Department of Biology

Research Output 1978 2019

2019

A newly identified mutation in the PEX26 gene is associated with a milder form of Zellweger spectrum disorder

Tanaka, A. J., Okumoto, K., Tamura, S., Abe, Y., Hirsch, Y., Deng, L., Ekstein, J., Chung, W. K. & Fujiki, Y., Jan 1 2019, In : Cold Spring Harbor Molecular Case Studies. 5, 1, a003483.

Research output: Contribution to journalArticle

Zellweger Syndrome
Peroxisomes
Fibroblasts
Mutation
Genes

A new species of gynochthodes (rubiaceae), g. honbaensis from hon ba nature reserve, southern Vietnam

Oguri, E., Tagane, S., Dang, V. S., Yang, C. J., Toyama, H., Tran, H., Murakami, N. & Yahara, T., Jun 18 2019, In : Phytotaxa. 406, 3, p. 213-217 5 p.

Research output: Contribution to journalArticle

Rubiaceae
nature reserve
Vietnam
conservation areas
Andaman and Nicobar Islands

Autophagy controls reactive oxygen species homeostasis in guard cells that is essential for stomatal opening

Yamauchi, S., Mano, S., Oikawa, K., Hikino, K., Teshima, K. M., Kimori, Y., Nishimura, M., Shimazaki, K. I. & Takemiya, A., Sep 17 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 38, p. 19187-19192 6 p.

Research output: Contribution to journalArticle

Open Access
Autophagy
Reactive Oxygen Species
Homeostasis
Peroxisomes
Arabidopsis

Cell Adhesion Structures in Epithelial Cells Are Formed in Dynamic and Cooperative Ways

Shigetomi, K. & Ikenouchi, J., Jul 1 2019, In : BioEssays. 41, 7, 1800227.

Research output: Contribution to journalReview article

Adherens Junctions
Cell adhesion
Cell Adhesion
Tight Junctions
Epithelial Cells

CLEC3A, MMP7, and LCN2 as novel markers for predicting recurrence in resected G1 and G2 pancreatic neuroendocrine tumors

Miki, M., ono, T., Fujimori, N., Takaoka, T., Kawabe, K., Miyasaka, Y., Takao, O., Saito, D., Nakamura, M., Ohkawa, Y., Oda, Y., Suyama, M., Ito, T. & Ogawa, Y., Jul 1 2019, In : Cancer Medicine. 8, 8, p. 3748-3760 13 p.

Research output: Contribution to journalArticle

Open Access
Matrix Metalloproteinase 7
Neuroendocrine Tumors
Recurrence
Genes
Neoplasms

Corrigendum to “Differential genomic destabilisation in human cells with pathogenic MSH2 mutations introduced by genome editing” [Exp. Cell Res. 377 (2019) 24–35](S0014482719300825)(10.1016/j.yexcr.2019.02.020)

Hayashida, G., Shioi, S., Hidaka, K., Fujikane, R., Hidaka, M., Tsurimoto, T., Tsuzuki, T., Oda, S. & Nakatsu, Y., Oct 1 2019, In : Experimental Cell Research. 383, 1, 111432.

Research output: Contribution to journalComment/debate

Flap Endonucleases
Escherichia coli
Methylnitrosourea
Mutation
Genomic Instability

Differential genomic destabilisation in human cells with pathogenic MSH2 mutations introduced by genome editing

Hayashida, G., Shioi, S., Hidaka, K., Fujikane, R., Hidaka, M., Tsurimoto, T., Tsuzuki, T., Oda, S. & Nakatsu, Y., Apr 15 2019, In : Experimental Cell Research. 377, 1-2, p. 24-35 12 p.

Research output: Contribution to journalArticle

Open Access
Microsatellite Instability
DNA Mismatch Repair
Mutation
Microsatellite Repeats
Hereditary Nonpolyposis Colorectal Neoplasms

Diversity and evolution of bacterial symbionts in the gut symbiotic organ of jewel stinkbugs (Hemiptera: Scutelleridae)

Hosokawa, T., Imanishi, M., Koga, R. & Fukatsu, T., Nov 1 2019, In : Applied Entomology and Zoology. 54, 4, p. 359-367 9 p.

Research output: Contribution to journalArticle

Scutelleridae
symbionts
Hemiptera
digestive system
Cydnidae
2 Citations (Scopus)

Drought and cool temperature cue general flowering synergistically in the aseasonal tropical forests of Southeast Asia

Satake, A., Chen, Y. Y., Fletcher, C. & Kosugi, Y., Jan 1 2019, In : Ecological Research. 34, 1, p. 40-49 10 p.

