Original Articles
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Geoderma Volume 463, November 2025, 117578
High-resolution monitoring and modeling of subsurface CO2 dynamics in soybean field [Journal]
Hamamoto S, Saito H, Matsunami H, Nihei N, Ichihashi Y, Tatsuno T, Moldrup M, Nishimura T
Frontiers in Education Volume 10 - 2025
Making a difference through presentations: Let’s speak, communicate, and connect! [Journal]
Furumizu C, Ichiashi Y
Nature Plants volume 11, pages483-504 (2025)
Co-option and neofunctionalization of stomatal executors for defence against herbivores in Brassicales [PubMed] [Journal]
Shirakawa M, Oguro T, Sugano S, Yamaoka S, Sagara M, Tanida M, Sunuma K, Iwami T, Nakanishi T, Horiuchi K, Kumaishi K, Yoshida S, Watanabe M, Tohge T, Suzuki T, Ichihashi Y, Takemiya A, Yamaguchi N, Kohchi T, Ito T
Scientific Reports volume 15, Article number: 1928 (2025)
A quantitative prediction method utilizing whole omics data for biosensing [PubMed] [Journal]
Koizumi T, Suzuki K, Mizuki I, Kumaishi K, Ichihashi Y.
Plant J. doi: 10.1111/tpj.17178. 2024
Establishing a comprehensive web-based analysis platform for Nicotiana benthamiana genome and transcriptome. [PubMed] [Journal]
Kurotani K, Hirakawa H, Shirasawa K, Tagiri K, Mori M, Ramadan A, Ichihashi Y, Suzuki T, Tanizawa Y, An J, Winefield C, Waterhouse PM, Miura K, Nakamura Y, Isobe S, Notaguchi M.
iScience. 27[11]: 111074. 2024
Time course transcriptomic profiling suggests Crp/Fnr transcriptional regulation of nosZ gene in a N2O-reducing thermophile. [PubMed] [Journal]
Tsuchiya J, Mino S, Fujiwara F, Okuma N, Ichihashi Y, Morris RM, Nunn BL, Emma TS, Sawabe T.
Sci. Rep. 14: 20541. 2024
Soil volatilomics uncovers tight linkage between soybean presence and soil omics profiles in agricultural fields. [PubMed] [Journal]
Kuchikata H, Sano M, Fujiwara F, Murashima K, Kumaishi K, Narukawa M, Nose Y, Kobayashi M, Hamamoto S, Kobayashi NI, Sugiyama A, Nihei N, Ichihashi Y, Kusano M.
PLOS ONE. 19[4]: e0301981. 2024
Global changes in gene expression during compatible and incompatible interactions of faba bean (Vicia faba L.) during Orobanche foetida parasitism [PubMed] [Journal]
Boukteb A, Sato K, Gan P, Kharrat M, Sakouhi H, Shibata A, Shirasu K, Ichihashi Y, Bouhadida M.
Nature Communications. 15: 1098. 2024
Petal abscission is promoted by jasmonic acid-induced autophagy at Arabidopsis petal bases. [PubMed] [Journal]
Furuta Y, Yamamoto H, Hirakawa T, Uemura A, Pelayo MA, Iimura H, Katagiri N, Takeda-Kamiya N, Kumaishi K, Shirakawa M, Ishiguro S, Ichihashi Y, Suzuki T, Goh T, Toyooka K, Ito T, Yamaguchi N.
Current Biology. 33: 1-15. 2023
Genetic and phosphoproteomic basis of LysM-mediated immune signaling in Marchantia polymorpha highlights conserved elements and new aspect of pattern-triggered immunity in land plants. [PubMed] [Journal]
Yotsui I, Matsui H, Miyauchi S, Iwakawa H, Melkonian K, Schlüter T, Gimenez-Ibanez S, Kanazawa T, Nomura Y, Stolze SC, Jeon HW, Sugano S, Shirakawa M, Nishihama M, Ichihashi Y, Shirasu K, Ueda T, Kohchi T, Nakagami H.
ISME Commun. 3[1]: 28. 2023
An agroecological structure model of compost—soil—plant interactions for sustainable organic farming. [PubMed] [Journal]
Miyamoto H, Shigeta K, Suda W, Ichihashi Y, Nihei N, Matsuura M, Tsuboi A, Tominaga N, Aono M, Sato M, Taguchi S, Nakaguma T, Tsuji N, Ishii C, Matsushita T, Shindo C, Ito T, Kato T, Kurotani A, Shima H, Moriya S, Wada S, Horiuchi S, Satoh T, Mori K, Nishiuchi T, Miyamoto H, Kodama H, Hattori M, Ohno H, Kikuchi J, Hirai M.
Front Plant Sci. 13: 1047563. 2022
Effects of irrigation on root growth and development of soybean: a 3-year sandy field experiment. [PubMed] [Journal]
Bui KT, Naruse T, Yoshida H, Toda Y, Ohmori Y, Tsuda M, Kaga A, Yamasaki Y, Tsujimoto H, Ichihashi Y, Hirai YM, Fujiwara T, Iwata H, Matsuoka M, Takahashi H, Nakazono M.
