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Infrared and ultraviolet spectroscopic characterization of a key intermediate during DNA repair by (6-4) photolyase

(6-4) photolyases repair carcinogenic pyrimidine(6-4)pyrimidone photoproducts, a process that requires two successive photons but whose mechanistic details remain elusive. Here, the authors use time-resolved ultraviolet and infrared spectroscopy to identify a long-lived oxetane intermediate formed within 500 µs after absorption of the first photon by Xenopus laevis (6-4) photolyase.

Daichi Yamada
Ai Kadono
Minoru Kubo
ResearchOpen Access29 Aug 2025
Communications Chemistry

Volume: 8, P: 1-6
Neuronal signals regulate obesity induced β-cell proliferation by FoxM1 dependent mechanism

Neuronal signals, in particular those transmitted via the vagal nerve, regulate both β-cell function and proliferation. Here, Yamamoto et al. show that the forkhead box M1 pathway is required for vagal signal-mediated induction of β-cell proliferation during obesity.

Junpei Yamamoto
Junta Imai
Hideki Katagiri
ResearchOpen Access05 Dec 2017
Nature Communications

Volume: 8, P: 1-10
Publisher Correction: DNA damage detection in nucleosomes involves DNA register shifting

Syota Matsumoto
Simone Cavadini
Nicolas H. Thomä
Amendments and Corrections26 Jun 2019
Nature

Volume: 571, P: E6
Keratinocyte-driven dermal collagen formation in the axolotl skin

Type I collagen in the dermis is a major component of the skin, though how this collagen is formed and modified as remained unclear. Here they show that keratinocytes contribute to dermal collagen formation in axolotl skin in a conserved mechanism, offering new insights into collagen formation.

Ayaka Ohashi
Hirotaka Sakamoto
Akira Satoh
ResearchOpen Access24 Feb 2025
Nature Communications

Volume: 16, P: 1-18
Baseline ctDNA gene alterations as a biomarker of survival after panitumumab and chemotherapy in metastatic colorectal cancer

In an exploratory preplanned biomarker analysis of the phase 3 PARADIGM trial, a lack of resistance gene alterations in baseline circulating tumor DNA (negative hyperselection) was associated with prolonged overall survival after first-line panitumumab with chemotherapy in patients with RAS wild-type metastatic colorectal cancer.

Kohei Shitara
Kei Muro
Takayuki Yoshino
ResearchOpen Access12 Feb 2024
Nature Medicine

Volume: 30, P: 730-739
Integrated extracellular microRNA profiling for ovarian cancer screening

Screening methods for early detection of ovarian cancer is technically difficult. Here, the authors investigated circulating microRNA in human blood serum and developed a model using 10 microRNAs to discern between ovarian cancer and being ovarian tumors, solid tumors, and non-cancer patients.

Akira Yokoi
Juntaro Matsuzaki
Takahiro Ochiya
ResearchOpen Access17 Oct 2018
Nature Communications

Volume: 9, P: 1-10
Hepatocytes differentiate into intestinal epithelial cells through a hybrid epithelial/mesenchymal cell state in culture

Hepatocytes dedifferentiate into progenitor-like cells in culture. Here, authors elucidate the dynamics and mechanisms of hepatocyte dedifferentiation and find an unexpected differentiation potential of hepatocytes into intestinal epithelial cells.

Shizuka Miura
Kenichi Horisawa
Atsushi Suzuki
ResearchOpen Access15 May 2024
Nature Communications

Volume: 15, P: 1-18
A highly sensitive strategy for monitoring real-time proliferation of targeted cell types in vivo

Currently, tracking cell proliferation in vivo is hard. Here the authors report a method where the time series of proliferation of targeted cell types can be monitored in vivo in the same individuals, with no need for animal sacrifice: they use this to assess β-cell and hepatocyte proliferation in mice.

Hiroto Sugawara
Junta Imai
Hideki Katagiri
ResearchOpen Access14 Jun 2023
Nature Communications

Volume: 14, P: 1-14
Self-assembled conjugated polymer spheres as fluorescent microresonators

Kenichi Tabata
Daniel Braam
Yohei Yamamoto
ResearchOpen Access31 Jul 2014
Scientific Reports

Volume: 4, P: 1-5
Optogenetic stimulation of vagal nerves for enhanced glucose-stimulated insulin secretion and β cell proliferation

Two optogenetic methods for vagus-nerve stimulation, via the selective expression of opsins in either subdiaphragmatic or pancreas-innervating nerve fibres, led to enhanced glucose-stimulated insulin secretion and β cell proliferation in mice.

Yohei Kawana
Junta Imai
Hideki Katagiri
ResearchOpen Access09 Nov 2023
Nature Biomedical Engineering

Volume: 8, P: 808-822
Author Correction: Optogenetic stimulation of vagal nerves for enhanced glucose-stimulated insulin secretion and β cell proliferation

Yohei Kawana
Junta Imai
Hideki Katagiri
Amendments and CorrectionsOpen Access02 Apr 2024
Nature Biomedical Engineering

Volume: 8, P: 1501
DNA damage detection in nucleosomes involves DNA register shifting

Cryo-electron microscopy structures reveal that the DNA-repair factor UV-DDB exposes inaccessible nucleosome lesions for binding by inducing a translational shift in the nucleosome position.

