#Fluorophore
【#NewsRelease】
Bis-Pseudoindoxyls: A New Class of Single Benzene-Based Fluorophores for #Bioimaging Applications

Tetsuhiro NEMOTO, Professor
Graduate School of Pharmaceutical Sciences, #ChibaUniversity

www.cn.chiba-u.jp/en/news/pres...

#Fluorophore #Biomaterial #Probes #Biomolecule
Bis-Pseudoindoxyls: A New Class of Single Benzene-Based Fluorophores for Bioimaging Applications | CHIBADAI NEXT
Researchers developed bis-pseudoindoxyls, compact fluorophores with red-shifted absorption and fluorescence, which can be utilized for time-resolved bioimaging Fluorescent dyes enable the visualizatio...
www.cn.chiba-u.jp
January 15, 2026 at 12:54 AM
Sayana, Callon, Xu, Deutsch, Chu, Zou, Janetzko, Shivnaraine, Swanson: Generating readily synthesizable small molecule fluorophore scaffolds with reinforcement learning https://arxiv.org/abs/2601.07145 https://arxiv.org/pdf/2601.07145 https://arxiv.org/html/2601.07145
January 13, 2026 at 6:34 AM
Manim (www.manim.community) is such a neat tool for generating videos that describe microscopy theory. It’s possible to animate a fluorophore behaving as a Lorentzian with a single line of code—amazing! Code (I’m so sorry about the variable names) here: github.com/zacsimile/ra...
January 12, 2026 at 10:04 AM
What if we swap pyrrolidine for a triazole?

Boons et al. showed it makes a UV-excited, blue fluorophore ✨ But we find the photocage is essential: rmv it generates radicals💥

This makes pyrrolidine fusions the first functional heterocyclic-fused photoclick moiety on dimethoxy-DBCO scaffolds

12/🧵
January 9, 2026 at 2:53 AM
The graphical abstract

Attaching pyrrolidine to a photo-cyclooctyne makes it react only with azides, giving a selective light-activated click. Fusing a triazole creates a fluorophore, but breaking the photocage destroys it ⚡radicals, bright, but no further clicks.💡

4/🧵
January 9, 2026 at 2:53 AM
Our January issue is live!

www.nature.com/nchembio/vol...

The cover depicts a method for real-time monitoring of microenvironmental changes in protein substructures using site-specific integration of a noncanonical amino acid with a rotor-based fluorophore
January 8, 2026 at 4:38 PM
We are very happy to share our new publication!
人工脂肪滴中での,超分子重合制御に挑みました!

Kinetically Controlled Self-Assembly of a Lipophilic Fluorophore with Phenylalanine-Based Diamides in Artificial Lipid Droplets
onlinelibrary.wiley.com/doi/10.1002/...

