Sign in

Rogier Braakman

@rogierbraakman.bsky.social
2.2K followers 6.6K following 49 posts

Studying metabolic evolution, microbial macroevolution, biospheric self-organization, and the feedbacks between Earth and life. Dad, Husband, Scientist. rogierbraakman.com

PostsRepliesMedia
Rogier Braakman @rogierbraakman.bsky.social · 16/09/2026
wonderful
020
Reposted by Rogier Braakman
Rogier Braakman @rogierbraakman.bsky.social · 03/09/2026
Job alert! Please RT! Looking for bioinformatics technician to help in projects using metagenomes to study microbial degradation of organic carbon in the ocean and in the human gut. Opportunity to gain research experience before graduate school. careers.peopleclick.com/careerscp/cl...
careers.peopleclick.com
Research Support Associate 1, Bioinformatics
MIT - Research Support Associate 1, Bioinformatics - Cambridge MA 02139
01018
Rogier Braakman @rogierbraakman.bsky.social · 03/09/2026
Job alert! Please RT! Looking for bioinformatics technician to help in projects using metagenomes to study microbial degradation of organic carbon in the ocean and in the human gut. Opportunity to gain research experience before graduate school. careers.peopleclick.com/careerscp/cl...
careers.peopleclick.com
Research Support Associate 1, Bioinformatics
MIT - Research Support Associate 1, Bioinformatics - Cambridge MA 02139
01018
Reposted by Rogier Braakman
Center for Chemical Currencies of a Microbial Planet (C-CoMP) @microbialplanet.bsky.social · 02/06/2026
📣 Check out this new C-CoMP publication led by one of our Bridge-to-PhD fellow alums! Congrats to all authors! 🧪
0113
Rogier Braakman @rogierbraakman.bsky.social · 01/06/2026
New paper led by Hannah Goldberg on the diversity of hydrogen peroxide detoxification in marine microbes! Wonderful @microbialplanet.bsky.social collaboration with Sonya Dyhrman, Michelle DeMers and Gwen Hennon! enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/...
enviromicro-journals.onlinelibrary.wiley.com
Forces Shaping Diversity of Hydrogen Peroxide Detoxification Potential in Ocean Microbial Ecosystems
Marine microbes which lack catalases, like Prochlorococcus, depend on ‘helpers’, like catalase-positive Alteromonas, for hydrogen peroxide detoxification. Our results indicate diverse and distinct di...
0154
Reposted by Rogier Braakman
Snorre Sulheim @sulheim.bsky.social · 03/12/2025
This project wouldn't been possible without Peter Doubleday and @nzamboni.bsky.social at @imsb-eth.bsky.social. Peter conducted >10,000 mass spec analyses 🤯. So grateful for this opportunity to team up with the best of the best in metabolomics 😍 Read more: www.biorxiv.org/content/10.1... #microsky
0114
Rogier Braakman @rogierbraakman.bsky.social · 24/03/2026
The final version of our paper is out! Congrats to @zhuyt0515.bsky.social bsky.social, Hanna Anderson and the rest of the team at @microbialplanet.bsky.social Characterization of phytoplankton-excreted metabolites mediating carbon flux through the surface ocean www.pnas.org/doi/10.1073/...
pnas.org
Characterization of phytoplankton-excreted metabolites mediating carbon flux through the surface ocean | PNAS
The marine labile dissolved organic carbon (DOC) pool is a dynamic reservoir of thousands of molecules that cycles approximately one-quarter of Ear...
082
Reposted by Rogier Braakman
Gabriel Birzu @gbirzu.bsky.social · 31/12/2025
New preprint to close out the year! Led by Alana Papula and together with Daniel Fisher, we used single-cell genomes to infer the evolution of Prochlorococcus—one of the most abundant and genetically diverse bacteria on Earth. Check it out here: doi.org/10.64898/202...
doi.org
Extensive recombination, selection, and asexual blooms shape the diversity of the dominant clade of Prochlorococcus
The tiny and enormously abundant marine cyanobacterium Prochlorococcus marinus contains many levels of population structure, with sequenced isolates spanning four orders of magnitude of diversity. It ...