Front Plant Sci. 13: 1077996. 2022
Phenolic signals for prehaustorium formation in Striga hermonthica. [PubMed] [Journal]
Aoki N, Cui S, Ito S, Kumaishi K, Kobori S, Ichihashi Y, Yoshida S.
Microbiome. 10[1]: 236. 2022
Stochastic variational variable selection for high-dimensional microbiome data. [PubMed] [Journal]
Dang T, Kumaishi K, Usui E, Kobori S, Sato T, Toda Y, Yamasaki Y, Tsujimoto H, Ichihashi Y, Iwata H.
Sci. Rep. 12: 19289. 2022
High throughput method of 16S rRNA gene sequencing library preparation for plant root microbial community profiling. [PubMed] [Journal]
Kumaishi K, Usui E, Suzuki K, Kobori S, Sato T, Toda Y, Takanashi H, Shinozaki S, Noda M, Takakura A, Matsumoto K, Yamasaki Y, Tsujimoto H, Iwata H, Ichihashi Y.
bio Rxiv. 2022
A novel genomic DNA library preparation method with low GC bias. [Journal]
Kelly S. T, Hakoyama T, Kumaishi K, Okuda-Yabukami H, Kato S, Hayashi M, Minoda A, Ichihashi Y.
Acta virologica. 66: 206-215. 2022
A novel RNA virus, Thesium chinense closterovirus 1, identified by high-throughput RNA-sequencing of the parasitic plant Thesium chinense. [PubMed] [Journal]
Shin C, Choi D, Shirasu K, Ichihashi Y, Hahn Y.
Plant Biotechnology. 39[3]: 323-327. 2022
Oxicam-type nonsteroidal anti-inflammatory drugs enhance Agrobacterium-mediated transient transformation in plants. [Journal]
Choi SW, Kumaishi K, Motohashi R, Enoki H, Chacuttayapong W, Takamizo T, Saika H, Endo E, Yamada T, Hirose A, Koizuka N, Kimura S, Kawakatsu Y, Koga H, Ito E, Shirasu K, Ichihashi Y.
Acta virologica. 66[2]: 149-156. 2022
Artemisia capillaris nucleorhabdovirus 1, a novel member of the genus Alphanucleorhabdovirus, identified in the Artemisia capillaris transcriptome. [PubMed] [Journal]
hoi D, Shin C, Shirasu K, Ichihashi Y, Hahn Y.
New Phytol. 234[3]: 867-883. 2022
Ranjan A, Spatial control of cell division by GA-OsGRF7/8 module in a leaf explains the leaf length variation between cultivated and wild rice. [PubMed] [Journal]
Jathar V, Saini K, Chauhan A, Rani R, Ichihashi Y.
Int. J. Environ. Res. Public Health. 19[3]: 1228. 2022
Chemical-Mediated Microbial Interactions Can Reduce the Effectiveness of Time-Series-Based Inference of Ecological Interaction Networks. [PubMed] [Journal]
Suzuki K, Abe M. S, Kumakura D, Nakaoka S, Fujiwara F, Miyamoto H, Nakaguma T, Okada M, Sakurai K, Shimizu S, Iwata H, Masuya H, Nihei N, Ichihashi Y.
Hortic. Res. 9: uhab056. 2022 Discovery of the interfamily grafting capacity of Petunia, a floricultural species. [Journal]
Notaguchi M, Kurotani K, Huang C, Okayasu K, Suzuki T, Ichihashi Y, Shirasu K, Higashiyamam T, Niwa M.
bio Rxiv. 2021
Phosphorus is a critical factor of the in vitro monoxenic culture method for a wide range of arbuscular mycorrhizal fungi culture collections. [Journal]
Sato T, Suzuki K, Usui E, Ichihashi Y.
Commn. Biol. 4: 707. 2021
A pair of effectors encoded on a conditionally dispensable chromosome of Fusarium oxysporum suppress host-specific immunity. [PubMed] [Journal]
Ayukawa Y, Asai S, Gan P, Tsushima A, Ichihashi Y, Shibata A, Komatsu K, Houterman PM., Rep M, Shirasu K, Arie T.
Front Plant Sci. 12: 680151. 2021
Transcriptomic analysis of resistant and susceptible responses in a new model root-knot nematode infection system using Solanum torvum and Meloidogyne arenaria. [PubMed] [Journal]
Sato K, Uehara T, Holbein J, Sasaki-Sekimoto Y, Gan P, Bino T, Yamaguchi K, Ichihashi Y, Maki N, Shigenobu S, Ohta H, Franke RB., Siddique S, Grundler FM.W., Suzuki T, Kadota Y, Shirasu K.
Plant Physiol. 186: 2093–2110. 2021
LATERAL ORGAN BOUNDARIES DOMAIN 25 functions as a key regulator of haustorium development in dodders. [PubMed] [Journal]
Jhu MY, Ichihashi Y, Farhi M, Wong C, Sinha N.