Syota Matsumoto
Simone Cavadini
Nicolas H. Thomä
Research29 May 2019
Nature

Volume: 571, P: 79-84
Suppressive effect of the anesthetic propofol on the T cell function and T cell-dependent immune responses

Waichi Yamamoto
Taisuke Hamada
Masakatsu Yamashita
ResearchOpen Access20 Aug 2024
Scientific Reports

Volume: 14, P: 1-15
A serum microRNA classifier for the diagnosis of sarcomas of various histological subtypes

Sarcomas are rare malignant tumours of bone and soft tissue whose diagnosis remain difficult. Here, the authors analyse serum samples from over 1000 patients and using separate discovery, training and validation cohorts, identify and validate a 7-microRNA index that distinguishes malignant sarcomas from benign disease.

Naofumi Asano
Juntaro Matsuzaki
Takahiro Ochiya
ResearchOpen Access21 Mar 2019
Nature Communications

Volume: 10, P: 1-10
Fluorescence detection of DNA mismatch repair in human cells

Shunsuke Ito
Miyako Shiraishi
Shigenori Iwai
ResearchOpen Access15 Aug 2018
Scientific Reports

Volume: 8, P: 1-9
Acetaldehyde forms covalent GG intrastrand crosslinks in DNA

Yuina Sonohara
Junpei Yamamoto
Isao Kuraoka
ResearchOpen Access24 Jan 2019
Scientific Reports

Volume: 9, P: 1-8
Serial crystallography captures dynamic control of sequential electron and proton transfer events in a flavoenzyme

A reduction reaction is usually equated with an electron transfer reaction. Now, ultrafast time-resolved serial femtosecond X-ray crystallography has enabled the visualization of the stepwise structural changes that occur after electron transfers have been observed in the light-triggered reduction of flavin adenine dinucleotide catalysed by DNA photolyase.

Manuel Maestre-Reyna
Cheng-Han Yang
Ming-Daw Tsai
Research07 Apr 2022
Nature Chemistry

Volume: 14, P: 677-685
Blood pressure during long-term cilostazol-based dual antiplatelet therapy after stroke: a post hoc analysis of the CSPS.com trial

Kazunori Toyoda
Masatoshi Koga
Hiroaki Tanaka
ResearchOpen Access09 Jul 2024
Hypertension Research

Volume: 47, P: 2238-2249
Structural basis of pyrimidine-pyrimidone (6–4) photoproduct recognition by UV-DDB in the nucleosome

Akihisa Osakabe
Hiroaki Tachiwana
Hitoshi Kurumizaka
ResearchOpen Access17 Nov 2015
Scientific Reports

Volume: 5, P: 1-9
Optically induced mode splitting in self-assembled, high quality-factor conjugated polymer microcavities

Daniel Braam
Soh Kushida
Axel Lorke
ResearchOpen Access19 Jan 2016
Scientific Reports

Volume: 6, P: 1-6
Direct reprogramming of human umbilical vein- and peripheral blood-derived endothelial cells into hepatic progenitor cells

The conditions to induce human hepatic progenitor cells from other cell types are unclear. Here, the authors reprogram human endothelial cells to hepatic progenitor cells by expressing FOXA3, HNF1A and HNF6, capable of giving rise to hepatocytes and cholangiocytes that reconstitute damaged liver tissues on transplantation.

Hiroki Inada
Miyako Udono
Atsushi Suzuki
ResearchOpen Access21 Oct 2020
Nature Communications

Volume: 11, P: 1-17
Vagus-macrophage-hepatocyte link promotes post-injury liver regeneration and whole-body survival through hepatic FoxM1 activation

The mechanisms underlying the regenerative capacity of the liver are not fully understood. Here, the authors show that the acute regenerative response to liver injury in mice is regulated by the communication involving the vagus nerve, macrophages, and hepatocytes, leading to hepatic FoxM1 activation and promotion of overall survival.

Tomohito Izumi
Junta Imai
Hideki Katagiri
ResearchOpen Access13 Dec 2018
Nature Communications

Volume: 9, P: 1-13
A deazariboflavin chromophore kinetically stabilizes reduced FAD state in a bifunctional cryptochrome

Yuhei Hosokawa
Hiroyoshi Morita
Junpei Yamamoto
ResearchOpen Access04 Oct 2023
Scientific Reports

Volume: 13, P: 1-10
Limited solvation of an electron donating tryptophan stabilizes a photoinduced charge-separated state in plant (6–4) photolyase

Yuhei Hosokawa
Pavel Müller
Junpei Yamamoto
ResearchOpen Access24 Mar 2022
Scientific Reports

Volume: 12, P: 1-11
Influence of hospital capabilities and prehospital time on outcomes of thrombectomy for stroke in Japan from 2013 to 2016

Ai Kurogi
Daisuke Onozuka
Masayuki Yokota
ResearchOpen Access28 Feb 2022
Scientific Reports

Volume: 12, P: 1-17
Validity of dietary isothiocyanate intake estimates from a food frequency questionnaire using 24 h urinary isothiocyanate excretion as an objective biomarker: the JPHC-NEXT protocol area

Nagisa Mori
Norie Sawada
Shoichiro Tsugane
Research06 Jul 2021
European Journal of Clinical Nutrition

Volume: 76, P: 462-468
Clustering of charged colloidal particles in the microgravity environment of space

Hiroyuki Miki
Teruyoshi Ishigami
Seijiro Fukuyama
ResearchOpen Access29 Apr 2023
npj Microgravity

Volume: 9, P: 1-12

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