Author

J. Ito

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Microbiology· 29 Cancer Biology· 2 Evolutionary Biology· 2 Cell Biology· 1

Signature Assays, Organisms & Methods

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Research Focus:host-pathogen & immune response· 26 Organism:human· 23 Approach:experimental assay· 22 Approach:statistical model· 10 Organism:virus· 9 Assay:proteomics· 6 Research Focus:chromatin & epigenetic regulation· 5 Research Focus:cell type annotation· 4

Frequent Co-Authors

K. Sato· 27 shared The Genotype to Phenotype Japan (G2P-Japan) Consortium· 24 shared K. Uriu· 20 shared Y. Kosugi· 16 shared H. Asakura· 12 shared K. Sadamasu· 12 shared K. Yoshimura· 12 shared M. Nagashima· 11 shared

Activity by Year

2018-2024 · peak 12/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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27 shared papersMicrobiology

K. Sato

Mutual co-authors in cluster

Author profile →

34 papers

Recent·Most cited

Virological characteristics of the SARS-CoV-2 KP.3.1.1 variant

Y. Kaku, K. Uriu, K. Okumura, The Genotype to Phenotype Japan (G2P-Japan) Consortium, J. Ito, K. Sato

This paper investigates the virological properties of the SARS-CoV-2 KP.3.1.1 variant, finding it has higher transmissibility and immune evasion compared to KP.3.

bioRxiv · Jul 16, 2024Microbiology

Virological characteristics of the SARS-CoV-2 KP.3, LB.1 and KP.2.3 variants

Y. Kaku, M. S. Yo, J. E. Tolentino, K. Uriu, K. Okumura, The Genotype to Phenotype Japan (G2P-Japan) Consortium, J. Ito, K. Sato

This study evaluates the virological properties of SARS-CoV-2 variants KP.3, LB.1, and KP.2.3, finding higher reproduction numbers and immune evasion compared to JN.1.

bioRxiv · Jun 5, 2024Microbiology

PRDX6 dictates ferroptosis sensitivity by directing cellular selenium mobilization

J. Ito, T. Nakamura, T. Toyama, S. Doll, M. Suzuki, W. Zhang, J. Zheng, D. Trümbach, N. Yamada, K. Ono, A. Wahida, Y. Saito, K. Nakagawa, E. Mishima, M. Conrad

The paper shows PRDX6 influences ferroptosis sensitivity by managing cellular selenium levels, which affects GPX4 function.

bioRxiv · Jun 4, 2024Cell Biology

Landscape of Evolutionary Arms Races between Transposable Elements and KRAB-ZFP Family

M. Kosuge, J. Ito, M. Hamada

The paper investigates the evolutionary arms race between transposable elements and KRAB-ZFP proteins using ChIP-seq data, revealing new instances and regulatory impacts.

bioRxiv · May 20, 2024Evolutionary Biology

Virological characteristics of the SARS-CoV-2 KP.2 variant

Y. Kaku, K. Uriu, Y. Kosugi, K. Okumura, D. Yamasoba, Y. Uwamino, J. Kuramochi, K. Sadamasu, K. Yoshimura, M. Nagashima, H. Asakura, The Genotype to Phenotype Japan (G2P-Japan) Consortium, J. Ito, K. Sato

This study investigates the virological properties of the SARS-CoV-2 KP.2 variant, finding it has higher viral fitness and immune resistance compared to JN.1, contributing to its rapid spread.

bioRxiv · Apr 24, 2024Microbiology

A Protein Language Model for Exploring Viral Fitness Landscapes

J. Ito, A. Strange, W. Liu, G. Joas, S. Lytras, The Genotype to Phenotype Japan (G2P-Japan) Consortium, K. Sato

This paper introduces CoVFit, a protein language model that predicts SARS-CoV-2 variant fitness using spike protein sequences, identifying fitness-enhancing mutations and predicting emerging variants.

bioRxiv · Mar 15, 2024Microbiology

Virological characteristics of the SARS-CoV-2 JN.1 variant

Y. Kaku, K. Okumura, M. Padilla-Blanco, Y. Kosugi, K. Uriu, A. A. Hinay, L. Chen, A. Plianchaisuk, K. Kobiyama, K. J. Ishii, The Genotype to Phenotype Japan (G2P-Japan) Consortium, J. Zahradnik, J. Ito, K. Sato

This study investigates the virological properties of the SARS-CoV-2 JN.1 variant, focusing on its mutations and potential immune evasion capabilities.

bioRxiv · Dec 8, 2023Microbiology

Virological characteristics of the SARS-CoV-2 Omicron HK.3 variant harboring the "FLip" substitution