J. Nat .Med. 75: 1067–1079. 2021
Characterization of inter-annual changes in soil microbial lora of Panax ginseng cultivation ields in Shimane Prefecture of Western Japan by DNA metabarcoding using next-generation sequencing. [PubMed] [Journal]
Fujii T, Minami M, Watanabe T, Sato Takumi Kumaishi K, Ichihashi Y.
Front Plant Sci.12: 618245. 2021
Analysis of genetic diversity and population structure of Orobanche foetida populations from Tunisia using RADseq. [PubMed] [Journal]
Boukteb A, Sakaguchi S, Ichihashi Y, Kharrat M, Nagano AJ, Shirasu K, Bouhadida M.
Plant Physiol. 185: 1429-1442. 2021
Three-dimensional reconstructions of the internal structures of haustoria in parasitic Orobanchaceae. [PubMed] [Journal]
Masumoto N, Suzuki Y, Cui S, Wakazaki M, Sato M, Kumaishi K, Shibata A, Furuta M. K, Ichihashi Y, Shirasu K, Toyooka K, Sato Y, Yoshida S.
Plant Physiol. 185[4]: 1381-1394. 2020
Subtilase activity in the intrusive cells mediates haustorium maturation in parasitic plants. [PubMed] [Journal]
Ogawa S, Wakatake T, Spallek T, Ishida JK, Sano R, Kurata T, Demura T, Yoshida S, Ichihashi Y, Schaller A, Shirasu K.
Front. Plant Sci. 11: 600726. 2020
Morphological and physiological framework underlying plant longevity in Arabidopsis thaliana. [PubMed] [Journal]
Wang Y, Kumaishi K, Suzuki T, Ichihashi Y, Yamaguchi N, Shirakawa M, Ito T.
Pest Management Science, 76[12]: 3945-3953. 2020
Solanum palinacanthum : broad‐spectrum resistance to root‐knot nematodes [Meloidogyne spp]. [PubMed] [Journal]
Murata G, Uesugi K, Uehara T, Kumaishi K, Ichihashi Y, Saito T, Shinmura Y.
Science 369[6504]: 698-702. 2020
Cell–cell adhesion in plant grafting is facilitated by β-1,4-glucanases. [PubMed] [Journal]
Notaguchi M, Kurotani K, Sato Y, Tabata R, Kawakatsu Y, Okayasu K, Sawai Y, Okada R, Asahina M, Ichihashi Y, Shirasu K, Suzuki T, Niwa M, Higashiyama T.
Commn. Biol. 3: 407. 2020
Host-parasite tissue adhesion by a secreted type of β-1,4-glucanase in the parasitic plant Phtheirospermum japonicum. [PubMed] [Journal]
Kurotani K, Wakatake T, Ichihashi Y, Okayasu K, Sawai Y, Ogawa S, Cui S, Suzuki T, Shirasu K, Notaguchi M.
PNAS 117[25]: 14552-14560. 2020
Multi-omics analysis on an agroecosystem reveals the significant role of organic nitrogen to increase agricultural crop yield. [PubMed] [Journal]
Ichihashi Y, Date Y, Shino A, Shimizu T, Shibata A, Kumaishi K, Funahashi F, Wakayama K, Yamazaki K, Umezawa A, Sato T, Kobayashi M, Kamimura M, Kusano M, Che F-S, O`Brien M, Tanoi K, Hayashi M, Nakamura R, Shirasu K, Kikuchi J, Nihei N.
Front. Plant Sci. 11: 563. 2020
Short-Term Magnesium Deficiency Triggers Nutrient Retranslocation in Arabidopsis thaliana. [PubMed] [Journal]
Ogura T, Kobayashi NI, Hermans C, Ohmae Y, Ichihashi Y, Shibata A, Shirasu K, Aoki N, Sugita R, Ogawa T, Suzuki H, Iwata R, Nakanishi TM, Tanoi K.
Plant Microbe Interact. 33: 474-487. 2020
Exogenous treatment with glutamate induces immune responses in Arabidopsis. Mol. [PubMed] [Journal]
Goto Y, Maki N, Ichihashi Y, Kitazawa D, Igarashi D, Kadota Y, Shirasu K.
Plant Cell Physiol. 61[4]: 712-721. 2019
AtNOT1 is a novel regulator of gene expression during pollen development. [PubMed] [Journal]
Motomura K, Arae T, Uramoto HA, Suzuki Y, Takeuchi H, Suzuki T, Ichihashi Y, Shibata A, Shirasu K, Takeda A, Higashiyama T, Chiba Y.
Front. Ecol. Evol. 7: 437. 2019
CRABS CLAW and SUPERMAN Coordinate Hormone-, Stress-, and Metabolic-Related Gene Expression During Arabidopsis Stamen Development. [Journal]
Lee ZH, Tatsumi Y, Ichihashi Y, Suzuki T, Shibata A, Shirasu K, Yamaguchi N, Ito T.
Plant Cell Environ. 42: 2198-2214. 2019
Abscisic acid-dependent histone demethylation during postgermination growth arrest in Arabidopsis. [PubMed] [Journal]
Wu J, Ichihashi Y, Suzuki T, Shibata A, Shirasu K, Yamaguchi N, Ito T.
