Malte Rühlemann
@malte.ruehlemann.io
(he/his)
human microbiome science and genetics
first-gen
PI in CRC1182 (@crc1182.bsky.social)
PostDoc at IKMB / Poyet-Groussin Labs (@mmmicrobiomelab.bsky.social)
Kiel, Germany
human microbiome science and genetics
first-gen
PI in CRC1182 (@crc1182.bsky.social)
PostDoc at IKMB / Poyet-Groussin Labs (@mmmicrobiomelab.bsky.social)
Kiel, Germany
Sawhney et al. followed 52 infants from birth to age 8, uncovering how gut microbiomes shift, stabilize, and evolve. A key finding: the emergence and timing of Bacteroides- and Prevotella-dominated enterotypes. 👶🧬 1/n
Gut microbiome evolution from infancy to 8 years of age - Nature Medicine
In a unique cohort of twins followed from birth to 8 years of age, shotgun sequencing of stool samples reveals that the transmission, persistence and evolutionary adaptation of bacterial strains are s...
doi.org
April 7, 2025 at 8:03 AM
Sawhney et al. followed 52 infants from birth to age 8, uncovering how gut microbiomes shift, stabilize, and evolve. A key finding: the emergence and timing of Bacteroides- and Prevotella-dominated enterotypes. 👶🧬 1/n
Reposted by Malte Rühlemann
🔥New Night Science paper!!
Discovery happens when your initial plans fall apart but it requires you to have a particular mindset: it's not extraverted, orderly, neurotic or agreeable that's the most important – discovery requires an OPENNESS to new ideas and unexpected insights.
Discovery happens when your initial plans fall apart but it requires you to have a particular mindset: it's not extraverted, orderly, neurotic or agreeable that's the most important – discovery requires an OPENNESS to new ideas and unexpected insights.
April 2, 2025 at 11:28 AM
🔥New Night Science paper!!
Discovery happens when your initial plans fall apart but it requires you to have a particular mindset: it's not extraverted, orderly, neurotic or agreeable that's the most important – discovery requires an OPENNESS to new ideas and unexpected insights.
Discovery happens when your initial plans fall apart but it requires you to have a particular mindset: it's not extraverted, orderly, neurotic or agreeable that's the most important – discovery requires an OPENNESS to new ideas and unexpected insights.
Not microbiome, but not less interesting: Cousins et al. introduce cobraa, a model revealing that all modern humans descend from two ancestral populations that split ~1.5 million years ago and later admixed ~300,000 years ago. This 80:20% ancestry mix challenges the idea of a panmictic origin 🌍🧬 1/n
March 18, 2025 at 12:04 PM
Not microbiome, but not less interesting: Cousins et al. introduce cobraa, a model revealing that all modern humans descend from two ancestral populations that split ~1.5 million years ago and later admixed ~300,000 years ago. This 80:20% ancestry mix challenges the idea of a panmictic origin 🌍🧬 1/n
Reposted by Malte Rühlemann
Big news: we are setting up a new non-profit organization to run bioRxiv and medRxiv. It's called openRxiv [no it's not a new preprint server; it's dedicated organization to oversee the servers] openrxiv.org 1/n
Homepage - openRxiv
openRxiv is an independent non-profit, the new organizational home for bioRxiv and medRxiv, enabling researchers to instantly share groundbreaking findings with the global scientific community.
openrxiv.org
March 11, 2025 at 1:20 PM
Big news: we are setting up a new non-profit organization to run bioRxiv and medRxiv. It's called openRxiv [no it's not a new preprint server; it's dedicated organization to oversee the servers] openrxiv.org 1/n
Reposted by Malte Rühlemann
👇Four days left to apply! (Friday 14th of March)👇
1/3 🌍 We're hiring! The Medical Systems Biology Lab at Kiel University @uni-kiel.de is looking for a #PostDoc in #Metabolic #Microbiome #Modeling. Join us at one of Europe’s microbiome research hubs and push the boundaries of microbiome science!
🔗 jobs.uksh.de/job/Kiel-Pos...
🔗 jobs.uksh.de/job/Kiel-Pos...
