetic divergence between sublineages.

DOI： 10.1038/s41598-024-57935-w

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Other Link： https://www.nature.com/articles/s41598-024-57935-w
A low-coverage 3' RNA-seq to detect homeolog expression in polyploid wheat. Reviewed International journal

Jianqiang Sun, Moeko Okada, Toshiaki Tameshige, Rie Shimizu-Inatsugi, Reiko Akiyama, Atsushi J Nagano, Jun Sese, Kentaro K Shimizu

NAR genomics and bioinformatics 5 ( 3 ) lqad067 2023.9

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Language：English Publishing type：Research paper (scientific journal)

Although allopolyploid species are common among natural and crop species, it is not easy to distinguish duplicated genes, known as homeologs, during their genomic analysis. Yet, cost-efficient RNA sequencing (RNA-seq) is to be developed for large-scale transcriptomic studies such as time-series analysis and genome-wide association studies in allopolyploids. In this study, we employed a 3' RNA-seq utilizing 3' untranslated regions (UTRs) containing frequent mutations among homeologous genes, compared to coding sequence. Among the 3' RNA-seq protocols, we examined a low-cost method Lasy-Seq using an allohexaploid bread wheat, Triticum aestivum. HISAT2 showed the best performance for 3' RNA-seq with the least mapping errors and quick computational time. The number of detected homeologs was further improved by extending 1 kb of the 3' UTR annotation. Differentially expressed genes in response to mild cold treatment detected by the 3' RNA-seq were verified with high-coverage conventional RNA-seq, although the latter detected more differentially expressed genes. Finally, downsampling showed that even a 2 million sequencing depth can still detect more than half of expressed homeologs identifiable by the conventional 32 million reads. These data demonstrate that this low-cost 3' RNA-seq facilitates large-scale transcriptomic studies of allohexaploid wheat and indicate the potential application to other allopolyploid species.

DOI： 10.1093/nargab/lqad067

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Phenotypic effects of Am genomes in nascent synthetic hexaploids derived from interspecific crosses between durum and wild einkorn wheat Reviewed

Asami Michikawa, Moeko Okada, Tatsuya M. Ikeda, Kiyotaka Nagaki, Kentaro Yoshida, Shigeo Takumi

PLOS ONE 18 ( 4 ) e0284408 - e0284408 2023.4

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Language：English Publishing type：Research paper (scientific journal) Publisher：Public Library of Science (PLoS)

Allopolyploid speciation is a major evolutionary process in wheat (Triticum spp.) and the related Aegilops species. The generation of synthetic polyploids by interspecific crosses artificially reproduces the allopolyploidization of wheat and its relatives. These synthetic polyploids allow breeders to introduce agriculturally important traits into durum and common wheat cultivars. This study aimed to evaluate the genetic and phenotypic diversity in wild einkorn Triticum monococcum ssp. aegilopoides (Link) Thell., to generate a set of synthetic hexaploid lines containing the various Am genomes from wild einkorn, and to reveal their trait characteristics. We examined the genetic diversity of 43 wild einkorn accessions using simple sequence repeat markers covering all the chromosomes and revealed two genetically divergent lineages, L1 and L2. The genetic divergence between these lineages was linked to their phenotypic divergence and their habitats. L1 accessions were characterized by early flowering, fewer spikelets, and large spikelets compared to L2 accessions. These trait differences could have resulted from adaptation to their different habitats. We then developed 42 synthetic hexaploids containing the AABBAmAm genome through interspecific crosses between T. turgidum cv. Langdon (AABB genome) as the female parent and the wild einkorn accessions (AmAm genome) as the male parents. Two of the 42 AABBAmAm synthetic hexaploids exhibited hybrid dwarfness. The phenotypic divergence between L1 and L2 accessions of wild einkorn, especially for days to flowering and spikelet-related traits, significantly reflected phenotypic differences in the synthetic hexaploids. The differences in plant height and internodes between the lineages were more distinct in the hexaploid backgrounds. Furthermore, the AABBAmAm synthetic hexaploids had longer spikelets and grains, long awns, high plant heights, soft grains, and late flowering, which are distinct from other synthetic hexaploid wheat lines such as AABBDD. Utilization of various Am genomes of wild einkorn resulted in wide phenotypic diversity in the AABBAmAm synthetic hexaploids and provides promising new breeding materials for wheat.

DOI： 10.1371/journal.pone.0284408

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De Novo Genome Assembly of the Japanese Wheat Cultivar Norin 61 Highlights Functional Variation in Flowering Time and Fusarium-Resistant Genes in East Asian Genotypes. Reviewed

Kentaro K Shimizu, Dario Copetti, Moeko Okada, Thomas Wicker, Toshiaki Tameshige, Masaomi Hatakeyama, Rie Shimizu-Inatsugi, Catharine Aquino, Kazusa Nishimura, Fuminori Kobayashi, Kazuki Murata, Tony Kuo, Emily Delorean, Jesse Poland, Georg Haberer, Manuel Spannagl, Klaus F X Mayer, Juan Gutierrez-Gonzalez, Gary J Muehlbauer, Cecile Monat, Axel Himmelbach, Sudharsan Padmarasu, Martin Mascher, Sean Walkowiak, Tetsuya Nakazaki, Tomohiro Ban, Kanako Kawaura, Hiroyuki Tsuji, Curtis Pozniak, Nils Stein, Jun Sese, Shuhei Nasuda, Hirokazu Handa