Current Biology 29: 3041-3052. 2019
Genome Sequence of Striga asiatica Provides Insight into the Evolution of Plant Parasitism. [PubMed] [Journal]
Yoshida S, Kim S, Wafula EK, Tanskanen J, Kim YM, Honaas L, Yang Z, Spallek T, Conn CE, Ichihashi Y, Cheong K, Cui S, Der JP, Gundlach H, Jiao Y, Hori C, Ishida JK, Kasahara H, Kiba T, Kim MS, Koo N, Laohavisit A, Lee YH, Lumba S, McCourt P, Mortimer JC, Mutuku JM, Nomura T, Sasaki-Sekimoto Y, Seto Y, Wang Y, Wakatake T, Sakakibara H, Demura T, Yamaguchi S, Yoneyama K, Manabe RI, Nelson DC, Schulman AH, Timko MP, dePamphilis CW, Choi D, Shirasu K.
Nature Plants 4: 247-257. 2018
Core microbiomes for sustainable agroecosystems. [PubMed] [Journal]
Toju H, Peay KG, Yamamichi M, Narisawa K, Hiruma K, Naito K, Fukuda S, Ushio M, Nakaoka S, Onoda Y, Yoshida K, Schlaeppi K, Bai Y, Sugiura R, Ichihashi Y, Minamisawa K, Kiers ET.
New Phytologist 220[1]: 278-287. 2018
Decoding the gene co-expression network underlying the ability of Gevuina avellana to live in diverse light conditions. [PubMed] [Journal]
Ostria-Gallardo E, Ranjan A, Ichihashi Y, Corcuera L, Sinha N.
Genome Announc. 6[26]: e00519-18. 2018
High-Quality Genome Sequence of the Root-Knot Nematode Meloidogyne arenaria Genotype A2-O. [PubMed] [Journal]
Sato K, Kadota Y, Gan P, Bino T, Uehara T, Yamaguchi K, Ichihashi Y, Maki N, Iwahori H, Suzuki T, Shigenobu S, Shirasu K.
Scientific Reports 8: 3302. 2018
Comparative transcriptomics with self-organizing map reveals cryptic photosynthetic differences between two accessions of North American Lake cress. [PubMed] [Journal]
Nakayama H, Sakamoto T, Okegawa Y, Kaminoyama K, Fujie M, Ichihashi Y, Kurata T, Motohashi K, Al-Shehbaz I, Sinha N, Kimura S.
Methods in Molecular Biology 1830: 163-189. 2018
High Impact Gene Discovery: Simple Strand Specific mRNA Library Construction and Differential Regulatory Analysis Based on Gene Co-expression Network. [PubMed] [Journal]
Ichihashi Y, Fukushima A, Shibata A, Shirasu K.
Plant Cell Physiol. 59[4]: 729-738. 2018
Transcriptomic and Metabolomic Reprogramming from Roots to Haustoria in the Parasitic Plant, Thesium chinense. [PubMed] [Journal]
Ichihashi Y, Kusano M, Kobayashi M, Suetsugu K, Yoshida S, Wakatake T, Kumaishi K, Shibata A, Saito K, Shirasu K.
Plant Reproduction 31[1]: 89-105. 2018
Regulation of floral meristem activity through the interaction of AGAMOUS, SUPERMAN, and CLAVATA3 in Arabidopsis. [PubMed] [Journal]
Uemura A, Yamaguchi N, Xu Y, Wee W, Ichihashi Y, Suzuki T, Shibata A, Shirasu K, Ito T.
>PLOS ONE 11[11]: e0166574. 2016 †equal contribution.
T ranscriptome Dynamics and Potential Roles of Sox6 in the Postnatal Heart. [PubMed] [Journal]
An CI†, Ichihashi Y†, Peng J, Sinha NR, and Hagiwara N.
G3 6[10]: 3169-3184. 2016
A New Advanced Backcross Tomato Population Enables High Resolution Leaf QTL Mapping and Gene Identification. [PubMed] [Journal]
Fulop D, Ranjan A, Ofner I, Covington MF, Chitwood DH, West D, Ichihashi Y, Headland L, Zamir D, Maloof JN, and Sinha N.
Plant Physiol. 172[1]: 328-340. 2016
eQTL regulating Transcript Levels Associated with Diverse Biological Processes in Tomato. [PubMed] [Journal]
Ranjan A, Budke J, Rowland SD, Chitwood DH, Kumar R, Carriedo LG, Ichihashi Y, Zumstein K, Maloof JN, and Sinha N.
Plant Cell 28[6]: 1250-1262. 2016
Vascular Cell Induction Culture System Using Arabidopsis Leaves (VISUAL) Reveals the Sequential Differentiation of Sieve Element-like Cells. [PubMed] [Journal]
Kondo Y, Nurani AM, Saito C, Ichihashi Y, Saito M, Yamazaki K, Mitsuda N, Ohme-Takagi M, and Fukuda H.