0199
Reposted by Rogier Braakman
Snorre Sulheim @sulheim.bsky.social · 20/08/2025
Excited to share the first results from my postdoc at @dmf-unil.bsky.social with @saramitri.bsky.social www.biorxiv.org/content/10.1...
biorxiv.org
Microbes release lower-value metabolites at higher rates
Microbes release a wide range of metabolites into their environment, yet the reasons for this release and the factors that influence release rates are not well understood. Here, using a combination of...
12812
Reposted by Rogier Braakman
David Ho @davidho.bsky.social · 15/11/2025
Come be my colleague at University of Hawaiʻi at Mānoa. We're hiring an assistant professor in Ocean Biogeochemical Modeling. 🌊
schooljobs.com
Career Opportunities at the University of Hawai'i | University of Hawai'i
17845
Reposted by Rogier Braakman
Jesse Farmer @jfarmersalmanac.bsky.social · 07/11/2025
Huge paper for the Arctic Ocean published today in @science.org - a new 30,000 year history of Arctic Ocean sea-ice cover reconstructed from the accumulation of cosmic dust-derived helium-3! www.science.org/doi/10.1126/... (1/n)
science.org
Cosmic dust reveals dynamic shifts in central Arctic sea-ice coverage over the past 30,000 years
Arctic sea-ice loss affects biological productivity, sustenance in coastal communities, and geopolitics. Forecasting these impacts requires mechanistic understanding of how Arctic sea ice responds to ...
510331
Reposted by Rogier Braakman
Center for Chemical Currencies of a Microbial Planet (C-CoMP) @microbialplanet.bsky.social · 07/11/2025
📣New preprint alert! Check out this new preprint by Zhu et al. that quantifies and compares labile exometabolites from six axenic strains of marine phytoplankton 🌊 to identify key chemical currencies within the marine chemical-microbial network! 🧪🦠
1106
Rogier Braakman @rogierbraakman.bsky.social · 07/11/2025
Super excited to be part of this beautiful effort led by @zhuyt0515.bsky.social and Hanna Anderson! A true team effort to characterize diversity in phytoplankton-excreted metabolites and identify key chemical currencies within the ocean ecosystem and carbon cycle www.biorxiv.org/content/10.1...
biorxiv.org
Characterization of Phytoplankton-Excreted Metabolites Mediating Carbon Flux through the Surface Ocean
The marine labile dissolved organic carbon (DOC) pool is a dynamic reservoir of thousands of molecules that cycles approximately one-quarter of Earth primary production within days to weeks. After exc...
1145
Reposted by Rogier Braakman
Center for Chemical Currencies of a Microbial Planet (C-CoMP) @microbialplanet.bsky.social · 29/09/2025
📣#MTTM Mariana Torres (martorres.bsky.social) is a C-CoMP B2P Fellow working with @rogierbraakman.bsky.social @mit.edu. Using computational methods, they are investigating environmental drivers of carbon cycle metabolism dynamics in the North Atlantic Ocean 🌊.
Headshot of Mariana Torres with the ocean in the background. Photo by Amanda Ellis.Mariana and Natalie Graham stand next to each other on the R/V Atlantic Explorer during the C-CoMP September Cruise. Photo by Fadime Stemmer.Mariana processes samples on a bench in the lab on the R/V Atlantic Explorer during the C-CoMP September Cruise. Photo by Fadime Stemmer.Mariana, Fadime Stemmer, Mario Uchimiya, and Justin Fujii take a picture together in a lab on the R/V Atlantic Explorer during the C-CoMP September Cruise. Photo by Mariana Torres.
182
Rogier Braakman @rogierbraakman.bsky.social · 07/08/2025
New paper out! In it i review the context and implications of the "chitin raft hypothesis" for how cyanobacteria colonized the open ocean. Included is a new perspective on why there were two major stages of atmospheric oxygenation over Earth history. royalsocietypublishing.org/doi/10.1098/...
royalsocietypublishing.org
The chitin raft hypothesis for the colonization of the open ocean by cyanobacteria | Philosophical Transactions of the Royal Society B: Biological Sciences
It is often assumed planktonic cyanobacteria existed in Precambrian oceans, but that their productivity was constrained. However, available evidence suggests picocyanobacteria only colonized the open ...