Y. Kosugi, A. Plianchaisuk, O. Putri, K. Uriu, Y. Kaku, A. A. Hinay, L. Chen, J. Kuramochi, K. Sadamasu, K. Yoshimura, H. Asakura, M. Nagashima, The Genotype to Phenotype Japan (G2P-Japan) Consortium, J. Ito, K. Sato

This study investigates the virological properties of the SARS-CoV-2 HK.3 variant, a FLip variant with substitutions S:L455F and S:F456L, to assess its growth advantage.

bioRxiv · Nov 14, 2023 · PreprintMicrobiology

Virological characteristics of the SARS-CoV-2 BA.2.86 variant

T. Tamura, K. Mizuma, H. Nasser, S. Deguchi, M. Padilla-Blanco, K. Uriu, J. E. M. Tolentino, S. Tsujino, R. Suzuki, I. Kojima, N. Nao, R. Shimizu, M. Jonathan, Y. Kosugi, Z. Guo, , K. Sato

This study investigates the virological characteristics of the SARS-CoV-2 BA.2.86 variant, finding it has higher reproduction number than EG.5.1 but lower pathogenicity and replication capacity compared to BA.2.

bioRxiv · Nov 2, 2023Microbiology

Virological characteristics of the SARS-CoV-2 Omicron EG.5.1 variant

S. Tsujino, S. Deguchi, T. Nomai, M. Padilla-Blanco, A. Plianchaisuk, L. Wang, M. M. Begum, K. Uriu, K. Mizuma, N. Nao, I. Kojima, T. Tsubo, J. Li, Y. Matsumura, M. Nagao, , Za

The paper investigates the virological features of the SARS-CoV-2 EG.5.1 variant, finding its fitness and antiviral sensitivity comparable to XBB.1.5, with structural differences in spike proteins.

bioRxiv · Oct 19, 2023Microbiology

Transmissibility, infectivity, and immune resistance of the SARS-CoV-2 BA.2.86 variant

K. Uriu, J. Ito, Y. Kosugi, Y. L. Tanaka, Y. Mugita, Z. Guo, A. A. Hinay, O. Putri, Y. Kim, R. Shimizu, M. M. Begum, M. Jonathan, The Genotype to Phenotype Japan (G2P-Japan) Consortium, A. Saito, T. Ikeda, K. Sato

This study investigates the transmissibility, infectivity, and immune resistance of the SARS-CoV-2 BA.2.86 variant, finding it to be highly immune evasive but with lower infectivity compared to other variants.

bioRxiv · Sep 7, 2023 · PreprintMicrobiology

SARS-CoV-2 ORF7a mutation found in BF.5 and BF.7 sublineages impacts its functions

U. Timilsina, S. Duffy, A. Plianchaisuk, J. Ito, K. Sato, S. Stavrou

The paper evaluates the effect of the H47Y mutation in ORF7a of SARS-CoV-2 BF.5 and BF.7 sublineages on its three main functions, finding it impairs IFN-I antagonism and MHC-I downregulation but not anti-SERINC5 function.

bioRxiv · Sep 6, 2023Microbiology

Virological characteristics of the SARS-CoV-2 XBB.1.5 variant

T. Tamura, T. Irie, S. Deguchi, H. Yajima, M. Tsuda, H. Nasser, K. Mizuma, A. Plianchaisuk, S. Suzuki, K. Uriu, M. M. Begum, R. Shimizu, M. Jonathan, R. Suzuki, T. Kondo, , T. Fukuhara

The paper analyzes the virological characteristics of the SARS-CoV-2 XBB.1.5 variant, showing reduced pathogenicity and impaired MHC expression due to mutations in ORF8 and S.

bioRxiv · Aug 16, 2023 · PreprintMicrobiology

Antiviral efficacy of the SARS-CoV-2 XBB breakthrough infection sera against Omicron subvariants including EG.5

Y. Kaku, Y. Kosugi, K. Uriu, J. Ito, J. Kuramochi, K. Sadamasu, K. Yoshimura, H. Asakura, M. Nagashima, The Genotype to Phenotype Japan (G2P-Japan) Consortium, K. Sato

This study evaluates the antiviral efficacy of XBB breakthrough infection sera against EG.5.1 and other Omicron subvariants, finding comparable neutralization titers and suggesting immune evasion is not the main driver of EG.5.1's spread.

bioRxiv · Aug 8, 2023 · PreprintMicrobiology

Virological characteristics of the SARS-CoV-2 Omicron XBB.1.16 variant

D. Yamasoba, K. Uriu, A. Plianchaisuk, Y. Kosugi, L. Pan, J. Zahradnik, The Genotype to Phenotype Japan (G2P-Japan) Consortium, J. Ito, K. Sato

This study characterizes the virological features of the SARS-CoV-2 Omicron XBB.1.16 variant, showing increased transmissibility and immune evasion compared to previous variants.