New Phytologist. 210[2]: 694-708. 2016
Transcriptomic analysis suggests a key role for SQUAMOSA PROMOTER BINDING PROTEIN LIKE, NAC and YUCCA genes in the heteroblastic development of the temperate rainforest tree Gevuina avellana (Proteaceae). [PubMed] [Journal]
Ostria-Gallardo E, Ranjan A, Chitwood DH, Kumar R, Townsley BT, Ichihashi Y, Corcuera LJ, and Sinha NR.
Plant Physiol. 169[3]: 2030-2047. 2015
Light-induced indeterminacy alters shade avoiding tomato leaf morphology. [PubMed] [Journal]
Chitwood DH, Kumar R,Ranjan A, Pelletier JM, Townsley B, Ichihashi Y, Martinez CC, Zumstein K, Harada JJ, Maloof JN, and Sinha N.
Front. Plant Sci. 6: 366. 2015
BrAD-seq: Breath Adapter Directional sequencing: a streamlined, ultra-simple and fast library preparation protocol for strand specific mRNA library construction. [PubMed] [Journal]
Townsley BT, Covington MF, Ichihashi Y, Zumstein K, Sinha NR.
Plant Physiol. 168[3]: 1152-1163. 2015
The WRKY45-dependent signaling pathway is required for resistance against Striga parasitism. [PubMed] [Journal]
Mutuku JM, Yoshida S, Shimizu T, Ichihashi Y, Wakatake T, Seo M, Takahashi A, Shirasu K.
PLOS Genet. 11[4]: e1004953. 2015
Shade avoidance components and pathways in adult plants revealed by phenotypic profiling. [PubMed] [Journal]
Nozue K, Tat A, Devisetty UK, Robinson M, Ichihashi Y, Lekkala S, Maloof J.
PLOS Genet. 11[1]: e1004900. 2015
An Intracellular Transcriptomic Atlas of the Giant Coenocyte Caulerpa taxifolia. [PubMed] [Journal]
Ranjan A, Townsley, BT, Ichihashi Y, Sinha NR and Chitwood DH.
PNAS 111[25]: E2616-E2621. 2014
Evolutionary developmental transcriptomics reveals a gene network module regulating interspecific diversity in plant leaf shape. [PubMed] [Journal]
Ichihashi Y, Aguilar-Martínez JA, Farhi M, Chitwood DH, Kumar R, Millon LV, Peng J, Maloof JN, and Sinha NR.
Plant Physiol. 166[3]: 1186-1199. 2014
De novo assembly and characterization of the transcriptome of the parasitic weed Cuscuta pentagona identifies genes associated with plant parasitism. [PubMed] [Journal]
Ranjan A, Ichihashi Y, Farhi M, Zumstein K, Townsley B, David-Schwartz R, Sinha NR.
Plant Cell 26[9]: 3616-3629. 2014
Resolving distinct genetic regulators of tomato leaf shape within a heteroblastic and ontogenetic context. [PubMed] [Journal]
Chitwood DH, Ranjan A, Kumar R, Ichihashi Y, Zumstein K, Headland L, Gallardo E, Aguilar-Martinez JA, Bush S, Carriedo L, Fulop D, Martinez C, Peng J, Maloof J, and Sinha NR.
Plant Cell 25[7]: 2465-248. 2013
A quantitative genetic basis for leaf morphology in a set of precisely defined tomato introgression lines. [PubMed] [Journal]
Chitwood DH, Kumar R, Headland LR, Ranjan A, Covington MF, Ichihashi Y, Fulop D, Jiménez-Gómez JM, Peng J, Maloof JN, Sinha NR.
Front. Plant Sci. 3: 202. 2012.
A High-Throughput Method for Illumina RNA-Seq Library Preparation. [PubMed] [Journal]
Kumar R†, Ichihashi Y†, Kimura S, Chitwood DH, Headland LR, Peng J, Maloof JN, Sinha NR.
Plant Physiol. 157[3]: 1151-1162. 2011
Key proliferative activity in the junction between the leaf blade and leaf petiole of Arabidopsis. [PubMed] [Journal]
Ichihashi Y, Kawade K, Usami T, Horiguchi G, Takahashi T, Tsukaya H.
Plant Cell Physiol. 51: 252-261. 2010
The bHLH transcription factor SPATULA controls final leaf size in Arabidopsis thaliana. [PubMed] [Journal]
Ichihashi Y, Horiguchi G, Gleissberg S, Tsukaya H.
Plant Cell Physiol. 51: 1046-1054. 2010
The mechanism of cell cycle arrest front progression explained by a KLUH/CYP78A5-dependent mobile growth factor in developing leaves of Arabidopsis thaliana. [PubMed] [Journal]
Kazama T, Ichihashi Y, Murata S, Tsukaya H.
J Phytogeo Tax. 57: 7-16. 2009
Phylogenetic positions of Tokai hilly land element, Drosera tokaiensis (Droseraceae) and its parental species, D. rotundifolia and D. [Journal]
Ichihashi Y, Minami M.