Research output: Contribution to journalArticle

South East Asia
tropical forests
tropical forest
flowering
drought
1 Citation (Scopus)
Open Access
Nucleoside-Diphosphate Kinase
nucleoside-diphosphate kinase
diphosphates
nucleosides
Guanosine Triphosphate
5 Citations (Scopus)

Epidermal growth factor receptor is a host-entry cofactor triggering hepatitis B virus internalization

Iwamoto, M., Saso, W., Sugiyama, R., Ishii, K., Ohki, M., Nagamori, S., Suzuki, R., Aizaki, H., Ryo, A., Yun, J. H., Park, S. Y., Ohtani, N., Muramatsu, M., Iwami, S., Tanaka, Y., Sureau, C., Wakita, T. & Watashi, K., Jan 1 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 17, p. 8487-8492 6 p.

Research output: Contribution to journalArticle

Virus Internalization
Epidermal Growth Factor Receptor
Hepatitis B virus
Virus Diseases
Peptides
1 Citation (Scopus)

Epithelial-to-mesenchymal transition–based morphogenesis of dorsal mesentery and gonad

Yoshino, T. & Saito, D., Aug 1 2019, In : Seminars in Cell and Developmental Biology. 92, p. 105-112 8 p.

Research output: Contribution to journalReview article

Mesentery
Epithelial-Mesenchymal Transition
Gonads
Morphogenesis
Ovary

Expression of genes and proteins involved in arsenic respiration and resistance in dissimilatory arsenate-reducing Geobacter sp. strain OR-1

Tsuchiya, T., Ehara, A., Kasahara, Y., Hamamura, N. & Amachi, S., Jul 1 2019, In : Applied and environmental microbiology. 85, 14, e00763-19.

Research output: Contribution to journalArticle

Geobacter
arsenates
Arsenic
arsenate
arsenic

Field transcriptome revealed a novel relationship between nitrate transport and flowering in Japanese beech

Satake, A., Kawatsu, K., Teshima, K., Kabeya, D. & Han, Q., Dec 1 2019, In : Scientific reports. 9, 1, 4325.

Research output: Contribution to journalArticle

Open Access
Fagus
Transcriptome
Nitrates
Florigen
Physiological Phenomena

FLORA of NAM KADING NATIONAL PROTECTED AREA VI: DIDYMOCARPUS MIDDLETONII (GESNERIACEAE), A NEW SPECIES from LIMESTONE

Souvannakhoummane, K., Souladeth, P., Tagane, S., Yang, C. J. & Yahara, T., Mar 1 2019, In : Edinburgh Journal of Botany. 76, 1, p. 45-54 10 p.

Research output: Contribution to journalReview article

Didymocarpus
Gesneriaceae
protected area
conservation areas
new species

Genotype-aggregated planting improves yield in Jerusalem artichoke (Helianthus tuberosus) due to self/non-self-discrimination

Fukano, Y., Guo, W., Noshita, K., Hashida, S. & Kamikawa, S., Mar 2019, In : Evolutionary Applications. 12, 3, p. 508-518 11 p.

Research output: Contribution to journalArticle

Open Access
Helianthus tuberosus
Jerusalem artichokes
Helianthus
genotype
Genotype

Heterochromatin suppresses gross chromosomal rearrangements at centromeres by repressing Tfs1/TFIIS-dependent transcription

Okita, A. K., Zafar, F., Su, J., Weerasekara, D., Kajitani, T., Takahashi, T. S., Kimura, H., Murakami, Y., Masukata, H. & Nakagawa, T., 2019, In : Communications biology. 2, p. 17

Research output: Contribution to journalArticle

Heterochromatin
Centromere
RNA Polymerase II
Methylation
Mutation
1 Citation (Scopus)

Heterochromatin suppresses gross chromosomal rearrangements at centromeres by repressing Tfs1/TFIIS-dependent transcription

Okita, A. K., Zafar, F., Su, J., Weerasekara, D., Kajitani, T., Takahashi, T., Kimura, H., Murakami, Y., Masukata, H. & Nakagawa, T., Dec 1 2019, In : Communications Biology. 2, 1, 17.

Research output: Contribution to journalArticle

Open Access
Methylation
Heterochromatin
RNA Polymerase II
Centromere
centromeres

Individual and sexual differences in time to habituate to food-stimuli presentation of potential prey in hyla japonica

Tanabe, S., Kasuya, E. & Miyatake, T., Feb 1 2019, In : Current Herpetology. 38, 1, p. 14-22 9 p.