Plant & cell physiology 62 ( 1 ) 8 - 27 2021.3

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Bread wheat is a major crop that has long been the focus of basic and breeding research. Assembly of its genome has been difficult because of its large size and allohexaploid nature (AABBDD genome). Following the first reported assembly of the genome of the experimental strain Chinese Spring (CS), the 10+ Wheat Genomes Project was launched to produce multiple assemblies of worldwide modern cultivars. The only Asian cultivar in the project is Norin 61, a representative Japanese cultivar adapted to grow across a broad latitudinal range, mostly characterized by a wet climate and a short growing season. Here, we characterize the key aspects of its chromosome-scale genome assembly spanning 15 Gb with a raw scaffold N50 of 22 Mb. Analysis of the repetitive elements identified chromosomal regions unique to Norin 61 that encompass a tandem array of the pathogenesis-related 13 family. We report novel copy-number variations in the B homeolog of the florigen gene FT1/VRN3, pseudogenization of its D homeolog and the association of its A homeologous alleles with the spring/winter growth habit. Furthermore, the Norin 61 genome carries typical East Asian functional variants different from CS, ranging from a single nucleotide to multi-Mb scale. Examples of such variation are the Fhb1 locus, which confers Fusarium head-blight resistance, Ppd-D1a, which confers early flowering, Glu-D1f for Asian noodle quality and Rht-D1b, which introduced semi-dwarfism during the green revolution. The adoption of Norin 61 as a reference assembly for functional and evolutionary studies will enable comprehensive characterization of the underexploited Asian bread wheat diversity.

DOI： 10.1093/pcp/pcaa152

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Phenotypic effects of the U-genome variation in nascent synthetic hexaploids derived from interspecific crosses between durum wheat and its diploid relative Aegilops umbellulata Reviewed

Moeko Okada, Asami Michikawa, Kentaro Yoshida, Kiyotaka Nagaki, Tatsuya M. Ikeda, Shigeo Takumi

PLoS ONE 15 ( e0231129 ) 2020.4

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DOI： 10.1371/journal.pone.0231129

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Genome-wide polymorphisms from RNA sequencing assembly of leaf transcripts facilitate phylogenetic analysis and molecular marker development in wild einkorn wheat. Reviewed International journal

Asami Michikawa, Kentaro Yoshida, Moeko Okada, Kazuhiro Sato, Shigeo Takumi

Molecular genetics and genomics : MGG 294 ( 5 ) 1327 - 1341 2019.10

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A survey of genome-wide polymorphisms between closely related species is required to understand the molecular basis of the evolutionary differentiation of their genomes. Two wild diploid wheat species, namely Triticum monococcum ssp. aegilopoides and T. urartu, are closely related and harbour the Am and A genomes, respectively. The A-genome donor of tetraploid and common wheat is T. urartu, and T. monococcum ssp. monococcum is the cultivated form derived from the wild einkorn wheat subspecies aegilopoides. Although subspecies aegilopoides has been a useful genetic resource in wheat breeding, genome-wide molecular markers for this subspecies have not been sufficiently developed. Here, we describe the detection of genome-wide polymorphisms such as single-nucleotide polymorphisms (SNPs) and insertions/deletions (indels) from RNA sequencing (RNA-seq) data of leaf transcripts in 15 accessions of the two diploid wheat species. The SNPs and indels, detected using the A genome of common wheat as the reference genome, covered the entire chromosomes of these species. The polymorphism information facilitated a comparison of the genetic diversity of einkorn wheat with that of two related diploid Aegilops species, namely, Ae. tauschii and Ae. umbellulata. Cleaved amplified polymorphic sequence (CAPS) markers converted from the SNP data were efficiently developed to confirm the addition of aegilopoides subspecies chromosomes to tetraploid wheat in nascent allohexaploid lines with AABBAmAm genomes. In addition, the CAPS markers permitted linkage map construction in mapping populations of aegilopoides subspecies accessions. Therefore, these RNA-seq data provide information for further breeding of closely related species with no reference genome sequence data.

DOI： 10.1007/s00438-019-01581-9

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RNA-seq analysis reveals considerable genetic diversity and provides genetic markers saturating all chromosomes in the diploid wild wheat relative Aegilops umbellulata. Reviewed International journal

Moeko Okada, Kentaro Yoshida, Ryo Nishijima, Asami Michikawa, Yuka Motoi, Kazuhiro Sato, Shigeo Takumi

BMC plant biology 18 ( 1 ) 271 - 271 2018.11

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BACKGROUND: Aegilops umbellulata Zhuk. (2n = 14), a wild diploid wheat relative, has been the source of trait improvement in wheat breeding. Intraspecific genetic variation of Ae. umbellulata, however, has not been well studied and the genomic information in this species is limited. RESULTS: To develop novel genetic markers distributed over all chromosomes of Ae. umbellulata and to evaluate its genetic diversity, we performed RNA sequencing of 12 representative accessions and reconstructed transcripts by de novo assembly of reads for each accession. A large number of single nucleotide polymorphisms (SNPs) and insertions/deletions (indels) were obtained and anchored to the pseudomolecules of Ae. tauschii and barley (Hordeum vulgare L.), which were regarded as virtual chromosomes of Ae. umbellulata. Interestingly, genetic diversity in Ae. umbellulata was higher than in Ae. tauschii, despite the narrow habitat of Ae. umbellulata. Comparative analyses of nucleotide polymorphisms between Ae. umbellulata and Ae. tauschii revealed no clear lineage differentiation and existence of alleles with rarer frequencies predominantly in Ae. umbellulata, with patterns clearly distinct from those in Ae. tauschii. CONCLUSIONS: The anchored SNPs, covering all chromosomes, provide sufficient genetic markers between Ae. umbellulata accessions. The alleles with rarer frequencies might be the main source of the high genetic diversity in Ae. umbellulata.