Review Articles
- All
- 2024-2020
- 2019-2015
- 2014-2010
- 2009-2006
Proceedings of the Japanese Society of Soil Science and Plant Nutrition 69: 169. 2024
"Digitalization of Agricultural Ecosystems: A Case Study on the Digitalization of the Satsuma Mandarin Agroecosystem"
Ichihashi Y, Nihei N.
AgriBio 8[1]: 22-28. 2024
GX through agricultural digital twin.
Fujiwara F, Nihei N, Ichihashi Y.
New Country 70[11]: 17-20. 2023
Amino acid uptake and utilization in plants.
Nihei N, Ichihashi Y.
Journal of the Japanese Society of Soil Science and Plant Nutrition C-23-017-2. 2023
Digitalization of agricultural ecosystems by multi-omics analysis
Nihei N, Ichihashi Y.
Plant Cell Physiol. 00[00]: 1-12. 2023
Strigolactones in Rhizosphere Communication: Multiple Molecules With Diverse Functions. [PubMed] [Journal]
Kee YJ, Ogawa S, Ichihashi Y, Shirasu K, Yoshida S.
Chemistry and Biology 61[7]: 324-330. 2023
Multi-omics analysis in agricultural fields and digitalization of agroecosystems: New perspectives on the world woven by plants, microbes, and soils.
Nihei N, Ichihashi Y.
Breeding Science. doi: 10.1270/jsbbs.22061. 2023
Diversity of tomato leaf form provides novel insights into breeding. [Journal]
Nakayama H, Ichihashi Y, Kimura S.
Bioscience, Biotechnology, and Biochemistry. 87[1]: 21-27. 2023
Agroecosystem Engineering Extended from Plant-Microbe Interactions Revealed by Multi-Omics Data. [PubMed] [Journal]
Fujiwara F, Miyazawa K, Nihei N, Ichihashi Y.
Plant Protection 56[6]: 143-148. 2022
Digitalization of agricultural ecosystems by multi-omics analysis
Ichihashi Y, Nihei N.
Regulation of Plant Growth & Development, 56[2]: 97-101. 2021
The role of organic nitrogen revealed by digitalization of agricultural ecosystems – A new development in plant nutrition.
Ichihashi Y, Nihei N. Che F.
RADIOISOTOPES, 70: 29-39. 2021
Elucidating the functions of organic components involved in crop growth through tracer use of isotopes.
Nihei N, Ichihashi Y.
Bioscience and Industry, 79[1]: 20-24. 2021
Current status and challenges of multi-omics analysis in crop production.
Ichihashi Y, Nihei N.
AgriBio January issue, 5[1]: 6-7. 2021
Plant microbiology unique to Japan.
Ichihashi Y.
Crop Production and Soil Management 52(559): 52-57. 2020
Digitalization of agricultural ecosystems and elucidation of the importance of soil organic nitrogen.
Nihei N, Ichihashi Y.
Front Plant Sci. 11: 1084. 2020
Common mechanisms of developmental reprogramming in plants - lessons from regeneration, symbiosis and parasitism.
Ichihashi Y, Hakoyama T, Iwase A, Shirasu K, Sugimoto K, Hayashi M.
AgriBio August issue, 18-22, 2020
Next-generation agriculture opened up by multi-omics analysis.
Ichihashi Y, Nihei N, Date Y.
AgriBio September issue, 67-84, 2017
Interactions between plants and rhizosphere microbiota.
Ichihashi Y, Ishigaki Y, Shirasu K.
BSJ-Review. 7. 288. 2016
Evolutionary developmental studies of leaf shape.
Ichihashi Y.
Curr. Opin. Plant Biol. 33: 133-139. 2016
Using gene networks in EvoDevo analyses.
Sinha NR, Rowland SD, and Ichihashi Y.
BSJ-Review. 7. 110. 2016
Frontiers of Transcriptomics in Plant Science.
Ichihashi Y and Fukushima A.
Annual Review of Plant Biology 67: 643-667. 2016
The Haustorium, a Specialized Invasive Organ in Parasitic Plants.
Yoshida S, Cui S, Ichihashi Y, and Shirasu K.
Front Plant Sci. 6: 1060. 2015
Behavior of Leaf Meristems and Their Modification.
Ichihashi Y, Tsukaya H.
Plant Morphology 26: 43-50. 2015
Developmental mechanisms underpinning leaf shape evolution.
Ichihashi Y.
Briefings in Functional Genomics 14[4]: 275-282. 2015
Transcriptomics exposes the uniqueness of parasitic plants.
Ichihashi Y, Mutuku JM, Yoshida S, Shirasu K.
Curr. Opin. Plant Biol. 18: 9-15. 2014
From genome to phenome and back in tomato.
Ichihashi Y and Sinha NR.
Genome Biol. 13[8]: 167. 2012
The tomato genome: implications for plant breeding, genomics and evolution.
Ranjan A, Ichihashi Y, Sinha NR.
ARENA, Chubu University, 7, pp389-396, 2009
Chapter 4 > Carnivorous plant Drosera tokaiensis and its parental species.
Aichi M, Ichihashi Y, Minami M.