Congratulations! Naruse!
Kinetically Controlled Self‐Assembly of a Lipophilic Fluorophore with Phenylalanine‐Based Diamides in Artificial Lipid Droplets
Fibrous aggregates in triolein are constructed from a lipophilic donor–acceptor fluorophore bearing two phenylalanine-based diamide units. Spectroscopic analyses and fluorescence imaging revealed a k...
onlinelibrary.wiley.com
January 5, 2026 at 7:57 AM
A systematic approach for the purification of fluorophore-labelled proteins via anion exchange chromatography https://www.biorxiv.org/content/10.64898/2025.12.30.697019v1
December 31, 2025 at 3:48 AM
A systematic approach for the purification of fluorophore-labelled proteins via anion exchange chromatography https://www.biorxiv.org/content/10.64898/2025.12.30.697019v1
December 31, 2025 at 3:48 AM
(ChemRxiv) Anthraquinone-based fluorophore as electrostatic complexation-driven turn-on probe for Cardiolipin detection in model membranes: Cardiolipin (CL), being a mitochondria-specific phospholipid, is known to play a pivotal role
in cellular respiration, and its… (RSS) #chemrxiv #MassSpecRSS
Anthraquinone-based fluorophore as electrostatic complexation-driven turn-on probe for Cardiolipin detection in model membranes
Cardiolipin (CL), being a mitochondria-specific phospholipid, is known to play a pivotal role in cellular respiration, and its levels are intricately connected to various neurodegenerative disorders. Owing to the simplicity compared to mass spectrometry-based lipidomics, optical detection of CL is an attractive option; however, only two probes, namely TTAPE-Me and 10- nonyl acridine orange (NAO), are currently available. Herein, we report the use of an anthraquinone-based fluorophore 1 as a turn-on sensor for CL in phospholipid membranes. 1 exhibited a robust fluorescence turn-on response upon selective binding to CL, with up to 5.8- fold enhancement in dioleoyl phosphatidylcholine (DOPC) vesicles and 5.1-fold in dipalmitoyl phosphatidylcholine (DPPC) vesicles. Based on the results from anisotropy, temperature studies, and salt dependence studies, it was concluded that the formation of an electrostatic complex was the driving factor behind the observed fluorescence enhancement. Mechanistic investigations, including anisotropy, salt-dependence, and temperature studies, revealed that electrostatic complex formation underlies the observed fluorescence enhancement. Interestingly, the probe also showed a high degree of selectivity toward CL compared to other biologically relevant analytes. These findings establish compound 1 as a promising optical probe for quantitative cardiolipin detection, providing an alternative to existing fluorophores.
dlvr.it
December 30, 2025 at 10:05 PM
Final 2025 paper in Chem Eur J! Bifurcated H-bonding enables dual-state photophysics in a U-shaped DPPZ fluorophore. International collaboration🇯🇵🇩🇰 with Piotr_deSilva and Yoichi Kobayashi. Congratulations the team! #JST #ASPIRE #OpenAccess #PiSky
doi.org/10.1002/chem...
Dual‐State Photophysical Modulation via Bifurcated Hydrogen Bonding in a U‐Shaped Dipyridophenazine‐Cored Donor‐π‐Acceptor‐π‐Donor Fluorophore
A donor–π–acceptor–π–donor (D–π–A–π–D) fluorophore bearing a U-shaped dipyridophenazine core forms bifurcated hydrogen bonds with neutral donors such as sulfonamides or water. This interaction modula...
doi.org
December 26, 2025 at 10:59 PM
#FluorescenceFriday

"Into the Cellular Galaxy"

HeLa cells were labeled with dual organelles targeting fluorophore named DOBEL (that was synthesized by Dr. Barsha Chakraborty, PhD, IISER Bhopal)

#Microscopy #LifeSciences #Imaging
December 26, 2025 at 11:55 AM
Rapid accumulation of fluorophores and fast kill identify drugs with bactericidal effects against Gram-negative bacteria. Published Open Access and fee-free in Microbiology using a Publish and Read agreement: doi.org/10.1099/mic.... #MicrobioJ #PublishAndRead
December 19, 2025 at 3:31 PM
Featured on the front cover of J Mater Chem C issue 48, read HOT paper 'Green-synthesized single-benzene fluorophores exhibiting room-temperature phosphorescence and solid-state fluorescence for biological and optical applications' by Carolin Müller, Stefan Schramm et al.
👉doi.org/10.1039/D5TC...
December 16, 2025 at 1:56 PM
2️⃣ The biggest source of false positives in multicolor flow?

It's NOT nonspecific binding

It's spillover spreading

Isotype controls:

- Contain only one fluorophore
- Don't model the variance introduced by other channels
- Completely miss how dim populations spread when neighbors are bright