DOI： 10.1186/s12870-018-1498-8

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Effect of the U genome on grain hardness in nascent synthetic hexaploids derived from interspecific hybrids between durum wheat and Aegilops umbellulata Reviewed

Moeko Okada, Tatsuya M. Ikeda, Kentaro Yoshida, Shigeo Takumi

Journal of Cereal Science 83 153 - 161 2018.9

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Authorship：Lead author Language：English Publishing type：Research paper (scientific journal)

DOI： 10.1016/j.jcs.2018.08.011

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Hybrid incompatibilities in interspecific crosses between tetraploid wheat and its wild diploid relative Aegilops umbellulata Reviewed

Moeko Okada, Kentaro Yoshida, Shigeo Takumi

PLANT MOLECULAR BIOLOGY 95 ( 6 ) 625 - 645 2017.12

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Authorship：Lead author Language：English Publishing type：Research paper (scientific journal) Publisher：SPRINGER

Hybrid abnormalities, severe growth abortion and grass-clump dwarfism, were found in the tetraploid wheat/Aegilops umbellulata hybrids, and the gene expression changes were conserved in the hybrids with those in other wheat synthetic hexaploids.
Aegilops umbellulata Zhuk., a diploid goatgrass species with a UU genome, has been utilized as a genetic resource for wheat breeding. Here, we examine the reproductive barriers between tetraploid wheat cultivar Langdon (Ldn) and various Ae. umbellulata accessions by conducting interspecific crossings. Through systematic cross experiments, three types of hybrid incompatibilities were found: seed production failure in crosses, hybrid growth abnormalities and sterility in the ABU hybrids. Hybrid incompatibilities were widely distributed over the entire range of the natural species, and in about 50% of the cross combinations between tetraploid Ldn and Ae. umbellulata accessions, ABU F-1 hybrids showed one of two abnormal growth phenotypes: severe growth abortion (SGA) or grass-clump dwarfism. Expression of the shoot meristem maintenance-related and cell cycle-related genes was markedly repressed in crown tissues of hybrids showing SGA, suggesting dysfunction of mitotic cell division in the shoot apices. The grass-clump dwarf phenotype may be explained by down-regulation of wheat APETALA1-like MADS box genes, which act as flowering promoters, and altered expression in crown tissues of the miR156/SPLs module, which controls tiller number and branching. These gene expression changes in growth abnormalities were well conserved between the Ldn/Ae. umbellulata plants and interspecific hybrids from crosses of Ldn and wheat D-genome progenitor Ae. tauschii.

DOI： 10.1007/s11103-017-0677-6

Web of Science

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Detection of splicing variants in the leaf and spike transcripts of wild diploid wheat Aegilops tauschii and transmission of the splicing patterns to synthetic hexaploid wheat Reviewed

Julio C.M. Iehisa, Moeko Okada, Kazuhiro Sato, Shigeo Takumi

Plant Gene 9 6 - 12 2017.3

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Language：English Publishing type：Research paper (scientific journal) Publisher：Elsevier B.V.

Alternative splicing produces multiple transcripts from a single gene, and RNA sequencing using next-generation sequencing apparatus has contributed to comprehensive detection of splicing variants in higher plants. Here, we completed a large-scale survey of alternatively spliced transcripts from RNA samples derived from seedling leaves and young spikes of two distinct accessions of wild diploid wheat Aegilops tauschii under normal growth conditions. Alternative splicing for 23,778 loci were analyzed in this study, and at least two splicing variants were found in 4712 genes. The proportion of events for intron retention was much smaller in Ae. tauschii than in other plant species, whereas the proportions of exon skipping and splice donor site events were higher. In at least some genes, alternative splicing patterns were clearly distinct between the two Ae. tauschii accessions. Distinct splicing patterns were transmitted from the parental Ae. tauschii accessions into their synthetic hexaploid wheat lines. Alternative splicing patterns in one of the two synthetic hexaploid wheat lines analyzed appeared to be generally similar to patterns intermediate between the parental lines under normal growth conditions, and seemed to be slightly altered in the other synthetic wheat.

DOI： 10.1016/j.plgene.2016.11.002

Scopus

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Books

Phylogeographic History of Plants and Animals Coexisting with Humans in Asia. Reviewed International journal

M. Okada, K.K. Shimizu（ Role： Contributor , Wheat: Recent Advances in Genomics to Explore the History of Domestication and Polyploidization.）

Springer 2024.10 （ ISBN:9789819768868 ）

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Total pages：210 Responsible for pages：155-180 Language：English Book type：Scholarly book

Wheat is cultivated in the largest area among the crop species. The geographic spread of wheat since its domestication in the Middle East approximately 10,000 years ago has attracted a broad interest in biology and archaeology. The spread of wheat associated with the migration of farmers and languages has been proposed. However, the complexity of the wheat genome due to polyploidization has been an obstacle in studying the domestication and spread of wheat using genetic data. In this chapter, we introduce domesticated wheat species in the context of polyploidization and then summarize recent genomic studies on the independent domestication events of three wheat species: Einkorn, Emmer, and Timopheevi. Population genetic studies supported the origin place of Einkorn and Emmer in the northern part of the Fertile Crescent and the importance of gene flow. Approximately 8000 years ago, common wheat emerged through a further polyploidization event, followed by its spread westward to Europe and eastward to East Asia, including Japan. We discuss the potential of growing genomic data, together with archaeobotanical studies and ancient or historical genomics, to reveal the longstanding question of wheat domestication and spread.

DOI： 10.1007/978-981-97-6887-5_10

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Other Link： https://link.springer.com/chapter/10.1007/978-981-97-6887-5_10
誰でも再現できるNGS「前」サンプル調製プロトコール : 生物種別DNA、RNA、クロマチン、シングルセル調製の極意

岡田萌子（ Role： Contributor , 第３章「DNA調整プロトコール11. コムギ」）

羊土社 2024.7 （ ISBN:9784758122726 ）

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Total pages：439p Responsible for pages：171-182 Language：Japanese Book type：Textbook, survey, introduction

CiNii Books

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Other Link： https://mol.medicalonline.jp/library/ebooks/detail?id=11232

MISC

若手研究者による農学的興味の広げ合い(第3回)これからの農学とは—Discovery of new interests by young scientists : What is the future of agricultural science—2023年第64回シンポジウム(シンポジウム・ワークショップ)報告