Bulletin of the Institute of Bioscience, Chubu University, 7, 49-74, 2007
Genetic diversity analysis and identification using DNA polymorphisms.
Ajioka Y, Ichihashi Y, Kyuushima H, Kogaya K, Horikawa D, Minami M.
Bulletin of the Institute of Bioscience, Chubu University, 6, 67-84, 2006
Conservation ecology of Tokai hilly land plant communities: conservation, restoration and management (4) Species diversity and molecular phylogenetic study of the genus Drosera. [PubMed] [Journal]
Ichihashi Y, Hattori K, Minami M.
Books
Biostimulant Handbook. NTS. 2022
"Toward the development of biostimulant materials that utilize the power of arbuscular mycorrhizal fungi" Yasuo Yamauchi, Osamu Sudo, Tetsuo Wada (eds.)
Takumi Sato, Yasunori Ichihashi
Biostimulant Handbook. NTS. 2022
"Mechanisms by which amino acids affect plant growth" Yasuo Yamauchi, Osamu Sudo, Tetsuo Wada (eds.)
Naoto Nihei, Yasunori Ichihashi
Atlas of Plant Cell Structure. Springer. 2014
Arabidopsis thaliana leaf blade and leaf petiole. Noguchi T, Kawano S, Tsukaya H, Matsunaga S, Sakai A, Karahara I, Hayashi Y (Eds.).
Ichihashi Y, Kawade K, Tsukaya H.
Patents
Japanese Patent Application 2024-101029 (Filed 2024/6/24)
"Composition for increasing sugar content of plants, method for producing plants with increased sugar content, method for increasing sugar content of plants, and cultivation medium composition having an effect of increasing sugar content of plants"
Yasunori Ichihashi, Fuki Fujiwara
Japanese Patent Application 2024-059737 (Filed 2024/4/2)
"Method for producing arbuscular mycorrhizal fungi"
Yasunori Ichihashi, Megumi Narukawa, Norihiro Kimoto
Japanese Patent Application 63-453626 (Filed 2023/3/21)
"A quantitative prediction method utilizing whole omics data as a biosensor"
Takahiko Koizumi, Yasunori Ichihashi, Kenta Suzuki
Japanese Patent Application 2022-074332 (Filed 2022/4/28)
"Method for screening useful microorganisms"
Megumi Narukawa, Yasunori Ichihashi
Japanese Patent Application 2022-074332 (Filed 2022/4/28)
"Agent for improving crop freshness, fertilizer composition for improving crop freshness, and method for improving crop freshness"
Naoto Nihei, Yasunori Ichihashi, Takumi Sato, Kohei Ahe, Hiroko Shibamoto, Kengo Suzuki
Japanese Patent Application 2020-025576 (Filed 2020/2/18)
"Method for producing DNA molecules with adapter sequences and their use"
Yasunori Ichihashi, Masao Hakoyama
Invited Lectures
JT D-LAB Lecture
Resonance of Soil and Digital
October 2, 2025
15th Agriculture WEEK
Unraveling Agricultural Ecosystems – New Developments Opened by Multi-Omics and AI
October 1, 2025
RIKEN CSRS Junior Scientist Development Program
Living as a Holobiont: Science for the Next Generation
September 30, 2025
2025 Chubu University Wine and Sake Project Research Exchange Meeting
Field Multi-omics Research to Decode the Earth's Memory
January 17, 2025
84th Annual Meeting of the Japan Society for Analytical Chemistry
From multi-omics analysis to the development of agricultural digital twins
May 18–19, 2024
39th Resource Plant Science Symposium and 15th Stress Science Research Symposium
- From the Fundamentals to Applications of Plant Science -
Multi-omics research of agricultural ecosystems
February 26, 2024
5th Waseda Brussels Conference "Global Sustainable Food Supply"
SESSION II - CARBON FARMING“Toward development of agricultural digital twin”
December 13, 2023
Public Symposium, Ehime Meeting of the Japanese Society of Soil Science and Plant Nutrition 2023
Digitalization of agricultural ecosystems
– A case study of the digitalization of the Satsuma mandarin agricultural ecosystem –
September 14, 2023
Public Symposium “Food, Soil, and Fertilizer – As Fundamental Science for Achieving SDGs”
“Using data science to uncover the craftsmanship of expert farmers”
July 29, 2023
Biometric Society of Japan 2023 Annual Meeting
From multi-omics analysis to the development of agricultural digital twins
April 20, 2023
Planetary Healthcare Forum – Considering the Health of People and the Earth –
New agriculture using digital technologies and microbes
November 24, 2022
NTT West ICT Online Seminar
Next-generation agriculture that is considerate of the global environment
November 9, 2022
Japan Society for Bioscience, Biotechnology, and Agrochemistry 2022 Academic Exchange Forum
Aiming for a 21st-century green revolution with plants and microbes
March 18, 2022
Japan Society for Bioscience, Biotechnology, and Agrochemistry 2022 Annual Meeting
Future vision of agricultural environmental engineering expanded from plant–microorganism interactions
March 15, 2022
Hyper Interdisciplinary Conference Tokyo 2022
Engineering of Complex Fermentation
– Can we perfectly replicate our home-made nukadoko using science and technology? –
March 4, 2022
Joint Symposium “From ‘Seeing’ Plants to ‘Viewing’ Crops”
Digitalization of agricultural ecosystems by multi-omics analysis