Research output: Contribution to journalArticle

Hyla
Hylidae
linear models
gender
animals

Inferring the demographic history of Japanese cedar, Cryptomeria japonica, using amplicon sequencing

Moriguchi, N., Uchiyama, K., Miyagi, R., Moritsuka, E., Takahashi, A., Tamura, K., Tsumura, Y., Teshima, K. M., Tachida, H. & Kusumi, J., Jan 1 2019, In : Heredity. 123, 3, p. 371-383 13 p.

Research output: Contribution to journalArticle

Cryptomeria
History
Demography
Japan
Gene Flow
1 Citation (Scopus)

Involvement of Myt1 kinase in the G2 phase of the first cell cycle in Xenopus laevis

Yoshitome, S., Aiba, Y., Yuge, M., Furuno, N., Watanabe, M. & Nakajo, N., Jul 12 2019, In : Biochemical and Biophysical Research Communications. 515, 1, p. 139-144 6 p.

Research output: Contribution to journalArticle

G2 Phase
Xenopus laevis
Cell Cycle
Phosphotransferases
Cells
1 Citation (Scopus)

On the use of r and r squared in correlation and regression

Kasuya, E., Jan 2019, In : Ecological Research. 34, 1, p. 235-236 2 p.

Research output: Contribution to journalArticle

Phenology in the tropics: Physiological controls revealed by long-term monitoring and predictive models

Satake, A. & Kitajima, K., Jan 2019, In : Ecological Research. 34, 1, p. 18-19 2 p.

Research output: Contribution to journalArticle

phenology
tropics
monitoring

Population genetic analysis of two species of Distylium: D. racemosum growing in East Asian evergreen broad-leaved forests and D. lepidotum endemic to the Ogasawara (Bonin) Islands

Yagi, H., Xu, J., Moriguchi, N., Miyagi, R., Moritsuka, E., Sato, E., Sugai, K., Setsuko, S., Torimaru, T., Yamamoto, S. I., Takahashi, A., Tamura, K., Tachida, H., Teshima, K. M. & Kusumi, J., Dec 1 2019, In : Tree Genetics and Genomes. 15, 6, 77.

Research output: Contribution to journalArticle

Distylium
Distylium racemosum
broadleaved evergreen forests
broad-leaved forest
Tokyo

Revealing uninfected and infected target cell dynamics from peripheral blood data in highly and less pathogenic simian/human immunodeficiency virus infected Rhesus macaque

Hara, A., Iwanami, S., Ito, Y., Miura, T., Nakaoka, S. & Iwami, S., Oct 21 2019, In : Journal of Theoretical Biology. 479, p. 29-36 8 p.

Research output: Contribution to journalArticle

Simian immunodeficiency virus
Simian Immunodeficiency Virus
Human immunodeficiency virus
Macaca mulatta
Viruses

Specific basic patch-dependent multimerization of Saccharomyces cerevisiae ORC on single-stranded DNA promotes ATP hydrolysis

Kawakami, H., Muraoka, R., Ohashi, E., Kawabata, K., Kanamoto, S., Chichibu, T., Tsurimoto, T. & Katayama, T., Sep 1 2019, In : Genes to Cells. 24, 9, p. 608-618 11 p.

Research output: Contribution to journalArticle

Origin Recognition Complex
Single-Stranded DNA
Saccharomyces cerevisiae
Hydrolysis
Adenosine Triphosphate
1 Citation (Scopus)

Synchronized expression of FLOWERING LOCUS T between branches underlies mass flowering in Fagus crenata

Satake, A., Kawatsu, K., Chiba, Y., Kitamura, K. & Han, Q., Jan 2019, In : Population Ecology. 61, 1, p. 5-13 9 p.

Research output: Contribution to journalArticle

Open Access
Fagus crenata
gene expression
flowering
synchrony
masting
1 Citation (Scopus)

The potential role of temperate Japanese regions as refugia for the coral Acropora hyacinthus in the face of climate change

Nakabayashi, A., Yamakita, T., Nakamura, T., Aizawa, H., Kitano, Y. F., Iguchi, A., Yamano, H., Nagai, S., Agostini, S., Teshima, K. & Yasuda, N., Dec 1 2019, In : Scientific reports. 9, 1, 1892.

Research output: Contribution to journalArticle

Open Access
Hyacinthus
Anthozoa
Climate Change
Coral Reefs
Population
2 Citations (Scopus)
Interneurons
Neuropil
Neurons
Brain
Mantodea

UV bullseye contrast of Hemerocallis flowers attracts hawkmoths but not swallowtail butterflies

Hirota, S. K., Miki, N., Yasumoto, A. A. & Yahara, T., Jan 2019, In : Ecology and Evolution. 9, 1, p. 52-64 13 p.