梨木聡人, 山森晃一, 古村翔也, 工藤葵, 桒田理恵子, 竹内亜美, 清水浩晶, 小川泰生, 岡田萌子

育種学研究 = Breeding research : 日本育種学会和文誌 / 日本育種学会編 26 ( 1 ) 73 - 77 2024.6

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Language：Japanese Publisher：京都 : 日本育種学会

CiNii Books

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Other Link： https://ndlsearch.ndl.go.jp/books/R000000004-I033552521
The latest on study and research abroad during mid- and post-COVID-19 periods

Hiroyuki Kakui, Mai Minamikawa, Moeko Okada, Shun Sakuma, Mashiro Okada, Kanae Masuda, Takao Komatsuda

Breeding Research 2024

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Publisher：Japanese Society of Breeding

DOI： 10.1270/jsbbr.26.w06

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Discovery of new interests by young scientists ～What is the future of agricultural science～

Akito Nashiki, Koichi Yamamori, Shoya Komura, Aoi Kudoh, Rieko Kuwada, Ami Takeuchi, Hiroaki Shimizu, Taiki Ogawa, Moeko Okada

Breeding Research 2024

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Language：Japanese Publishing type：Meeting report Publisher：Japanese Society of Breeding

DOI： 10.1270/jsbbr.26.w04

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Discovery of new interests by young scientists ~application of phenotyping techniques for plant breeding~

Yoshiki Tokuyama, Moeko Okada, Ken Kuroki, Shoya Komura, Moeko Sato, Akito Nashiki, Kanae Masuda, Hiroki Matsuo, Koichi Yamamori, Xiaotong Ji

Breeding Research 25 ( 1 ) 73 - 77 2023.6

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Language：Japanese Publishing type：Lecture material (seminar, tutorial, course, lecture, etc.) Publisher：Japanese Society of Breeding

DOI： 10.1270/jsbbr.25.w07

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Discovery of new interests by young scientists~sexuality and crossing in plants~(Japan Society of Breeding)

Hiroki Matsuo, Moeko Okada, Koichi Yamamori, Moeko Sato, Erina Yanagi, Ko Motoki, Kanae Masuda

Breeding Research 24 ( 1 ) 64 - 69 2022

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Language：Japanese Publisher：Japanese Society of Breeding

DOI： 10.1270/jsbbr.24.w01

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Nucleotide diversity of a grain softness protein 1 gene GSP-U1 in wild wheat relative Aegilops umbellulata Reviewed

Moeko Okada, Kentaro Yoshida, Shigeo Takumi

Wheat Information Service 126 ( eWIS126.1 ) 2018.10

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Authorship：Lead author Language：English Publishing type：Rapid communication, short report, research note, etc. (scientific journal)

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High-quality RNA isolation from wheat immature grains Reviewed

Shigeo Takumi, Moeko Okada, Asami Michikawa, Yuka Miki, Ryoko Ohno, Kentaro Yoshida

Wheat Information Service 124 ( eWIS124.2 ) 2017.8

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Language：English Publishing type：Rapid communication, short report, research note, etc. (scientific journal)

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Presentations

Genome Assembly and Population Genomics in *Aegilops umbellulata* Zhuk. Invited

Moeko Okada, I. Son, N. Kasazumi, S. Takumi, K.K. Shimizu, K. Yoshida

The 32nd Plant and Animal Genome Conference 2025.1

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Event date： 2025.1

Language：English Presentation type：Oral presentation (invited, special)

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Comparative analysis of grain hardness in synthetic hexaploid wheat lines from interspecific crosses between tetraploid wheat and Aegilops umbellulata.

Moeko Okada, Tatsuya M. Ikeda, Kentaro Yoshida, Shigeo Takumi

The 132nd Meeting of Japanese Society of Breeding 2017.10

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Event date： 2017.10

Language：Japanese Presentation type：Poster presentation

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Application of genome wide polymorphism of Aegilops umbellulata for mapping

Moeko Okada, Kentaro Yoshida, Kazuhiro Sato, Shigeo Takumi

2016.12

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Event date： 2016.12

Language：Japanese Presentation type：Poster presentation

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Gene expression profiling of intraspecific hybrids with growth abnormalities between tetraploid wheat and wild wheat relative Aegilops umbellulata.

The 130th Meeting of Japanese Society of Breeding 2016.9

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Event date： 2016.9

Language：Japanese Presentation type：Oral presentation (general)

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Genome-wide survey of polymorphisms in a wheat relative Aegilops umbellulata revealed by RNA-seq analysis

M. Okada, K. Yoshida, R. Nishijima, K. Sato, S. Takumi

The 129th Meeting of Japanese Society of Breeding 2016.3

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Event date： 2016.3

Language：Japanese Presentation type：Oral presentation (general)

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Natural variations of Puroindoline gene inAegilops umbellulata

M. Okada, K. Yoshida, S. Takumi

2015.12

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Event date： 2015.12

Language：Japanese Presentation type：Poster presentation

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Natural variations in crossing ability and hybrid incompatibility with tetraploid wheat in Aegilops umbellulata

Moeko Okada, Kentaro Yoshida, Shigeo Takumi

The 128th Meeting of Japanese Society of Breeding 2015.9

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Event date： 2015.9

Language：Japanese Presentation type：Poster presentation

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Alteration of Homoeologous Gene Expression by Allopolyploidization: an Example of Cold Response

Moeko Okada, Jianquiang Sun, Toshiaki Tameshige, Masaomi Hatakeyama, Rie Shimizu-Inatsugi, Shigeo Takumi†, Jun Sese, Kentaro K. Shimizu

The 3ed International Wheat Congress 2024.9

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Language：Japanese Presentation type：Oral presentation (general)

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Population structure of Aegilops umbellulata Zhuk. shown by genome-wide genotype data analysis

In Son, Nozomi Kasazumi, Moeko Okada, Kentaro Yoshida, Yoshihiro Matsuoka

The 3ed International Wheat Congress 2024.9

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Language：English Presentation type：Poster presentation