03210
Reposted by Rogier Braakman
bioRxivpreprint @biorxivpreprint.bsky.social · 01/08/2025
Assessing cellular metabolic dynamics with NAD(P)H fluorescence polarization imaging www.biorxiv.org/content/10.1101/202…
051
Reposted by Rogier Braakman
Cameron Thrash @jcamthrash.bsky.social · 16/07/2025
Our latest, and the second paper led by Jordan Coelho this year. Want to remove bacteria from POM for single-cell microbiology/culturing/'omics applications? We've got some data: Detergent-based separation of microbes from marine particles www.biorxiv.org/content/10.1... #jcampubs 🌊
biorxiv.org
Detergent-based separation of microbes from marine particles
Marine particles, typically composed of organic detritus and cellular debris, harbor microbial communities that are distinct from the planktonic, or free-living, communities in the pelagic ocean. Howe...
13813
Reposted by Rogier Braakman
Rike Stelkens @stelkens.bsky.social · 30/06/2025
Job alert! We have a postdoc position available in the Stelkens Lab at Stockholm University. Join us and apply experimental evolution and comparative genomics in the model system yeast to test for parallel climate adaptation. Apply through this link: su.varbi.com/en/what:job/... Deadline 15 August.
24347
Rogier Braakman @rogierbraakman.bsky.social · 26/06/2025
This looks very cool - congrats!
120
Reposted by Rogier Braakman
Sergi Valverde @svalver.bsky.social · 18/06/2025
A new paper in Nature Ecol & Evol by @rosafernandez.bsky.social et al. shows a #punctuated burst of genome evolution in #annelids as they transitioned from marine to land and freshwater habitats.
519159
Rogier Braakman @rogierbraakman.bsky.social · 18/06/2025
‼️I'm looking for a postdoc‼️ Come join effort in using metagenomes to quantify microbial catabolic potential and carbon substrate availability at the ecosystem level. We seek to understand evolutionary forces shaping the carbon cycle. Part of ccomp-stc.org careers.peopleclick.com/careerscp/cl...
careers.peopleclick.com
Postdoctoral Associate
MIT - Postdoctoral Associate - Cambridge MA 02139
16458
Reposted by Rogier Braakman
Dr. Jennifer Glass (she/her) @methanojen.bsky.social · 12/06/2025
New preprint is out where we report a new obligate (?) methylotrophic bacteria with diel cycle of methanol dehydrogenase transcription in surface seawater, with implications for marine lanthanide and carbon cycling. Where the methanol comes from is a mystery! www.biorxiv.org/content/10.1...
Top figure: Diel transcription of TMED127 lanthanide-dependent methanol dehydrogenase (xoxF5) and glucose dehydrogenase (gdh) at Bermuda Atlantic Time-series Study (BATS) site, Sargasso Sea, North Atlantic Ocean. Transcription peaks in late afternoon each day over 5 days. 

Bottom figure: Schematic of key metabolisms and functions in TMED127/Methylaecorales based on genomic reconstruction, showing the most highly transcribed proteins are shown (PQQ-dependent methanol dehydrogenase (XoxF), PQQ-dependent glucose dehydrogenase (GDH), and proteorhopsin (PR)).
44513
Reposted by Rogier Braakman
Rogier Braakman @rogierbraakman.bsky.social · 04/06/2025
Excited to give a virtual seminar in the NASA LIFE RCN series next Tuesday June 10th, at 8am PST/11am EST. I'll be talking about the Chitin Raft Hypothesis and the rise of planktonic marine cyanobacteria. 🧪🦠⚒️🌐 #Paleobio #MEvoSky #MicroSky www.lifercn.org/events/2025-...
lifercn.org
2025 LIFE RCN Seminar Series Episode 1: Dr. Rogier Braakman — LIFE Research Coordination Network
On June 10th, 2025, at 8AM PDT/11AM EDT, the LIFE RCN will be excited to introduce Dr. Rogier Braakman, a research scientist at the Massachusetts Institute of Technology and an adjunct scientist at Th...