Research output: Contribution to journalArticle

Hemerocallis
Papilionidae
butterfly
flower
flowers
14 Citations (Scopus)

What is cost-efficient phenotyping? Optimizing costs for different scenarios

Reynolds, D., Baret, F., Welcker, C., Bostrom, A., Ball, J., Cellini, F., Lorence, A., Chawade, A., Khafif, M., Noshita, K., Mueller-Linow, M., Zhou, J. & Tardieu, F., May 2019, In : Plant Science. 282, p. 14-22 9 p.

Research output: Contribution to journalArticle

sensors (equipment)
phenotype
Costs and Cost Analysis
labor
hands
2018
5 Citations (Scopus)

Adherens junctions influence tight junction formation via changes in membrane lipid composition

Shigetomi, K., Ono, Y., Inai, T. & Ikenouchi, J., Jul 1 2018, In : Journal of Cell Biology. 217, 7, p. 2373-2381 9 p.

Research output: Contribution to journalArticle

Adherens Junctions
Tight Junctions
Membrane Lipids
Cholesterol
Catenins
1 Citation (Scopus)

Aerial imagery analysis – Quantifying appearance and number of sorghum heads for applications in breeding and agronomy

Guo, W., Zheng, B., Potgieter, A. B., Diot, J., Watanabe, K., Noshita, K., Jordan, D. R., Wang, X., Watson, J., Ninomiya, S. & Chapman, S. C., Jan 1 2018, In : Frontiers in Plant Science. 871, 1544.

Research output: Contribution to journalArticle

agronomy
Sorghum (Poaceae)
image analysis
breeding
plant morphology

An albino mutant of the Japanese rat snake (Elaphe climacophora) carries a nonsense mutation in the tyrosinase gene

Iwanishi, S., Zaitsu, S., Shibata, H. & Nitasaka, E., Jan 1 2018, In : Genes and Genetic Systems. 93, 4, p. 163-167 5 p.

Research output: Contribution to journalArticle

Monophenol Monooxygenase
Snakes
Nonsense Codon
Pets
Genes

A newly isolated Pex7-binding, atypical PTS2 protein P7BP2 is a novel dynein-type AAA+ protein

Niwa, H., Miyauchi-Nanri, Y., Okumoto, K., Mukai, S., Noi, K., Ogura, T. & Fujiki, Y., Dec 1 2018, In : Journal of Biochemistry. 164, 6, p. 437-447 11 p.

Research output: Contribution to journalArticle

Dyneins
Proteins
Peroxisomes
Sequence Alignment
Protein Transport

A new record of gastrodia albida T. C. Hsu & C. M. Kuo (Orchidaceae) from Yaku Island, Japan

Yahara, T. & Nakajima, M., Jan 1 2018, In : Acta Phytotaxonomica et Geobotanica. 69, 3, p. 203-208 6 p.

Research output: Contribution to journalArticle

Gastrodia
Orchidaceae
new record
Japan
lips

A new species and two new records of Quercus (Fagaceae) from northern Vietnam

Binh, H. T., Ngoc, N. V., Bon, T. N., Tagane, S., Suyama, Y. & Yahara, T., Jan 1 2018, In : PhytoKeys. 92, p. 1-15 15 p.

Research output: Contribution to journalArticle

Fagaceae
nut
nuts
Vietnam
new record
4 Citations (Scopus)

An improved inverse-type Ca2+ indicator can detect putative neuronal inhibition in Caenorhabditis elegans by increasing signal intensity upon Ca2+ decrease

Hara-Kuge, S., Nishihara, T., Matsuda, T., Kitazono, T., Teramoto, T., Nagai, T. & Ishihara, T., Apr 1 2018, In : PloS one. 13, 4, e0194707.

Research output: Contribution to journalArticle

Caenorhabditis elegans
Neurons
Fluorescence
calcium
Action Potentials
4 Citations (Scopus)

Anterograde and retrograde signaling by an Aplysia neurotrophin forms a transsynaptic functional unit

Jin, I., Udo, H., Kassabov, S., Kosmidis, S., Zhu, H., Kandel, E. R. & Hawkins, R. D., Nov 13 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 46, p. E10951-E10960

Research output: Contribution to journalArticle

Aplysia
Nerve Growth Factors
Synapses
Autocrine Communication
Neurons
1 Citation (Scopus)

Anthocyanin mutants of japanese and common morning glories exhibit normal proanthocyanidin accumulation in seed coats

Park, K. I., Nitasaka, E. & Hoshino, A., Jan 1 2018, In : Plant Biotechnology. 35, 3, p. 259-266 8 p.