The Lancet Infectious Diseases · Jun 1, 2023Peer-reviewedMicrobiology

Determination of the factors responsible for host tropism of SARS-CoV-2-related bat coronaviruses

S. Fujita, Y. Kosugi, I. Kimura, K. Tokunaga, The Genotype to Phenotype Japan (G2P-Japan) Consortium, J. Ito, K. Sato

The paper identifies specific residues in the spike protein and ACE2 receptor that determine the host tropism of two SARS-CoV-2-related bat coronaviruses.

bioRxiv · Apr 13, 2023 · PreprintMicrobiology

ORF3c is expressed in SARS-CoV-2 infected cells and suppresses immune activation by inhibiting innate sensing

M. Mueller, A. Herrmann, S. Fujita, J. E. Kolberg, C. Kruth, A. Strange, M. Schneider, J. Ito, A. Ensser, The Genotype to Phenotype Japan (G2P-Japan) Consortium, K. Sato, D. Sauter

This study identifies ORF3c as an immune evasion factor of SARS-CoV-2 that suppresses innate sensing by inhibiting RIG-I and MDA5 signaling.

bioRxiv · Feb 27, 2023Microbiology

Enhanced transmissibility, infectivity and immune resistance of the SARS-CoV-2 Omicron XBB.1.5 variant

K. Uriu, J. Ito, J. Zahradnik, S. Fujita, Y. Kosugi, G. Schreiber, The Genotype to Phenotype Japan (G2P-Japan) Consortium, K. Sato

This study evaluates the transmissibility, infectivity, and immune resistance of the SARS-CoV-2 Omicron XBB.1.5 variant, finding it more transmissible and resistant than previous variants.

bioRxiv · Jan 16, 2023Microbiology

Virological characteristics of the SARS-CoV-2 XBB variant derived from recombination of two Omicron subvariants

T. Tamura, J. Ito, K. Uriu, J. Zahradnik, I. Kida, H. Nasser, M. Shofa, Y. Oda, S. Lytras, N. Nao, Y. Itakura, S. Deguchi, R. Suzuki, L. Wang, M. M. Begum, , K. Sato

This study identifies XBB as a SARS-CoV-2 variant resulting from recombination of BA.2 subvariants, showing increased resistance to neutralizing antibodies and enhanced fusogenicity compared to BA.2.75.

bioRxiv · Dec 27, 2022 · PreprintMicrobiology

Single-cell transcriptome analysis illuminating the characteristics of species-specific innate immune responses against viral infections

H. Aso, J. Ito, H. Ozaki, Y. Kashima, Y. Suzuki, Y. Koyanagi, K. Sato

This study compares immune responses between primates and bats using single-cell RNA sequencing, revealing differences in antiviral gene induction and monocyte subsets.

bioRxiv · Dec 6, 2022Microbiology

Convergent evolution of the SARS-CoV-2 Omicron subvariants leading to the emergence of BQ.1.1 variant

J. Ito, R. Suzuki, K. Uriu, Y. Itakura, J. Zahradnik, S. Deguchi, L. Wang, S. Lytras, T. Tamura, I. Kida, H. Nasser, M. Shofa, M. M. Begum, M. Tsuda, Y. Oda, , K. Sato

The paper investigates convergent evolution in SARS-CoV-2 Omicron subvariants, identifying five critical spike protein substitutions in BQ.1.1 that enhance viral fitness and antibody resistance.

bioRxiv · Dec 5, 2022Microbiology

Comparative pathogenicity of SARS-CoV-2 Omicron subvariants including BA.1, BA.2, and BA.5

T. Tamura, D. Yamasoba, Y. Oda, J. Ito, T. Kamasaki, N. Nao, R. Hashimoto, Y. Fujioka, R. Suzuki, L. Wang, H. Ito, I. Kimura, I. Yokota, M. Kishimoto, M. Tsuda, , T. Fukuhara

This study compares the pathogenicity of SARS-CoV-2 Omicron subvariants BA.1, BA.2, and BA.5, finding BA.5 is more fusogenic and induces stronger inflammation than earlier variants.

bioRxiv · Aug 5, 2022Microbiology

Virological characteristics of the SARS-CoV-2 Omicron BA.2.75

A. Saito, T. Tamura, J. Zahradnik, S. Deguchi, K. Tabata, I. Kimura, J. Ito, H. Nasser, M. Toyoda, K. Nagata, K. Uriu, Y. Kosugi, S. Fujita, D. Yamasoba, M. Shofa, , Kei Sato

