Our review of CCM regulation, by Daisuke Shimamura and Takashi Yamano, was published in Frontiers in Plant Science. It brings together carbon transport, energy supply, pyrenoid architecture, and regulatory networks.
KYOTO UNIVERSITY / PLANT MOLECULAR BIOLOGY
YAMANO GROUP
01 — OUR MISSIONUnderstanding how life
builds, uses, and passes on
its reaction compartments
OUR MODEL SYSTEM
SMALL ORGANELLE. BIG QUESTIONS.
Understanding life,
through the pyrenoid.
LATEST NEWS
2026-
We host GUNASEKARAN Jerome Xavier and SHARMA Shriya from the Subramanyam Rajagopal laboratory at the University of Hyderabad under JST’s LOTUS Programme. Our joint projects investigate autophagy and thioredoxin-dependent photosynthetic redox regulation in green algae. Project details.
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Our former lab member Daisuke Shimamura, now a Special Postdoctoral Researcher at RIKEN CSRS, received the Botanical Society of Japan (BSJ) Young Botanist Prize. Congratulations!
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Miichi and colleagues posted their study of HCR1, a cytosolic repressor involved in shutting down the algal CO2-concentrating mechanism, on bioRxiv (not peer reviewed).
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Koujiro Matsuo and Takashi Yamano posted their machine-learning study linking subtle pyrenoid phenotypes to mitotic remodeling and CO2-dependent growth on bioRxiv (not peer reviewed).
RESEARCH HIGHLIGHT
PNAS · 2026CARBON-CONCENTRATING MECHANISM
A molecular brake
on the algal CCM.
The nuclear protein CBP1 represses CCM-related genes
when CO₂ is abundant.
Shimamura et al.
PNAS 123, e2518136123Fig. 6 (toned for background) · CC BY 4.0
NEXT PRESENTATION
POSTERCell Bio 2026
An ASCB|EMBO Meeting
Unsupervised machine-learning identifies subtle pyrenoid defects linked to cell division and CO₂-dependent growth in Chlamydomonas reinhardtii
Presentations (Japanese)OUR TEAM
Meet
our team.
The Yamano Group and our
research support agent, Pyreno.
RESEARCH SUPPORT
Supporting
our research.
KAKENHI, JST programmes
and foundation grants.
RESEARCH QUESTIONS
Research ↗How do reaction compartments form and pass to the next generation?
02How is the CCM switched on and off?
03How can we detect subtle differences between cells?
PYRENOID · CO₂ CONCENTRATION · PHASE SEPARATION · MACHINE LEARNING
PHOTO ALBUMS
Lab photo albums
A CLOSER LOOK
Our mission
How does life bring the right molecules together, organize spaces for chemical reactions, and pass them on to the next generation? We explore this question by studying the pyrenoid in microalgae. This membrane-free compartment supports photosynthesis inside the chloroplast. It forms through "phase separation," a process in which molecules gather into liquid-like droplets. We use the pyrenoid as a model to understand how life creates order.
We track how these reaction compartments change in shape and state, and how they are passed on during cell division. We also study how the CO2-concentrating mechanism collects carbon from water and how this system is controlled. Our goal is to understand not only how molecules come together, but also how they keep working as matter and energy flow through the system. This includes how cells switch gene expression on and off in response to their environment.
By combining molecular and cell biology with physics and AI, we also develop tools to recognize differences between cells and isolate cells of interest. We investigate how environmental changes are linked to the evolutionary gain and loss of reaction compartments. From the lifetime of a cell to the history of evolution, we aim to uncover common principles of life and apply them to improving photosynthesis and designing artificial reaction compartments.
More news 2025–2026
Our project, "Establishing the Study of Liquid Organelle Co-evolution," has been selected for funding under the Challenging Research (Exploratory) program.
Takashi Yamano spoke about pyrenoid function and regulation in the young researcher session at the Kyoto University Lectureship Award 2025 ceremony and commemorative lectures. University event report (Japanese).
Koujiro Matsuo, a third-year PhD student in our lab, received the PCP Poster Award 2026 at the annual meeting of the Japanese Society of Plant Physiologists.
Our paper identifying a molecular "brake" that controls the CO2-concentrating mechanism in aquatic photosynthesis has been published in PNAS.
Our project has been selected for JST's LOTUS Programme for young scientists from India. We will host a student from the University of Hyderabad for one year and carry out a joint Japan–India study on "Modifying Autophagy in Green Algae and Understanding Its Role in Lipid Biosynthesis."
The research area "Establishing the Biology of pH Responses," in which Takashi Yamano participates as a co-investigator, has been selected for funding under the Grant-in-Aid for Transformative Research Areas (A) program. The area is led by Dr. Oginuma at RIKEN, and our research team is led by Dr. Ma at Okayama University.
VISIT & CONTACT
Kyoto University, North Campus
Room 707, Faculty of Agriculture Main Building