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Introgressions of Aegilops chromosome fragments into common wheat using a pairing homoeologous 2 mutant

Masahiro Tabuchi, Adam Izzuddin Nasir, Shoya Komura, Moeko Okada, Asami Michikawa, Yoshihiro Inoue, Kazusa Nishimura, Shigeo Takumi, Nobuyuki Mizuno, Fuminori Kobayashi, Kentaro Yoshida

The 3ed International Wheat Congress 2024.9

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Language：English Presentation type：Poster presentation

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Effects of Allopolyploidization on Homoeologous Gene Expression under Cold Treatment in Synthetic Hexaploid Wheat Invited

Moeko Okada, Jianqiang Sun, Toshiaki Tameshige, Masaomi Hatakeyama, Rie Shimizu-Inatsugi, Shigeo Takumi, Jun Sese, Kentaro K. Shimizu

KAAB International Symposium 2024 2024.3

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Language：English Presentation type：Oral presentation (invited, special)

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フットワークは軽くてなんぼ！ Invited

岡田萌子

第41回植物生理若手の会（共催日本光合成学会若手の会） 2024.3

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Language：Japanese Presentation type：Symposium, workshop panel (nominated)

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コムギ近縁野生種の育種利用に向けて Invited

岡田萌子

第18回東北育種研究集会 2023.12

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Language：Japanese Presentation type：Oral presentation (invited, special)

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AABBUU合成倍数体とpairing homoeologous 2欠失変異体の交雑後代における塩ストレス耐性の評価

田渕雅啓, 古村翔也, 岡田萌子, 道川麻美, 井上喜博, 村和紗, 吉田健太郎

第18回ムギ類研究会 2023.12

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Language：Japanese Presentation type：Poster presentation

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地中海東部地域に自生するイネ科植物Aegilops umbellulata Zhuk.の系統地理学的研究

孫櫻, 笠澄望, 岡田萌子, 吉田健太郎, 松岡由浩

第55回種生物学シンポジウム 2023.12

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A consensus map of the hexaploidy wheat nested association mapping (NAM) population with 13-RIL subfamilies with GRAS-Di markers

Jilu Nie, Miyuki Nitta, Shotaro Takenaka, Moeko Okada, Kentaro K. Shimizu, Shuhei Nasuda

第18回麦類研究会 2023.12

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核および葉緑体DNA多型に基づくコムギ近縁野生種Aegilops umbellulata Zhuk.の多様性解析

孫櫻, 笠澄望, 岡田萌子, 松岡由浩, 吉田健太郎

第18回ムギ類研究会 2023.12

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異質倍数体化が相同遺伝子発現パターンに及ぼす影響

岡田萌子, 孫建強, 爲重才覚, 畠山剛臣, 清水(稲継)理恵, 宅見薫雄, 瀬々潤, 清水健太郎

第18回ムギ類研究会 2023.12

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A high-throughput phenotyping by UAVs of a wheat NAM population and exploration of effective traits for predicting yield components

Shunsuke Yoshioka, Ken kuroki, Miyuki Nitta, Jilu Nie, Masahiro Ishii, Hiroyuki Kakui, Moeko Okada, Shotaro Takenaka, Kentaro K. Shimizu, Hiroyoshi Iwata, Wei Guo, Shuhei Nasuda

KEPLR meeting 2023.11

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Unravelling the genetic architecture of male reproductive traits in Asian bread wheat (Triticum aestivum L.)

Naoto-Benjamin Hamaya, Hiroyuki Kakui, Moeko Okada, Katharina Jung, Jilu Nie, Thomas Wicker, Beat Keller, Shuhei Nasuda, Kentaro K. Shimizu

KEPLR meeting 2023.11

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Identify a post-invasive resistance locus against powdery mildew in the wild relative Aegilops umbellulata Zhuk.

R. Kawamura, M. Okada, S. Komura, K. K. Shimizu, K. Nishimura, Y. Inoue, K. Yoshida

The 144th Annual Meeting of Japanese Society of Breeding 2023.9

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A high-throughput phenotyping of the hexaploid wheat NAM population during tillering stage by UAVs and their correlation with yield-related traits.

S Yoshioka, K. Kuroki, M. Nitta, J. Nie, M. Ishii, H. Kakui, M. Okada, S. Takenaka, K.K. Shimizu, H. Iwata, G. Wei, S. Nasuda

The 144th Annual Meeting of Japanese Society of Breeding 2023.9

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AuAuBBAmAm合成六倍体コムギとパンコムギの間で見られる雑種ネクローシス原因遺伝子座領域の同定

與田悠人, 野口微風子, 古村翔也, 村田和樹, 岡田萌子, 水野信之, 小林史典, 西村和紗, 井上喜博, 那須田周平, 松岡由浩, 吉田健太郎

日本育種学会第144回講演会 2023.9

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コロナ渦中, ポストコロナでのチューリッヒ留学 Invited

岡田萌子

日本育種学会第144回講演会ワークショップ 2023.9

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プレブリーディング集団作出に向けたコムギ近縁野生種Aegilops umbellulata Zhuk. 33系統とパンコムギの交雑

孫櫻, 笠澄望, 岡田萌子, 吉田健太郎, 松岡由浩

日本育種学会第144回講演会 2023.9

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Pairing homoeologous 2欠失変異体を利用したパンコムギへの異種染色体断片導入

田渕雅啓, 岡田萌子, 道川麻美, 井上喜博, 西村和紗, 水野信之, 清水健太郎, 小林史典, 宅見薫雄, 吉田健太郎

日本育種学会第144回講演会 2023.9

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Effects of allopolyploidization on homoeologous gene expression in synthetic hexaploids

Moeko Okada

Polyploid evolutionary genomics: challenges and opportunities 2023.7

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Evolution of male gamete number in bread wheat (_Triticum aestivum_ L.) International coauthorship International conference

Naoto B. Hamaya, Hiroyuki Kakui, Jilu Nie, Moeko Okada, Thomas Wicker, Beat Keller, Shuhei Nasuda, Kentaro K. Shimizu

International Conference of URPP EVolutino in Action, Monté Verita, Switzerland。 2023.6

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Co-evolution of Cultivation Syndrome and the Human Agricultural Systems in Bread Wheat. International coauthorship International conference

Moeko Okada, Deepak Tanwar, Naoto B. Hamaya, Thomas Wicker, Jun Sese, Shuhei Nasuda, Kentaro K. Shimizu

International Conference of URPP EVolutino in Action 2023.6

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Effects of allopolyploidization on homoeologous gene expression changes and environmental response in hexaploid wheat.