March 10, 2025 at 10:04 AM
👇Four days left to apply! (Friday 14th of March)👇
Reposted by Malte Rühlemann
Excited to share our latest work on the gut microbiome in inflammatory bowel disease patients. This is the result of hard work across generations of trainees in the Donia Lab, in collaboration with amazing scientists (Nobuhiko Kamada and Lea Ann Chen). www.cell.com/cell-host-mi...
February 26, 2025 at 3:41 AM
Excited to share our latest work on the gut microbiome in inflammatory bowel disease patients. This is the result of hard work across generations of trainees in the Donia Lab, in collaboration with amazing scientists (Nobuhiko Kamada and Lea Ann Chen). www.cell.com/cell-host-mi...
Tian et al. designed a synthetic microbiota that suppresses C. difficile infection. Using machine learning, they built a 37-strain synthetic fecal transplant (sFMT1) that successfully inhibited C. difficile in vitro and in animal models. 🦠🛠️ 1/n
March 6, 2025 at 11:59 AM
Tian et al. designed a synthetic microbiota that suppresses C. difficile infection. Using machine learning, they built a 37-strain synthetic fecal transplant (sFMT1) that successfully inhibited C. difficile in vitro and in animal models. 🦠🛠️ 1/n
Reposted by Malte Rühlemann
Lab mice (domesticated for >100y) have kept gut bacterial strains that codiversified w/ rodents for >25My. Here, authors show genetic drift occured in the lab, leading to loss of microb diversity+more deleterious mutations, impacting microbial fitness in lab vs wt mice
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Recent genetic drift in the co-diversified gut bacterial symbionts of laboratory mice - Nature Communications
Here the authors show that lab mice have retained ancient gut bacterial symbionts that diversified in parallel with rodent species, but the genomes of these gut bugs have accumulated mutational burden...
www.nature.com
March 6, 2025 at 12:17 AM
Lab mice (domesticated for >100y) have kept gut bacterial strains that codiversified w/ rodents for >25My. Here, authors show genetic drift occured in the lab, leading to loss of microb diversity+more deleterious mutations, impacting microbial fitness in lab vs wt mice
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Malte Rühlemann
I proudly present a new review paper of my group that just came out in Trends in Microbiology @cp-trendsmicrobiol.bsky.social
with Leonardo Ona and Shryli Shreekar
Disentangling microbial interaction networks
Open access link:
authors.elsevier.com/sd/article/S...
with Leonardo Ona and Shryli Shreekar
Disentangling microbial interaction networks
Open access link:
authors.elsevier.com/sd/article/S...
ScienceDirect.com | Science, health and medical journals, full text articles and books.
authors.elsevier.com
March 5, 2025 at 6:56 AM
I proudly present a new review paper of my group that just came out in Trends in Microbiology @cp-trendsmicrobiol.bsky.social
with Leonardo Ona and Shryli Shreekar
Disentangling microbial interaction networks
Open access link:
authors.elsevier.com/sd/article/S...
with Leonardo Ona and Shryli Shreekar
Disentangling microbial interaction networks
Open access link:
authors.elsevier.com/sd/article/S...
Coming from a GWAS-lab, my research interest for IBD and host-microbe interactions started here: In this classic paper from 2012, Jostins et al. analyzed 75k+ individuals, identifying new IBD-associated genetic loci, many of which reveal deep evolutionary and microbial connections 🦠📊 1/n
March 4, 2025 at 7:28 AM
Coming from a GWAS-lab, my research interest for IBD and host-microbe interactions started here: In this classic paper from 2012, Jostins et al. analyzed 75k+ individuals, identifying new IBD-associated genetic loci, many of which reveal deep evolutionary and microbial connections 🦠📊 1/n
Abdill et al. (@richabdill.com; @blekhman.bsky.social) from the University of Chicago compiled and analyzed 168,000 publicly available human gut microbiome samples to reveal global variation in microbiome composition. 🌎🦠 1/n
March 3, 2025 at 8:11 AM
Abdill et al. (@richabdill.com; @blekhman.bsky.social) from the University of Chicago compiled and analyzed 168,000 publicly available human gut microbiome samples to reveal global variation in microbiome composition. 🌎🦠 1/n
Diener @cdiener.com and colleagues from the Institute for Systems Biology (@isbscience.org) and @medunigraz.at introduce MEDI (Metagenomic Estimation of Dietary Intake), a novel method to quantify dietary intake by analyzing food-derived DNA in stool samples. 🧬🥗 1/n
February 28, 2025 at 9:24 AM
Diener @cdiener.com and colleagues from the Institute for Systems Biology (@isbscience.org) and @medunigraz.at introduce MEDI (Metagenomic Estimation of Dietary Intake), a novel method to quantify dietary intake by analyzing food-derived DNA in stool samples. 🧬🥗 1/n
(unsuccessfully) tried to use ChatGPT for scheduling the internal group talks for the next months giving it a few uncomplicated constraints. at least the naming is somewhat human-like...
