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

XBB.1.5 of SARS-CoV-2 is a descendant of XBB.1 and has mutations in spike and ORF8, making it more infectious to humans. Here, the authors examined in detail the differences in virological properties of the two variants.

Tomokazu Tamura
Takashi Irie
Takasuke Fukuhara
ResearchOpen Access08 Feb 2024
Nature Communications

Volume: 15, P: 1-17
A protein language model for exploring viral fitness landscapes

Ito et al. present CoVFit, an AI model that predicts variant fitness (transmissibility) from spike protein sequences alone. They further demonstrate its utility in forecasting viral evolution via single amino acid mutations.

Jumpei Ito
Adam Strange
Kei Sato
ResearchOpen Access13 May 2025
Nature Communications

Volume: 16, P: 1-16
Virological characteristics of the SARS-CoV-2 XBB variant derived from recombination of two Omicron subvariants

XBB is the first recombinant, globally dominant variant of SARS-CoV-2. Here, the authors examine the variant’s origins and virological properties, showing it is the first example of SARS-CoV-2 improving its fitness through recombination.

Tomokazu Tamura
Jumpei Ito
Kei Sato
ResearchOpen Access16 May 2023
Nature Communications

Volume: 14, P: 1-20
Generation of bat-derived influenza viruses and their reassortants

Masahiro Sato
Junki Maruyama
Ayato Takada
ResearchOpen Access04 Feb 2019
Scientific Reports

Volume: 9, P: 1-8
Convergent evolution of SARS-CoV-2 Omicron subvariants leading to the emergence of BQ.1.1 variant

Recent Omicron SARS-CoV-2 subvariants independently acquire 5 key Spike mutations. Here, the authors evaluate the evolutionary importance of the 5 mutations and characterize the virological properties of variant BQ.1.1 harboring all 5 mutations.

Jumpei Ito
Rigel Suzuki
Kei Sato
ResearchOpen Access11 May 2023
Nature Communications

Volume: 14, P: 1-20
Attenuated fusogenicity and pathogenicity of SARS-CoV-2 Omicron variant

In vitro studies in human cell lines and in vivo studies in a hamster model show that the SARS-CoV-2 Omicron variant is less pathogenic than both the Delta variant and an ancestral strain of SARS-CoV-2.

Rigel Suzuki
Daichi Yamasoba
Kei Sato
ResearchOpen Access01 Feb 2022
Nature

Volume: 603, P: 700-705
Structural basis for receptor-binding ___domain mobility of the spike in SARS-CoV-2 BA.2.86 and JN.1

JN.1 lineage is a globally dominant variant of SARS-CoV-2. Here, the authors examine structural insights into the BA.2.86 and JN.1 spike dynamics to help understand the mechanisms underlying SARS-CoV-2 infection and its neutralizing-antibody evasion.

Hisano Yajima
Yuki Anraku
Takao Hashiguchi
ResearchOpen Access07 Oct 2024
Nature Communications

Volume: 15, P: 1-14
Comparative pathogenicity of SARS-CoV-2 Omicron subvariants including BA.1, BA.2, and BA.5

The virological and pathological features of Omicron subvariants are compared in in vitro cellular and airway-on-a-chip and in vivo hamster models.

Tomokazu Tamura
Daichi Yamasoba
Takasuke Fukuhara
ResearchOpen Access24 Jul 2023
Communications Biology

Volume: 6, P: 1-12
Neutralizing immunity against coronaviruses in Tanzanian health care workers

Godfrey Barabona
Isaac Ngare
Takamasa Ueno
ResearchOpen Access06 Mar 2024
Scientific Reports

Volume: 14, P: 1-10
RAISING is a high-performance method for identifying random transgene integration sites

Integrating RAISING and CLOVA, an effective method for detection and monitoring clonal integration of viruses and viral vectors is presented.

Yusaku Wada
Tomoo Sato
Masumichi Saito
ResearchOpen Access02 Jun 2022
Communications Biology

Volume: 5, P: 1-11