Moeko Okada, Jianqiang Sun, Toshiaki Tameshige, Masaomi Hatakeyama, Rie Shimizu-Inatsugi, Shigeo Takumi, Jun Sese, Kentaro K. Shimizu

Plant and Animal Genome Conference 30 2023.1

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Unravelling the genetic architecture of male reproductive traits in Asian bread wheat (Triticum aestivum L.)

Naoto B. Hamaya, Hiroyuki Kakui, Jilu Nie, Moeko Okada, Thomas Wicker, Beat Keller, Shuhei Nasuda, Kentaro K. Shimizu

Plant and Animal Genome Conference 30 2023.1

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パンコムギのnested association mapping (NAM)集団のGRAS-Diマーカーによるコンセンサスマップの構築

聶紀魯, 新田みゆき, 竹中祥太朗, 岡田萌子, 清水健太郎, 那須田周平

第17回ムギ類研究会 2022.12

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人工交雑と胚救出を用いた栽培二粒系コムギLangdonとAegilops triuncialis (L.) Á. Löveの雑種作出

井上雄介, 岡田萌子, 松岡由浩

第17回ムギ類研究会 2022.12

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AABBAmAm合成六倍体で見られる雑種矮性原因遺伝子の探索

中野咲良, 道川麻美, 岡田萌子, 吉田健太郎

第17回ムギ類研究会 2022.12

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コムギ近縁野生種Aegilops umbellulata Zhuk.の形質分化と遺伝的分化の関係

孫櫻, 笠澄望, 岡田萌子, 松岡由浩, 吉田健太郎

第17回ムギ類研究会 2022.12

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AABBAmAm合成六倍体コムギとパンコムギ間の雑種ネクローシス原因遺伝子の探索

野口微風子, 岡田萌子, 松岡由浩, 吉田健太郎

第17回ムギ類研究会 2022.12

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Aegilops umbellulata Zhuk. で観察されたうどんこ病菌に対する侵入後抵抗性の遺伝解析

河村凌, 岡田萌子, 古村翔也, 清水健太郎, 井上喜博, 吉田健太郎

第17回ムギ類研究会 2022.12

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Allopolyploid Evolution in Wheat and its Relatives Revealed by De Novo Genome Assemblies

Moeko Okada, Kentaro Yoshida, Kentaro K. Shimizu

The 10th Annual Retreat of URPP Evolution in Action 2022.9

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コムギ近縁野生種Aegilops umbellulata Zhuk.の系統地理学的研究

孫櫻, 笠澄望, 岡田萌子, 松岡由浩, 吉田健太郎

日本育種学会第141回講演会 2022.3

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二粒系コムギと２倍体コムギ近縁野生種Aegilops umbellulata Zhuk.の間の３倍体雑種に見られる異常分げつ矮性原因遺伝子同定に向けて.

岡田萌子, 孫櫻, 笠澄望, 佐藤和広, 清水健太郎, 吉田健太郎

第16回ムギ類研究会 2021.12

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Pairing homoeologous 2欠失変異体を利用したパンコムギへの異種染色体断片導入

田渕雅啓, 岡田萌子, 吉田健太郎

第16回ムギ類研究会 2021.12

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AABBAmAm合成 6 倍体で見られる雑種矮性原因遺伝子の探索

中野咲良, 道川麻美, 岡田萌子, 岡本昌憲, 吉田健太郎

第16回ムギ類研究会 2021.12

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コムギ近縁野生種Aegilops umbellulata Zhuk.の系統地理学的研究

孫櫻, 笠澄望, 岡田萌子, 松岡由浩, 吉田健太郎

第16回ムギ類研究会 2021.12

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AABBAmAm合成6倍体コムギとパンコムギ間の雑種ネクローシス原因遺伝子の探索

野口微風子, 岡田萌子, 松岡由浩, 吉田健太郎

第16回ムギ類研究会 2021.12

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コムギ野生近縁種Aegilops umbellulata Zhuk.の組換え自殖系統群におけるGRAS-Di共顕性マーカーを用いたコムギうどんこ病抵抗性のQTL解析.

河村凌, 岡田萌子, 孫櫻, 清水健太郎, 松岡由浩, 吉田健太郎

第16回ムギ類研究会 2021.12

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二粒系コムギと２倍体コムギ近縁野生種Aegilops umbellulataの間の３倍体雑種に見られる異常分げつ矮性

岡田萌子, 笠澄望, 佐藤和広, 清水健太郎, 吉田健太郎

日本遺伝学会第93回大会 2021.9

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Homoeologous gene expression analysis of wheat cultivars and synthetic hexaploid wheats as an example of cold response International coauthorship

M. Okada, J. Sun, T. Tameshige, M. Hatakeyama, R. Shimizu-Inatsugi, S. Takumi, J. Sese, K.K. Shimizu

The 139th Annual Meeting of Japanese Society of Breeding 2021.3

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野生コムギ近縁種Aegilops umbellulataの形質分化と遺伝的分化との関連.

