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Dame lab at Leiden University

@damelab.bsky.social
314 followers 420 following 34 posts

Interested in the organisation of chromatin in bacteria and archaea, its interplay with transcription and evolution. Methods: single-molecule and ensemble biochemistry, genetics, molecular microbiology, 3D genomics, (computational) structural biology.

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Dame lab at Leiden University @damelab.bsky.social · 11/09/2026
It has been a great journey through prokaryotic histone space with Samuel Schwab @samuelschwab.bsky.social. On September 9 he defended his excellent thesis and graduated with distinction (cum laude). www.linkedin.com/posts/facult...
linkedin.com
🎓 Cum laude! Samuel Schwab uncovers surprising ways bacteria and archaea organise their DNA His supervisor professor Remus Dame puts it rather strongly: ‘He is by far the best PhD student I have… | L...
🎓 Cum laude! Samuel Schwab uncovers surprising ways bacteria and archaea organise their DNA His supervisor professor Remus Dame puts it rather strongly: ‘He is by far the best PhD student I have supe...
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Daniel Tamarit @danieltamarit.bsky.social · 22/05/2026
I'm looking for an enthusiastic student to join my team as a PhD candidate on archaeal genome evolution 🦠💻 Work in beautiful Utrecht, at @binfutrecht.bsky.social, an international group full of caring, amazing scientists, and with frequent cake breaks! www.uu.nl/en/organisat... Please share! 🙏
uu.nl
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Dame lab at Leiden University @damelab.bsky.social · 27/03/2026
New review in @cp-trendsgenetics.bsky.social on the fascinating world of chromatin organization in Asgard archaea. Very nice joint effort with @jvhooff.bsky.social www.sciencedirect.com/science/arti...
sciencedirect.com
Chromatin organization in Asgard archaea: histones, SMC complexes, and the archaeal roots of eukaryotic chromatin
The genomes of organisms across the tree of life are structurally and functionally organized into chromatin. In eukaryotes, within an organelle called…
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Grainger Lab @graingerlab.bsky.social · 24/03/2026
Two post-doctoral positions open in our lab. We're looking for people with expertise in molecular microbiology and/or genome-scale tools. Initially 3 yrs, posts could be extended for upto 8 yrs. If you'd like to know more about us take a look at www.graingerlab.com www.jobs.ac.uk/job/DQY475/r...
jobs.ac.uk
Research Fellow (Postdoctoral) at University of Birmingham
Explore an exciting academic career as a Research Fellow (Postdoctoral). Don't miss out on other academic jobs. Click to apply and explore more opportunities.
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Cell - a Cell Press journal @cp-cell.bsky.social · 10/03/2026
Now online! Bringing the genetically minimal cell to life on a computer in 4D
dlvr.it
Bringing the genetically minimal cell to life on a computer in 4D
Simulating the complete cell cycle of the minimal cell provides a platform to understand the progression of complete states over time. The spatial heterogeneity of the intracellular environment can strongly affect biochemical reactions that control phenotypes.
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Dame lab at Leiden University @damelab.bsky.social · 12/02/2026
Now online: Pingzhuang Ge's studies on the impact of pH on local chromatin structure and transcriptional activity of the H-NS-regulated hdeAB operon www.biorxiv.org/content/10.6...
biorxiv.org
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biophychrom.bsky.social @biophychrom.bsky.social · 05/02/2026
Mark your calendars for the next incarnation of the Biology and Physics of the Prokaryotic Chromosome meeting to be held in Paris on July 6-9, 2027. See the web site for further information biophychrom2027.sciencesconf.org
biophychrom2027.sciencesconf.org
The Biology and Physics of Prokaryotic Chromosomes VIII - Sciencesconf.org
Presentation
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Dame lab at Leiden University @damelab.bsky.social · 02/02/2026
pdb101.rcsb.org/motm/314
pdb101.rcsb.org
PDB101: Molecule of the Month: Histones Across the Tree of Life
Uncovering the evolutionary diversity of histones
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Alireza Mashaghi @alirezamashaghi.bsky.social · 16/01/2026
My laboratory has an open postdoctoral position in the field of biomolecular condensate mechanochemistry! Please inquire if you are interested in interdisciplinary, cutting-edge research! www.mashaghilab.org/vacancies (Deadline: February 8, 2026) #ChemSky #Mechanobiology #Biomolecular_Condensate
mashaghilab.org
Mashaghi Lab - Vacancies
Community science: Since 1996, Alireza Mashaghi has actively advocated for collaborations between disciplines to explore new ways of addressing scientific and societal challenges. The team has a long...