12010
Rogier Braakman @rogierbraakman.bsky.social · 05/06/2025
Great opportunity to awesome science!
153
Rogier Braakman @rogierbraakman.bsky.social · 04/06/2025
Excited to give a virtual seminar in the NASA LIFE RCN series next Tuesday June 10th, at 8am PST/11am EST. I'll be talking about the Chitin Raft Hypothesis and the rise of planktonic marine cyanobacteria. 🧪🦠⚒️🌐 #Paleobio #MEvoSky #MicroSky www.lifercn.org/events/2025-...
lifercn.org
2025 LIFE RCN Seminar Series Episode 1: Dr. Rogier Braakman — LIFE Research Coordination Network
On June 10th, 2025, at 8AM PDT/11AM EDT, the LIFE RCN will be excited to introduce Dr. Rogier Braakman, a research scientist at the Massachusetts Institute of Technology and an adjunct scientist at Th...
12010
Rogier Braakman @rogierbraakman.bsky.social · 04/06/2025
Revamped pre-print with updated title: The chitin raft hypothesis for the colonization of the open ocean by cyanobacteria. In this paper i discuss the broader context and implications of the hypothesis. 🧪🦠⚒️🌍🌐 #Paleobio #MEvoSky #MicroSky eartharxiv.org/repository/v...
eartharxiv.org
The chitin raft hypothesis for the colonization of the open ocean by cyanobacteria
1133
Reposted by Rogier Braakman
Philip Donoghue @phil-donoghue.bsky.social · 28/05/2025
Our latest, led by @jameswclark.bsky.social of @milnerevolution.bsky.social shows that the notorious mismatch between molecular and palaeontological estimates for the timing of origin of angiosperms is a consequence of equivocal interpretation of their fossil record @bristolpalaeo.bsky.social
royalsocietypublishing.org
Uncertainty in the timing of diversification of flowering plants rests with equivocal interpretation of their fossil record | Royal Society Open Science
The timing of the origin of crown-angiosperms exemplifies the impact of competing approaches to establishing evolutionary timescales. Fossils of unequivocal crown-angiosperms are not known from before...
04817
Rogier Braakman @rogierbraakman.bsky.social · 02/06/2025
@seandstacey.bsky.social #AddMicrobiology Thank you!
100
Rogier Braakman @rogierbraakman.bsky.social · 29/05/2025
Fascinating! I have always wondered about how to think about the impact of gradual vs punctuated evolutionary dynamics on (my interest is particularly microbial) phylogenetic clock models. This paper seems to offer a general framework for doing so
060
Reposted by Rogier Braakman
Jarrett Byrnes @jebyrnes.bsky.social · 29/05/2025
Want to learn more about #kelp distributions and environmental parameters? Check out our paper led by Aaron Eger and Georgina Wood) and app - An Environmental Niche Exploration Tool for Kelp Forest Management onlinelibrary.wiley.com/doi/10.1002/... & www.kelpee.info
onlinelibrary.wiley.com
An Environmental Niche Exploration Tool for Kelp Forest Management
The kelp niche explorer is a tool which allows users to understand the optimal environmental conditions for kelp forest conservation at the regional level. The tool is adaptable and provides an easy ...
1198
Reposted by Rogier Braakman
Ben Bond-Lamberty @benbondlamberty.bsky.social · 27/05/2025
This paper led by @tommaso-jucker.bsky.social was fun to participate in: The global spectrum of tree crown architecture, www.nature.com/articles/s41.... Now online!
nature.com
The global spectrum of tree crown architecture - Nature Communications
Trees come in all shapes and size, but what drives this incredible variation in tree form remains poorly understood. Using a global dataset, the authors show that a combination of climate, competition...
12910
Reposted by Rogier Braakman
Molly Przeworski @mollyprz.bsky.social · 23/05/2025
Now published in PNAS: www.pnas.org/doi/10.1073/...
pnas.org
PNAS
Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...