This study investigates the virological characteristics of SARS-CoV-2 Omicron BA.2.75, finding it has higher transmissibility and pathogenicity compared to BA.2 and BA.5, but similar sensitivity to antiviral drugs.

bioRxiv · Jul 14, 2022Microbiology

Virological characteristics of the novel SARS-CoV-2 Omicron variants including BA.2.12.1, BA.4 and BA.5

I. Kimura, D. Yamasoba, T. Tamura, N. Nao, Y. Oda, S. Mitoma, J. Ito, H. Nasser, J. Zahradnik, K. Uriu, S. Fujita, Y. Kosugi, L. Wang, M. Tsuda, M. Kishimoto, , K. Sato

This study analyzes the virological characteristics of SARS-CoV-2 Omicron variants BA.2.12.1, BA.4, and BA.5, finding they have higher reproduction numbers, reduced neutralization by prior immunity, increased replication in lung cells, and greater pathogenicity in hamsters compared to BA.2.

bioRxiv · May 26, 2022Microbiology

Sensitivity of novel SARS-CoV-2 Omicron subvariants, BA.2.11, BA.2.12.1, BA.4 and BA.5 to therapeutic monoclonal antibodies

D. Yamasoba, Y. Kosugi, I. Kimura, S. Fujita, K. Uriu, J. Ito, K. Sato, The Genotype to Phenotype Japan (G2P-Japan) Consortium

This study evaluates the sensitivity of new Omicron subvariants to eight therapeutic monoclonal antibodies, finding increased resistance in BA.4/5 to cilgavimab compared to BA.2.

bioRxiv · May 3, 2022Microbiology

SARS-CoV-2 spike S375F mutation characterizes the Omicron BA.1 variant

I. Kimura, D. Yamasoba, H. Nasser, J. Zahradnik, Y. Kosugi, J. Wu, K. Nagata, K. Uriu, Y. L. Tanaka, J. Ito, R. Shimizu, T. S. Tan, E. P. Butlertanaka, H. Asakura, K. Sadamasu, , K. Sato

This study identifies the S375F mutation in the Omicron spike protein as responsible for its reduced cleavage efficiency, fusogenicity, and rapid spread.

bioRxiv · Apr 3, 2022Microbiology

Virological characteristics of SARS-CoV-2 BA.2 variant

D. Yamasoba, I. Kimura, H. Nasser, Y. Morioka, N. Nao, J. Ito, K. Uriu, M. Tsuda, J. Zahradnik, K. Shirakawa, R. Suzuki, M. Kishimoto, Y. Kosugi, K. Kobiyama, T. Hara, , Sawa

This study compares the virological characteristics of SARS-CoV-2 BA.2 and BA.1 variants, finding BA.2 has higher transmissibility, different antigenicity, greater replicative capacity, and higher pathogenicity in hamsters.

bioRxiv · Feb 14, 2022Microbiology

A connectivity signature for glioblastoma

L. Hai, D. C. Hoffmann, H. Mandelbaum, R. Xie, J. Ito, E. Jung, S. Weil, P. Sievers, V. Venkataramani, D. D. Azorin, K. Ernst, D. Reibold, R. Will, M. L. Suva, C. Herold-Mende, , T. Kessler

This paper establishes and validates a connectivity signature in glioblastoma using scRNA-Seq data, showing high connectivity correlates with poor patient survival and specific molecular subtypes.

bioRxiv · Nov 7, 2021 · PreprintCancer Biology

SARS-CoV-2 spike P681R mutation, a hallmark of the Delta variant, enhances viral fusogenicity and pathogenicity

A. Saito, T. Irie, R. Suzuki, T. Maemura, H. Nasser, K. Uriu, Y. Kosugi, K. Shirakawa, K. Sadamasu, I. Kimura, J. Ito, J. Wu, K. Iwatsuki-Horimoto, M. Ito, S. Yamayoshi, , K. Sato

This study shows the P681R mutation in the SARS-CoV-2 spike protein enhances fusogenicity and pathogenicity in the Delta variant compared to the prototypic virus.

bioRxiv · Jun 17, 2021Microbiology

Movements of ancient human endogenous retroviruses detected in SOX2-expressing cells

K. Monde, Y. Satou, M. Goto, Y. Uchiyama, J. Ito, T. Kaitsuka, H. Terasawa, S. Yamaga, T. Matsusako, F. Y. Wei, I. Inoue, K. Tomizawa, A. Ono, T. Era, T. Sawa, Y. Maeda

The paper shows SOX2 regulates HERV-K transcription and retrotransposition in stem cells, suggesting a role in embryonic protection while limiting genomic harm.

bioRxiv · Jul 14, 2020Microbiology