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Dame lab at Leiden University @damelab.bsky.social · 16/01/2026
I am very pleased to share that our database of prokaryotic and viral histones, ProHistoneDB, is now available online at prohistonedb.org. Please also see the accompanying article in J Mol Biol: doi.org/10.1016/j.jm...
prohistonedb.org
ProHistoneDB
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Dame lab at Leiden University @damelab.bsky.social · 12/12/2025
We invite contributions to a special issue on "Chromatin Structure and Function in Bacteria and Archaea," edited by Ilaria Baglivo and me. See: www.mdpi.com/si/264656
mdpi.com
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Dame lab at Leiden University @damelab.bsky.social · 08/12/2025
I am very pleased to share our newest work on the face-to-face histone HTkC, which plays an important role in chromatin organization next to canonical histones HTkA and HTkB www.biorxiv.org/content/10.6...
biorxiv.org
Archaeal histone HTkC hypercompacts DNA
Histones are important organizers of chromatin in eukaryotes and archaea. In eukaryotes, the core histones assemble with DNA to form the octameric nucleosome. In archaea, histones form hypernucleosome...
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Molecular Cell @cp-molcell.bsky.social · 26/11/2025
Let’s wrap things up: Open and closed hypernucleosomes in Asgard archaea
dlvr.it
Let’s wrap things up: Open and closed hypernucleosomes in Asgard archaea
Asgard archaea are widely considered the closest living relatives of eukaryotes. In this issue of Molecular Cell, Ranawat et al. report high-resolution structures of hypernucleosomes formed by the hodarchaeal HHoB histone, disclosing open and closed chromatin conformations.
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Dame lab at Leiden University @damelab.bsky.social · 06/11/2025
New article online: Modulation of archaeal hypernucleosome structure and stability by Mg2+ In this work, we dissect the effects of Mg2+ on hypernucleosomes formed by the canonical histones from M. fervidus (HMfA and HMfB) and T. kodakarensis (HTkA and HTkB). www.sciencedirect.com/science/arti...
sciencedirect.com
Modulation of archaeal hypernucleosome structure and stability by Mg2+
DNA-wrapping histone proteins play a central role in chromatin organization, gene expression and regulation in most eukaryotes and archaea. While the …
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Dame lab at Leiden University @damelab.bsky.social · 05/11/2025
Soon available in my group: 1 PhD position to investigate prokaryotic histones. See our recent work that highlights the existence and diversity of prokaryotic histones (e.g. Schwab et al., TIBS, 2025; Schwab et al., Nat Comm, 2024; Hu et al., Nucl Acids Res, 2024). Please DM for informal enquiries.
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Svetlana Dodonova @dodonova-sveta.bsky.social · 28/10/2025
Lab’s first paper is out!! We show the first structures of #Asgard #chromatin by #cryo-EM 🧬❄️ Asgard histones form closed and open hypernucleosomes. Closed are conserved across #Archaea, while open resemble eukaryotic H3–H4 octasomes and are Asgard-specific. More here: www.cell.com/molecular-ce...