19640
Rogier Braakman @rogierbraakman.bsky.social · 23/05/2025
Breakthrough paper from Emily Zakem & co on understanding heterotrophic marine microbes. Introduces concept of “slopiotrophs”, ie “slow copiotrophs” (we generally think of copiotrophs as fast growing) which degrade more recalcitrant forms of organic carbon at depth www.science.org/doi/10.1126/...
science.org
Functional biogeography of marine microbial heterotrophs
Heterotrophic bacteria and archaea (“heteroprokaryotes”) drive global carbon cycling, but how to quantitatively organize their functional complexity remains unclear. We generated a global-scale unders...
0114
Reposted by Rogier Braakman
Nicolas Alexandre @nicmalexandre.bsky.social · 21/05/2025
🚨New paper alert!🚨 We show that hummingbird beaks have changed in shape & size since around WWII, driven by the rise of commercialized feeders! 🧵 📄 Paper: dx.doi.org/10.1111/gcb.... #ornithology #evolution #GlobalChangeBiology
dx.doi.org
Supplemental Feeding as a Driver of Population Expansion and Morphological Change in Anna's Hummingbirds
Bird beaks are highly adaptable, with the potential to undergo rapid morphological shifts in response to environmental change such as climatic variation or food availability. Anna's Hummingbirds (Cal...
7243104
Reposted by Rogier Braakman
Lee Hsiang Liow (廖珕庠) @lhliow.bsky.social · 20/05/2025
Come postdoc in Oslo! 3 years. You design the project! Get in touch with me or others at our museum! Deadline 23 june www.jobbnorge.no/en/available... share and repost !
jobbnorge.no
Postdoctoral Fellow: Self-Developed Project (280531) | University of Oslo
Job title: Postdoctoral Fellow: Self-Developed Project (280531), Employer: University of Oslo, Deadline: Monday, June 23, 2025
03847
Reposted by Rogier Braakman
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
384104
Reposted by Rogier Braakman
Dr. Bethany Allen @bethanyjallen.bsky.social · 21/05/2025
I wrote a Dispatch for Current Biology on the neat new paper by @princessquatris.bsky.social et al., highlighting why occupancy modelling is an exciting tool for understanding sampling bias in palaeontology 🦕 You can access it for free using this link: authors.elsevier.com/a/1l7HM3QW8S...
authors.elsevier.com
23817
Rogier Braakman @rogierbraakman.bsky.social · 21/05/2025
Absolute tour de force analysis of how the ecosystem shifts along an estuarine/coastal to open ocean gradient, with particular focus on the phytoplankton communities. Congrats on a brilliant paper!
180
Reposted by Rogier Braakman
Rike Stelkens @stelkens.bsky.social · 20/05/2025
Just out in PNAS! www.pnas.org/doi/10.1073/... "The evolution of thermal performance curves in response to rising temperatures across the model genus yeast". Beautiful work using experimental evolution forecasting climate impacts on biodiversity by Jennifer Molinet @jennifermolinet.bsky.social
710745
Reposted by Rogier Braakman
Jyot Antani @antanij.bsky.social · 16/05/2025
Our latest preprint just dropped @paulturnerlab.bsky.social We evolved bacteria on swim plates, against a phage that attacks through the flagellum. Motility trades off AND trades up(!!) with phage-resistance! www.biorxiv.org/content/10.1...
14012
Reposted by Rogier Braakman
Chenxin Li, PhD @chenxinli2.bsky.social · 16/05/2025
Circadian rhythms at cell type resolution. From: www.nature.com/articles/s41... #PlantScience
nature.com
48-Hour and 24-Hour Time-lapse Single-nucleus Transcriptomics Reveal Cell-type specific Circadian Rhythms in Arabidopsis - Nature Communications
This study employs time-lapse single-nucleus RNA sequencing in Arabidopsis seedlings, revealing distinct circadian rhythms in specific cell types and identifying ABF1 as a regulator that shortens the ...