孫櫻, 笠澄望, 岡田萌子, 宅見薫雄, 吉田健太郎

日本育種学会第139回講演会 2021.3

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農林61号のゲノムから見えるもの Invited International coauthorship

岡田萌子, 清水健太, Dario Cope, Thomas Wicke, 爲重才, 畠山剛, 清水, Catharine Aquin, 西村和紗, 小林史典, 村田和樹, Tony Kuo, Emily Delore, Jesse Pola, Georg Habere, Manuel Spannag, Klaus F.X. May, Juan Gutierrez-Gonzalez, Gary J. Muehlbaue, Cecile Mona, Axel Himmelbach, Sudharsan Padmaras, Martin Masche, Sean Walkowi, 中崎鉄也, 川浦香奈, 辻寛之, Curtis Poznia, Nils Stei, 那須田周, 半田裕一

第15回ムギ類研究会 2020.12

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コムギ10+ゲノムプロジェクトと農林61号ゲノム Invited International coauthorship

清水健太郎, 岡田萌子, D. Copetti, T. Wicker, 爲重才覚, 畠山剛臣, 清水(稲継)理恵, C. Aquino, 西村和紗, 小林史典, 村田和樹, Tony Kuo, E. Delorean, J. Poland, G. Haberer, M. Spannag, K.F.X. Mayer, J. Gutierrez-Gonzalez, G.J. Muehlbauer, C. Mona, A. Himmelbach, S. Padmarasu, M. Mascher, S. Walkowiak, 中崎, 板, 川浦香奈子, 辻寛之, C. Pozniak, N. Stein, 瀬々潤, 那須田周平, 半田裕和

第15回麦類研究会 2020.12

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Hybrid incompatibility between tetraploid wheat and wild diploid wheat relative, Aegilops umbellulata. International coauthorship International conference

Moeko Okada, Kentaro Yoshida, Kentaro K. Shimizu, Shigeo Takumi

PSC symposium 2019.12

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２つのABA感受性QTLに関するパンコムギ準等質遺伝子系統の作出とRNA-seq解析

岡田萌子, 松中仁, 小林史典, 吉田健太郎, 宅見薫雄

日本育種学会第136回講演会 2019.9

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Genome-wide association study of wild diploid wheat Aegilops umbellulata using RNA-seq-based genotyping data

Nozomi Kasazumi, Moeko Okada, Kentaro Yoshida, Shigeo Takumi

The 136th Meeting of Japanese Society of Breeding 2019.9

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研究者としての私の夢 Invited

岡田萌子

日本育種学会第135回講演会男女共同参画推進委員会特別企画ランチョンセミナー 2019.9

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コムギ近縁野生種のサブゲノムを区別した解析手法の確立に向けて.

岡田萌子, 吉田健太郎, 佐藤和広, 宅見薫雄

第2回植物インフォマティクス研究会 2019.9

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Genome-wide marker development based on RNA sequencing of leaf transcripts in wild einkorn wheat. International conference

Asami Michikawa, Kentaro Yoshida, Moeko Okada, Kazuhiro Sato, Shigeo Takumi

The 1st International Wheat Congress 2019.7

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Phenotypic variation and RNA-seq-based genome-wide polymorphisms in wild diploid wheat relative Aegilops umbellulata. International conference

Nozomi Kasazumi, Moeko Okada, Kentaro Yoshida, Shigeo Takumi

The 1st International Wheat Congress 2019.7

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Production and phenotypic analysis of synthetic allohexaploid lines having durum wheat and wild diploid relative genomes International conference

Shigeo Takumi, Asami Michikawa, Yuka Miki, Sayaka Tanaka, Moeko Okada, Kiyotaka Nagaki, Kazuhiro Sato, Tatsuya M. Ikeda, Kentaro Yoshida, Yoshihiro Matsuoka

The 1st International Wheat Congress 2019.7

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RNA-seq-based bulked segregant analysis of the causal U-genome gene for grass-clump dwarfism in interspecific hybrids between tetraploid wheat and wild wheat relative Aegilops umbellulata International conference

Moeko Okada, Kentaro Yoshida, Kazuhiro Sato, Shigeo Takumi

The 1st International Wheat Congress 2019.7

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コムギ近縁種Aegilops umbellulataがもつ二粒系コムギとの間の雑種矮性原因遺伝子の遺伝解析

岡田萌子, 吉田健太郎, 佐藤和広, 宅見薫雄

日本育種学会第135回講演会 2019.3

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Evaluation of natural variation in grain texture of Aegilops tauschii using synthetic hexaploid wheat

Yuka Miki, Moeko Okada, Kentaro Yoshida, Tatsuya M. Ikeda, Shigeo Takumi

The 135th Meeting of Japanese Society of Breeding 2019.3

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RNA-seq BSA reveals the target region of hybrid incompatibility between tetraploid wheat and wild diploid wheat relative Aegilops umbellulata. International conference

Moeko Okada, Kentaro Yoshida, Kazuhiro Sato, Shigeo Takumi

Plant and Animal Genome Conference XXVII 2019.1

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Country：United States

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野生一粒系コムギのRNA-seqデータに由来する多型情報の利用

道川麻美, 吉田健太郎, 岡田萌子, 佐藤和広, 宅見薫雄

第13回ムギ類研究会 2018.12

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タルホコムギpuroindoline遺伝子の多様性解析

三木祐香, 岡田萌子, 池田達哉, 吉田健太郎, 宅見薫雄

第13回ムギ類研究会 2018.12

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二粒系コムギとAegilops umbellulataの雑種に由来する合成６倍体の表現型へのUゲノムの影響.