(4/n)
December 16, 2025 at 1:10 PM
New preprint alert!
www.biorxiv.org/content/10.6...
Authors developed DNA-fluorophore labels inspired by DNA-PAINT & enhanced with LNA, enabling robust signal amplification for quantitative STED imaging with single-protein resolution. Congrats to all authors!
Our reagents were used for EGFR imaging.
Quantitative STED microscopy with DNA-fluorophore labels
Stimulated emission depletion (STED) microscopy enables super-resolution imaging of complex biological samples in 3D, in large volumes, and live. However, molecular quantification with STED has remain...
www.biorxiv.org
December 10, 2025 at 10:58 AM
Pretty cool! Engineered periplasmic binding proteins+fluorophore sensors (for sugars+AAs) are used to report real-time extracellular metabolite dynamics in E. coli + many others species after 24h in plate readers, showing hierarchical substrate use.
journals.asm.org/doi/full/10....
Real-time simultaneous monitoring of multiple analytes in bacterial cultures | Applied and Environmental Microbiology
Real-time monitoring of metabolites in bacterial cultures is crucial for advancing our understanding of microbial physiology, metabolic fluxes, and dynamic responses to environmental changes. This capability enables researchers to capture transient metabolic states that are often missed in endpoint measurements. The use of engineered periplasmic binding proteins as biosensors for this real-time metabolite monitoring represents a groundbreaking approach. By leveraging the natural specificity and high affinity of PBPs for small molecules, these biosensors can be engineered to detect a wide range of metabolites with exceptional sensitivity and temporal resolution. The integration of PBP-based biosensors into microbial research not only enhances our ability to study real-time metabolism but also provides a versatile tool for optimizing industrial bioprocesses and exploring bacterial infections and complex microbial ecosystems
journals.asm.org
December 8, 2025 at 3:37 PM
Quantitative STED microscopy with DNA-fluorophore labels https://www.biorxiv.org/content/10.64898/2025.12.05.692534v1
December 8, 2025 at 2:47 AM
Quantitative STED microscopy with DNA-fluorophore labels https://www.biorxiv.org/content/10.64898/2025.12.05.692534v1
December 8, 2025 at 2:47 AM
Design and synthesis of mirror image fluorescent nucleotide reversible terminator, (L)-3'-O-azidomethyl-dGTP-N3-fluorophore, and (D)-9°N mutant DNA polymerase for mirror image (L)-DNA sequencing by synthesis https://www.biorxiv.org/content/10.64898/2025.12.03.692211v1
December 5, 2025 at 3:02 AM
Design and synthesis of mirror image fluorescent nucleotide reversible terminator, (L)-3'-O-azidomethyl-dGTP-N3-fluorophore, and (D)-9°N mutant DNA polymerase for mirror image (L)-DNA sequencing by synthesis https://www.biorxiv.org/content/10.64898/2025.12.03.692211v1
December 5, 2025 at 3:02 AM
Don’t miss the next @bioimagingna.bsky.social and CBI STED user group meeting!

Priyam Banerjee (The Rockefeller University) will deliver the presentation, “Ready, STED, Go: A full-stack workflow from fluorophore to feature extraction”, followed by community discussion.
STED Microscopy User Group, December 11, 12 PM ET - FocalPlane
STED Microscopy User Group, December 11, 12 PM ET -
focalplane.biologists.com
December 4, 2025 at 7:02 PM
Thanks to all collaborators! Check out our new publication on: "Exploring the Substitution of the C21-OAc Moiety in [11]Cytochalasans: Synthesis and Evaluation of Fluorophore Conjugates" chemistry-europe.onlinelibrary.wiley.com/doi/10.1002/...
Exploring the Substitution of the C21‐OAc Moiety in [11]Cytochalasans: Synthesis and Evaluation of Fluorophore Conjugates
Via in silico docking of pyrichalasin H on G- and F-actin, the C21-OAc moiety is identified as a modifiable site tolerated for actin binding. Fluorescent [11]cytochalasan probes from pyrichalasin H a....
chemistry-europe.onlinelibrary.wiley.com
November 29, 2025 at 1:36 PM
Why else? flexibility! Pick and choose your reporter. Use one antibody and conjugate it to #AlkalinePhosphatase for #ELISA, #horseradishperoxidase for #WesternBlot or a #fluorophore for #Immunofluorescence. Check out our range of biotinylated secondary antibodies:
www.antibodies.com/products/sec...
November 26, 2025 at 11:47 AM
🚀 We’re hiring! EMBL TechDev Internship (TDI25-14)

We’re looking for an organic chemist to help develop novel fluorogenic HaloTag ligands for deep-tissue imaging. You’ll contribute to molecular design and run in silico, in vitro, and microscopy-based assays to quantify fluorophore performance.
EMBL TechDev Internship Programme – Scientific Visitor Programme
www.embl.org
November 24, 2025 at 2:34 PM