0154
Reposted by Rogier Braakman
Nature @nature.com · 14/05/2025
Fossil claw prints found in Australia were probably made by the earliest known members of the group that includes reptiles, birds and mammals The findings suggest that this group — the amniotes — originated at least 35 million years earlier than previously thought go.nature.com/4j6rhMB
go.nature.com
Fossil claw marks show reptiles arose far earlier than thought
Tracks in Australia appear to be the earliest known amniote prints — a group that includes reptiles, birds and mammals.
03911
Reposted by Rogier Braakman
Freya Harrison @friendlymicrobe.bsky.social · 15/05/2025
Now at #Biofilms11, @andersohd.bsky.social is introducing epssmash.secondarymetabolites.org - a tool for mining microbial genomes for exopolysaccharide biosynthetic gene clusters. Looks really valuable for finding new & different #biofilm producers #MicroSky
epssmash.secondarymetabolites.org
epsSMASH
0146
Reposted by Rogier Braakman
Shashank Shekhar lab @sshekhr.bsky.social · 02/04/2025
📢Excited to share our new paper in Nature Physics @naturephysics.bsky.social: Cooperative hydrodynamics accompany multicellular-like colonial organization in the unicellular Stentor! How do single-celled organisms benefit from teamwork? Let’s dive in! #Multicellularity nature.com/articles/s41...?
914238
Reposted by Rogier Braakman
Christoph Kaleta @kaletalab.bsky.social · 26/03/2025
1/12 Thrilled to share our latest paper on host-microbiome-interactions in aging out in Nature Microbiology @naturemicrobiol.bsky.social, great work led by Lena Best @sci-witch.bsky.social with the Frahm lab within the ITN SmartAge. @crc1182.bsky.social @uni-kiel.de www.nature.com/articles/s41...
nature.com
Metabolic modelling reveals the aging-associated decline of host–microbiome metabolic interactions in mice - Nature Microbiology
A multi-omics approach reveals host–microbiome interactions in aging in mice.
24119
Reposted by Rogier Braakman
Tominaga K. (tomiken) @pacyc184.bsky.social · 13/05/2025
Cyclization of archaeal membrane lipids impacts membrane protein activity and archaellum formation | PNAS www.pnas.org/doi/abs/10.1073/pnas.2…
pnas.org
Cyclization of archaeal membrane lipids impacts membrane protein activity and archaellum formation | PNAS
Enhancement of the cyclization of membrane lipids GDGTs (glycerol dialkyl glycerol tetraethers) is a critical strategy for archaea to adapt to vari...
096
Reposted by Rogier Braakman
David Sünderhauf @davvi36.bsky.social · 12/05/2025
cool preprint from a few months back: www.biorxiv.org/content/10.1... Really intriguing IS strategy to become fixed in plasmids, where the IS cuts up any plasmid that doesn't contain the insertion sequence
biorxiv.org
RNA-guided nucleases enable a gene drive of insertion sequences in plasmids
Mobile genetic elements (MGEs) and the interactions between them are a major source of evolutionary innovation. Insertion sequences, the simplest MGEs usually encoding only the necessary genes for tra...
0147
Reposted by Rogier Braakman
Bengi Kendrick @fungiwithbengi.bsky.social · 11/05/2025
www.youtube.com/watch?v=7IZ-...
youtube.com
The life of the forest. Fungi
YouTube video by Forest Film Studio
091
Reposted by Rogier Braakman
Jordi Sola @jsola.bsky.social · 08/05/2025
🎉 New paper out! 🪸🌊 Using rocky reefs as a model and a new organising framework, we show heterogeneity effects depend on: 1) how heterogeneity is generated and measured: 2) the traits of responding organisms; and 3) environmental stress @jngriffy.bsky.social @swanseauni.bsky.social 1/7 🧵
1208
Reposted by Rogier Braakman
Eloi Littner @eloilittner.bsky.social · 09/05/2025
Habemus paper! Our story on integron-encoded anti-phage defenses is now out in @science.org! 16 new systems, small versions of known ones, and a lot more in this highly-collaborative study. Many thanks to everyone involved, especially my supervisor @epcrocha.bsky.social bsky.app/profile/bapt...
23318