岡田萌子, 吉田健太郎, 宅見薫雄

第13回ムギ類研究会 2018.12

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RNA-seq解析による２倍体コムギ近縁野生種Aegilops umbellulataのゲノムワイド多型検出と遺伝的多様性解析

岡田萌子, 吉田健太郎, 西嶋遼, 道川麻美, 佐藤和広, 宅見薫雄

第1回植物インフォマティクス研 2018.9

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Transmission of phenotypic diversity in the wild diploid wheat relative Aegilops umbellulata to synthetic allohexaploids

Moeko Okada, Kentaro Yoshida, Shigeo Takumi

2018.3

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二粒系コムギとAegilops umbellulataの雑種に由来する合成６倍体の表現型の多様性. Invited

岡田萌子, 吉田健太郎, 宅見薫雄

第12回ムギ類研究会 2017.12

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RNA sequencing reveals genome-wide polymorphisms applicable to develop genetic markers in Aegilops umbellulata. International conference

Moeko Okada, Kentaro Yoshida, Ryo Nishijima, Kazuhiro Sato, Shigeo Takumi

The 13th International Wheat Genetics Symposium 2017.4

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Awards

Award for exellent presentation

2019.9 Japanese Society of Breeding Genetic analysis of the grass-clump dwarf-causal gene in wheat relative Aegilops umbellulata revealed in interspecific hybrids with tetraploid wheat

Moeko Okada, Kentaro Yoshida, Kazuhiro Sato, Shigeo Takumi

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優秀発表賞

2019.9 第2回植物インフォマティクス研究会コムギ近縁野生種のサブゲノムを区別した解析手法の確立に向けて

岡田萌子, 吉田健太郎, 佐藤和広, 宅見薫雄

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The 14th L’Oréal-Unesco for women in Science Japan Encouragement Award in Life Science

2019.7 L'Oréal Fundation

Moeko Okada

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優秀発表賞

2018.9 第1回植物インフォマティクス研究会 RNA-seq解析による２倍体コムギ近縁野生種Aegilops umbellulataのゲノムワイド多型検出と遺伝的多様性解析

岡田萌子, 吉田健太郎、西嶋遼、道川麻美、佐藤和広、宅見薫雄

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優秀ポスター発表賞

2017.12 第12回ムギ類研究会二粒系コムギとAegilops umbellulataの雑種に由来する合成６倍体の表現型の多様性.

岡田萌子, 吉田健太郎、宅見薫雄

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六篠学生賞

2016.3 神戸大学農学部

岡田萌子

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Research Projects

Analyses of reproduction traits in wild wheat Aegilops tauschii

Grant number：JP22H02307

2022.4 - 2027.3

System name：KAKENHI

Awarding organization：Japan Society for the Promotion of Science

Hiroyuki Kakui, Yoshihiro Matsuoka, Moeko Okada

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Elucidation of genomic stability mechanism involved in the establishment of allopolyploid species.

Grant number：22K15161

2022.4 - 2025.3

System name：Grants-in-Aid for Scientific Research Grant-in-Aid for Early-Career Scientists

Research category：Grant-in-Aid for Early-Career Scientists

Awarding organization：Japan Society for the Promotion of Science

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Authorship：Principal investigator

Grant amount：\4550000 （ Direct Cost: \3500000 、 Indirect Cost：\1050000 ）

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Generation of wheat acquires apomixis and clonal embryo formation and identification of related genes.

Grant number：19H02935

2022.4 - 2024.3

System name：Grants-in-Aid for Scientific Research Grant-in-Aid for Scientific Research (B)

Research category：Grant-in-Aid for Scientific Research (B)

Awarding organization：Japan Society for the Promotion of Science

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Authorship：Coinvestigator(s)

Grant amount：\16770000 （ Direct Cost: \12900000 、 Indirect Cost：\3870000 ）

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コムギ近縁ゲノム種における新規種間雑種生育不全遺伝子の同定と機能解析

Grant number：20J11239

2020.4 - 2022.3

System name：科学研究費助成事業

Research category：特別研究員奨励費

Awarding organization：日本学術振興会

岡田萌子

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Grant amount：\2300000 （ Direct Cost: \2300000 ）

本年度は、1.Aegilopsumbellulataゲノムの新規解読、2.RNA-seq解析と連鎖解析による雑種矮性原因遺伝子の絞り込みを行った。なお、1は「先進ゲノム支援2021年度第2回」の支援を受け、チューリッヒ大学の清水健太郎博士との共同研究で行った。
1.Aegilopsumbellulataゲノムの新規解読: まず、PacBioSequelIIシステムによるAe.umbellulataのリングリードシーケンスデータからHiFiリードを取得し、denovoアセンブリの結果、N50が7.2Mbp、総塩基数4.28Gbpのコンティグ配列を取得した。続いて、染色体スケールのゲノム配列取得に向けて、Hi-C解析を試みた。ドイツIPKが公開しているプロトコルを参考に、日本から購入可能な試薬を用いたライブラリ調整のための条件検討を行った。さらに、「先進ゲノム支援」からの支援を受けて、Ae.umbellulataのさまざまな組織から取得したRNAを、PacBioSequelIIシステムによるロングリードシーケンシングに供試した。得られたデータから遺伝子アノテーションファイルを取得できた。アノテーション情報つきのAe.umbellulataコンティグ配列の取得は世界初の成果である。
2.雑種生育異常原因遺伝子同定のための実験:1-1で取得したコンティグ配列を使用して、これまでに取得済みのRNA-seqデータの再解析を行い、雑種矮性原因遺伝子Gcd1の候補遺伝子を絞り込みに成功した。また、101系統のAe.umbellulataと二粒系コムギとの交雑実験から、雑種生育異常はAe.umbellulataの集団分化前の変異が引き起こされる可能性が考えられた。

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Plant Genetics

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"RNA-seq analysis using subgenome classification methods" in Polyploid summer school

Institution name：University of Fribourg

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Teaching Experience

学問の扉知と方法の最前線

2024
Institution name：新潟大学
植物生産学実験実習IV

2024
Institution name：新潟大学
植物生産学実験実習III

2024
Institution name：新潟大学
植物生産学実験実習II

2024
Institution name：新潟大学
植物生産学実験実習I

2024
Institution name：新潟大学
植物生産実地見学

2024
Institution name：新潟大学
植物遺伝学

2024
Institution name：新潟大学

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