Research output: Contribution to journalArticle

Ipomoea nil
Anthocyanins
proanthocyanidins
anthocyanins
Seeds
1 Citation (Scopus)

A PDE multiscale model of hepatitis C virus infection can be transformed to a system of ODEs

Kitagawa, K., Nakaoka, S., Asai, Y., Watashi, K. & Iwami, S., Jul 7 2018, In : Journal of Theoretical Biology. 448, p. 80-85 6 p.

Research output: Contribution to journalArticle

Multiscale Model
Hepatitis C virus
Virus Diseases
Viruses
System of Ordinary Differential Equations
2 Citations (Scopus)

A phytochrome-B-mediated regulatory mechanism of phosphorus acquisition

Sakuraba, Y., Kanno, S., Mabuchi, A., Monda, K., Iba, K. & Yanagisawa, S., Dec 1 2018, In : Nature Plants. 4, 12, p. 1089-1101 13 p.

Research output: Contribution to journalArticle

phytochrome
phosphates
phosphorus
uptake mechanisms
Arabidopsis

Application of a deep learning for occupational health and safety recognition: a pilot study in a logistics industry

Uchida, M., Noshita, K., Tsutsui, Y. & Koyama, H., Dec 5 2018, In : Sangyo eiseigaku zasshi = Journal of occupational health. 60, 6, p. 191-195 5 p.

Research output: Contribution to journalArticle

Occupational Health
Industry
Learning
Recognition (Psychology)

A taxonomic study of Quercus langbianensis complex based on morphology and DNA barcodes of classic and next generation sequences

Binh, H. T., Ngoc, N. V., Tagane, S., Toyama, H., Mase, K., Mitsuyuki, C., Strijk, J. S., Suyama, Y. & Yahara, T., Feb 7 2018, In : PhytoKeys. 95, p. 37-70 34 p.

Research output: Contribution to journalArticle

DNA barcoding
Quercus
DNA
Cambodia
new species
3 Citations (Scopus)

Autocrine signaling by an Aplysia neurotrophin forms a presynaptic positive feedback loop

Jin, I., Udo, H., Nicholls, R., Zhu, H., Kandel, E. R. & Hawkins, R. D., Nov 20 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 47, p. E11168-E11177

Research output: Contribution to journalArticle

Autocrine Communication
Aplysia
Nerve Growth Factors
Synapses
Neuronal Plasticity

Aversive Learning in the Praying Mantis (Tenodera aridifolia), a Sit and Wait Predator

Carle, T., Horiwaki, R., Hurlbert, A. & Yamawaki, Y., Mar 1 2018, In : Journal of Insect Behavior. 31, 2, p. 158-175 18 p.

Research output: Contribution to journalArticle

Tenodera aridifolia
Mantis
bee
Apoidea
learning

Cell death or survival against oxidative stress

Miyata, N., Okumoto, K. & Fujiki, Y., Jan 1 2018, Subcellular Biochemistry. Springer New York, p. 463-471 9 p. (Subcellular Biochemistry; vol. 89).

Research output: Chapter in Book/Report/Conference proceedingChapter

Peroxisomes
Oxidative stress
Cell death
Catalase
Cell Survival
13 Citations (Scopus)

Cell surface flip-flop of phosphatidylserine is critical for PIEZO1-mediated myotube formation

Tsuchiya, M., Hara, Y., Okuda, M., Itoh, K., Nishioka, R., Shiomi, A., Nagao, K., Mori, M., Mori, Y., Ikenouchi, J., Suzuki, R., Tanaka, M., Ohwada, T., Aoki, J., Kanagawa, M., Toda, T., Nagata, Y., Matsuda, R., Takayama, Y., Tominaga, M. & 1 others, Umeda, M., Dec 1 2018, In : Nature communications. 9, 1, 2049.

Research output: Contribution to journalArticle

flip-flops
Flip flop circuits
Phosphatidylserines
Skeletal Muscle Fibers
Fusion reactions
3 Citations (Scopus)

Characterization of peach tree crown by using high-resolution images from an unmanned aerial vehicle

Mu, Y., Fujii, Y., Takata, D., Zheng, B., Noshita, K., Honda, K., Ninomiya, S. & Guo, W., Dec 1 2018, In : Horticulture Research. 5, 1, 74.

Research output: Contribution to journalArticle

Orchards
Image resolution
Unmanned aerial vehicles (UAV)
Crowns
peaches
global warming
gene expression
flowering
plant response
mathematical models