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Biochemical Society @biochemsoc.bsky.social · 19/09/2025
That’s a wrap for The Biology and Physics of Prokaryotic Chromosomes VII 2025. A big thank you to all those who attended 🧪 #BioPhyChrom2025 #BiochemEvents
Group photo
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Dame lab at Leiden University @damelab.bsky.social · 15/09/2025
Tomorrow is the start of Biology and Physics of Prokaryotic Chromosomes VII. Great speakers and participants. Excellent support by the Biochem. Society. @biochemsoc.bsky.social @danielabarilla.bsky.social @vslioy.bsky.social @graingerlab.bsky.social @damelab.bsky.social #BioPhyChrom2025
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Dame lab at Leiden University @damelab.bsky.social · 15/09/2025
Time flies .. it is today 25 years ago that we published our studies that revealed that bacterial H-NS is a DNA bridging protein: academic.oup.com/nar/article/... @narjournal.bsky.social
academic.oup.com
H-NS mediated compaction of DNA visualised by atomic force microscopy
Abstract. The Escherichia coli H-NS protein is a nucleoid-associated protein involved in gene regulation and DNA compaction. To get more insight into the m
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Daniela Barillà @danielabarilla.bsky.social · 08/09/2025
One week to go for The Biology & Physics of Chromosomes VII, but there is still time to register! Join us! 🧬🧬🧬 @biophychrom.bsky.social @biochemsoc.bsky.social @vslioy.bsky.social @graingerlab.bsky.social @damelab.bsky.social
River Ouse in York and the Hospitium, the conference banquet venue.
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Tobias Warnecke @tobiaswarnecke.bsky.social · 01/09/2025
Please re-post: If you know (or are!) somebody who might fancy doing a PhD (Oct 2026 start) in my group @oxfordbiochemistry.bsky.social, working on chromatin evolution in prokaryotes (or other things we're interested in), please have a look at www.bioch.ox.ac.uk/supervisors-...
bioch.ox.ac.uk
Supervisors and Projects
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Grainger Lab @graingerlab.bsky.social · 25/07/2025
Talk slots full but we can take late breaking poster abstracts until August 7th. Hope to see you in York to hear about your chromosome story 🧬🦠🧫 www.eventsforce.net/biochemsoc/f... @vslioy.bsky.social @damelab.bsky.social @graingerlab.bsky.social @biochemsoc.bsky.social @biophychrom.bsky.social
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Daniela Barillà @danielabarilla.bsky.social · 14/07/2025
Just few days left to register for this chromosome biology fête! 🧬🧬🧬 ⏳📆 16 July www.eventsforce.net/biochemsoc/f... @vslioy.bsky.social @damelab.bsky.social @graingerlab.bsky.social @biochemsoc.bsky.social @biophychrom.bsky.social
Poster advertising the Biology and Physics of Prokaryotic Chromosomes conference that will be held in York, 16-19 September 2025.
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Dame lab at Leiden University @damelab.bsky.social · 10/07/2025
I am pleased to share our new review on the role of bacterial nucleoid-aasociated proteins in mediating responses to changes in environment. Important: some NAPs can directly ‘sense’ physico-chemical changes. www.sciencedirect.com/science/arti... @pingzhuangge.bsky.social
sciencedirect.com
The role of nucleoid-associated proteins in mediating responses to environmental changes
Bacteria face diverse environmental challenges, such as changes in temperature, pH, and osmolarity, and exposure to antibiotics, which necessitate ada…
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Daniela Barillà @danielabarilla.bsky.social · 02/07/2025
York calling! 📣 🧬🧬🧬 Join us at www.biochemistry.org/events-and-t... ⏳⏰ Early bird deadline approaching soon, 16 July! Do not miss out! Half of the talks selected from abstracts. @damelab.bsky.social @vslioy.bsky.social @graingerlab.bsky.social @biochemsoc.bsky.social @biophychrom.bsky.social
View of a street in York with old houses on both sides and the towers of York Minster in the background.
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Dame lab at Leiden University @damelab.bsky.social · 30/06/2025
A must-read for histone afficionados: our new review on 'Histone-mediated chromatin organization in prokaryotes and viruses' www.cell.com/trends/bioch... @samuelschwab.bsky.social @vikramalva.bsky.social
cell.com
Histone-mediated chromatin organization in prokaryotes and viruses
Histones are fundamental chromatin-organizing proteins in eukaryotes and archaea, where they assemble into (hyper)nucleosomes that wrap DNA. Recent studies have expanded the known repertoire of histon...
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Daniela Barillà @danielabarilla.bsky.social · 11/06/2025
Chromosome Enthusiasts, join us at The Biology & Physics of Prokaryotic Chromosomes 🧬! Friendly community, fantastic speakers line-up, grant writing session for ECRs. Early-bird deadline approaching soon. @damelab.bsky.social @vslioy.bsky.social @graingerlab.bsky.social @biophychrom.bsky.social
Flyer advertising The Biology and Physics of Prokaryotic Chromosome conference that will be held in York, 16-19 September 2025.