March 2, 2022
Technical Exchange Meeting with Sysmex
Digitalization of agricultural ecosystems by multi-omics analysis
November 19, 2021
Lecture for Organic Farmers
Future prospects of organic farming dissemination and soil digitalization
October 16, 2021
15th Metabolome Symposium
Digitalization of agricultural ecosystems by multi-omics analysis
October 14, 2021
Fugaku BEGINS HPC “Potential for a Food Revolution”
Agricultural digital twin: Agricultural environmental engineering system
September 17, 2021
3rd Sensor & IoT Seminar
Digitalization of agricultural ecosystems by multi-omics analysis
April 27, 2021
2nd Study Group on Sustainable Production and Smart Agriculture
Digitalization of agricultural ecosystems by multi-omics analysis
March 31, 2021
68th Annual Meeting of the Ecological Society of Japan
Digitalization of agricultural ecosystems by multi-omics analysis
March 17, 2021
Organic Farming Technical Conference 2021
Expectations for the development of new agricultural technologies
February 20, 2021
2020 Plant Microbe Research Society Online Symposium
Roadmap to the future of plant microbiology
September 12, 2020
Tokyo Biotechnology Specialist School Lecture
Contributing to Japanese agriculture with the latest technology
January 7, 2020
Plant Science Symposium 2019
Deployment of multi-omics analysis in agricultural fields
December 11, 2019
SIP Workshop
New agriculture using digital technologies and microbes
November 13, 2019
Togo Day Symposium 2019
How can we elucidate microbe–plant interactions and connect them to breeding?
October 5, 2019
RIKEN Evening Seminar
Relationships between crops, soil, and microbes
– Visualizing the agricultural environment through science –
September 18, 2019
Joint Symposium of the Japanese Society of Microbial Ecology and the Japanese Society of Plant Physiologists
> Co-creating the future through plant–microbe research
September 11, 2019
RIKEN Science Lecture
Research to contribute to agriculture by utilizing the power of microbes
August 25, 2019
NARO/NGS Data Analysis Symposium
Scientifically exploring organic farming through field agro-omics
September 25, 2018
Organic Lifestyle EXPO
"Health diagnosis of vegetables"
Comparing conventional and organic vegetables through data
September 23, 2018
7th Meeting of the AgriGenome Industry Research Association
Scientifically exploring organic farming through field agro-omics
September 14, 2018
70th Annual Meeting of the Society for Biotechnology, Japan
Scientifically exploring organic farming through field agro-omics
September 7, 2018
15th Meeting of JBA Plant Bio Research Group
Scientifically exploring organic farming through field agro-omics
April 18, 2018
Tokushima Organic Festa
Field agro-omics research
February 24, 2018
Okayama University Plant Research Center / Joint Research Center Workshop
Scientifically exploring organic farming through field agro-omics
December 26, 2017
1st Annual Meeting of the Japanese Society of Symbiotic Biology
Parasitic plants
– Phenotypic plasticity and gene expression dynamics in host–parasite interactions –
November 19, 2017
23rd Annual Meeting of the Japanese Nematological Society
Comparative transcriptome analysis in evolutionary developmental biology of plants
September 2, 2015
Other Achievements
Research activities reported in Nihon Keizai Shimbun
December 4, 2023
Received Special Academic Award from the Root Research Society of Japan
September 18, 2022
Received Young Scientist Poster Award at the 2022 Tokyo Meeting of the Japanese Society of Soil Science and Plant Nutrition
September 14, 2022
Research activities reported in Nihon Keizai Shimbun, Nikkei Sangyo Shimbun, Jomo Shimbun, Kyoto Shimbun, Ise Shimbun, Ehime Shimbun, Saga Shimbun, Yamanashi Nichinichi Shimbun, Chugoku Shimbun, Chunichi Shimbun, Kochi Shimbun, Nara Shimbun, and Chiba Nippo
March 15–30, 2022
Research activities reported in Yomiuri Shimbun
March 25, 2021
Research activities reported in Nikkei Biotechnology
March 2, 2021
Research activities reported on the website of the Bio-oriented Technology Research Advancement Institution (BRAIN)
October 1, 2020
Research activities reported in Kagaku Shimbun
June 26, 2020
Research activities reported on the website of the Bio-oriented Technology Research Advancement Institution (BRAIN)
June 23, 2020
Research activities reported in Agricultural Cooperative Newspaper
June 15, 2020
Research activities reported in Nikkei Biotechnology, Chemical Daily, Fukushima Minyu, and Fukushima Minpo
June 9, 2020
Research activities reported in SMART AGRI
February 21, 2020
Research activities reported in SMART AGRI
February 19, 2020
Research activities reported in SMART AGRI
February 17, 2020
Research activities reported in Japan Agricultural News
March 28, 2018
Research activities reported in Japan Agricultural News
August 29, 2017