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Svetlana Dodonova @dodonova-sveta.bsky.social · 26/05/2025
We’ve uncovered Asgard chromatin structures formed by a Hodarchaeal histone : closed hypernucleosome conserved in archaea and an open form resembling the H3-H4 eukaryotic octasome. Fantastic work by @harshranawat.bsky.social! www.biorxiv.org/content/10.1... #Chromatin #Asgard #Archaea #cryoEM
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Daniela Barillà @danielabarilla.bsky.social · 15/05/2025
Join us in York for the Biology & Physics of Prokaryotic Chromosomes! 🧬 #Microsky #Archaeasky www.biochemistry.org/events-and-t... @biochemsoc.bsky.social @damelab.bsky.social @graingerlab.bsky.social @vslioy.bsky.social
biochemistry.org
The Biology and Physics of Prokaryotic Chromosomes VII
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Daniel Tamarit @danieltamarit.bsky.social · 14/05/2025
New vacancy in my team! PhD student position on microbial genome evolution, focusing on the evolutionary principles underlying bacterial genome architecture. Please repost and share with talented MSc students in #evobio, bioinformatics or related :) www.uu.nl/en/organisat... #MEvoSky #MicroSky
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Vikram Alva @vikramalva.bsky.social · 12/05/2025
Excited to share our new preprint on HLp—a bacterial histone from Leptospira perolatii that forms stable tetramers and wraps ~60 bp of DNA: "DNA Wrapping by a Tetrameric Bacterial Histone" www.biorxiv.org/content/10.1... @mpi-bio-fml.bsky.social
A snapshot of the HLp tetramer (purple) wrapping ~60 bp of DNA (green).
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Molecular Microbiology Editors @molecularmicro.bsky.social · 11/03/2025
Chromatin aficionados take note: Second of two special issues on Prokaryotic Chromosome Organization now published! (6 review/perspective articles and 2 research articles) Guest edited by @damelab.bsky.social #MicroSky #Chromatin onlinelibrary.wiley.com/toc/13652958...
onlinelibrary.wiley.com
Prokaryotic Chromosome Organization: part 2: Molecular Microbiology: Vol 123, No 3
Molecular Microbiology is a broad-scope microbiology journal for basic and translational research that contributes to understanding molecular principles in microbes.
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Jolien van Hooff @jvhooff.bsky.social · 05/03/2025
Exciting news! I'm looking for a computational biologist to join my lab at Wageningen University & Research! It's a 3-year postdoc position on Holomycota genome architecture and evolution. Spread the word! www.wur.nl/en/vacancy/p...
wur.nl
Postdoc Comparative genomics and genome architecture in early-diverging fungi and their protist relatives (3-year position)
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Daniela Barillà @danielabarilla.bsky.social · 04/03/2025
Can I tempt some young minds to consider Old York for a PhD? Some days left to apply. Open to applicants WORLDWIDE 🌎.
River Ouse at sunset with some orange light on the horizon.
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Dame lab at Leiden University @damelab.bsky.social · 28/02/2025
Returning from a great visit to the Dodonova lab at EMBL to discuss archaeal histones and hypernucleosomes. Nice also to see a tribute to the hypernucleosome on EMBL premises !#Archaeasky
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Molecular Microbiology Editors @molecularmicro.bsky.social · 21/02/2025
First of two special issues on Prokaryotic Chromosome Organization now published! Guest edited by @damelab.bsky.social #MicroSky #Chromatin onlinelibrary.wiley.com/toc/13652958...
onlinelibrary.wiley.com
Prokaryotic Chromosome Organization: part 1: Molecular Microbiology: Vol 123, No 2
Molecular Microbiology is a broad-scope microbiology journal for basic and translational research that contributes to understanding molecular principles in microbes.
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biophychrom.bsky.social @biophychrom.bsky.social · 20/02/2025
Really great to see the Reviews, Perspectives and Research articles of these special issues published. Many thanks to all contributors, and for the support of the field for the BioPhyChrom meeting series. Registration is open for the upcoming incarnation of the meeting in York, UK, Sept. 16-19 2025.
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Dame lab at Leiden University @damelab.bsky.social · 20/02/2025
In @molecularmicro.bsky.social: two special issues on Prokaryotic Chromosome Organization. Many excellent contributions, including a vision article: 'Future directions of the Prokaryotic Chromosome Field', outcome of BioPhyChrom 2023 @biophychrom.bsky.social onlinelibrary.wiley.com/doi/10.1111/...
onlinelibrary.wiley.com
Future Directions of the Prokaryotic Chromosome Field
In September 2023, the Biology and Physics of Prokaryotic Chromosomes meeting ran at the Lorentz Center in Leiden, The Netherlands. As part of the workshop, those in attendance developed a series of ....
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Dame lab at Leiden University @damelab.bsky.social · 07/02/2025
Celebrating the 450th birthday of Leiden University today. I am visiting elementary school De Lichtwijzer for ‘Meet the professor’. Nice!
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biophychrom.bsky.social @biophychrom.bsky.social · 22/01/2025
Registration is now open for The Biology and Physics of Prokaryotic Chromosomes meeting in York, UK. 16-19 September 2025
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Daniela Barillà @danielabarilla.bsky.social · 18/12/2024
Still time to apply for this PhD project with the awesome 🙌 @steve-quinn-lab.bsky.social, @georgerheath.bsky.social and me. By the way, York is a beautiful 🤩 historic city! Please repost, grazie 😊 🌷.
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Teif lab @teiflab.bsky.social · 18/12/2024
We will be soon advertising for a new postdoc position - contact us if you are interested (bioinformatics/ML/biophysics of nucleosome positioning in cancer)
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Dame lab at Leiden University @damelab.bsky.social · 10/12/2024
For information on upcoming BioPhyChrom conferences and any other information we deem relevant for the community please start following @biophychrom.bsky.social
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Dame lab at Leiden University @damelab.bsky.social · 10/12/2024
Soon possible to register for BioPhyChrom VII in September 2025 www.biochemistry.org/events-and-t...
biochemistry.org
The biology and physics of prokaryotic chromosomes VII
An international scientific conference, bringing together biologists and physicists, to discuss discoveries around bacterial chromosome structure.
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Nogales Lab @nogaleslab.bsky.social · 26/11/2024
We are excited to announce the first Salamanca Biophysics Summer Course organized by Carlos Bustamante and Eva Nogales. See the flyer below and consider applying!
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Dame lab at Leiden University @damelab.bsky.social · 26/11/2024
Very pleased to have contributed to this multi-lab study into the structure and function of Ros/MucR family proteins. Strikingly, these proteins form circular oligomers and function as H-NS-like proteins. The study was led by Ilaria Baglivo, University of Campania. academic.oup.com/nar/advance-...
academic.oup.com
Circular oligomeric particles formed by Ros/MucR family members mediate DNA organization in α-proteobacteria
Abstract. The transcriptional regulator MucR from Brucella species controls the expression of many genes, including those involved in virulence, by binding
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Dame lab at Leiden University @damelab.bsky.social · 15/11/2024
A great day for our lab and for prokaryotic chromatin at the Dutch Chromatin meeting: Pingzhuang won the 1st prize for his poster and Samuel gave an excellent talk on prokaryotic histone diversity!
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Dame lab at Leiden University @damelab.bsky.social · 26/09/2024
Now online our Problems & Paradigms article in BioEssays: onlinelibrary.wiley.com/doi/full/10....
onlinelibrary.wiley.com
2024: A “nucleoid space” odyssey featuring H‐NS
The three-dimensional organization of chromosomes is shaped by genome processes including transcription and replication, such that, active processes can be used to predict chromosome structure. In tu....
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Daniela Barillà @danielabarilla.bsky.social · 03/12/2023
MRC- funded PhD project at the interface between biology & physics to investigate the segregation of an antibiotic resistant plasmid. Interdisciplinary training with super supportive supervisors. In the beautiful historic city of York. Please re-post, thanks! #microsky 🦠🧫🧪 📆17 December
3 dimensional structure of a plasmid segregation protein bound to ATP.
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