February 27, 2025 at 12:50 PM
(unsuccessfully) tried to use ChatGPT for scheduling the internal group talks for the next months giving it a few uncomplicated constraints. at least the naming is somewhat human-like...
The gut microbiome isn’t just a collection of species—it’s a network of evolving subspecies. Doran et al. from the University of Chicago introduce the Spectral Tree, a new way to map these hidden evolutionary relationships. 🌱🧬 1/n
February 27, 2025 at 7:18 AM
The gut microbiome isn’t just a collection of species—it’s a network of evolving subspecies. Doran et al. from the University of Chicago introduce the Spectral Tree, a new way to map these hidden evolutionary relationships. 🌱🧬 1/n
Since beginning of last year, I am a #NewPI within the @dfg.de-funded Collaborative Research Center 1182 "Origin and Function of Metaorganisms", which now also made it's way to Bluesky.
Welcome, @crc1182.bsky.social!
#MicroSky #SciSky
Welcome, @crc1182.bsky.social!
#MicroSky #SciSky
February 26, 2025 at 1:03 PM
Since beginning of last year, I am a #NewPI within the @dfg.de-funded Collaborative Research Center 1182 "Origin and Function of Metaorganisms", which now also made it's way to Bluesky.
Welcome, @crc1182.bsky.social!
#MicroSky #SciSky
Welcome, @crc1182.bsky.social!
#MicroSky #SciSky
Reposted by Malte Rühlemann
We're hiring a postdoc!🚨
Study human-associated microbial communities in health & disease.
🔬Requirements:
- PhD in bioinformatics, microbiology, or related field
- Expertise in omics
- Strong publication record
Apply now!🌟 jobs.vib.be/j/69697/post...
@vibmicrobes.bsky.social
Study human-associated microbial communities in health & disease.
🔬Requirements:
- PhD in bioinformatics, microbiology, or related field
- Expertise in omics
- Strong publication record
Apply now!🌟 jobs.vib.be/j/69697/post...
@vibmicrobes.bsky.social
Postdoctoral position in bioinformatics of the human gut microbiome - VIB
About the Lab
Thelab of JeroenRaes(VIB, KU Leuven) is home to a vibrant, dynamic and international group of researchers in the field of gut microbial ecology and its clinical applications
jobs.vib.be
February 20, 2025 at 7:53 AM
We're hiring a postdoc!🚨
Study human-associated microbial communities in health & disease.
🔬Requirements:
- PhD in bioinformatics, microbiology, or related field
- Expertise in omics
- Strong publication record
Apply now!🌟 jobs.vib.be/j/69697/post...
@vibmicrobes.bsky.social
Study human-associated microbial communities in health & disease.
🔬Requirements:
- PhD in bioinformatics, microbiology, or related field
- Expertise in omics
- Strong publication record
Apply now!🌟 jobs.vib.be/j/69697/post...
@vibmicrobes.bsky.social
Reposted by Malte Rühlemann
Setting new boundaries of 16S rRNA gene identity for prokaryotic taxonomy www.biorxiv.org/content/10.1... #jcampubs
Setting new boundaries of 16S rRNA gene identity for prokaryotic taxonomy
The 16S ribosomal RNA (rRNA) gene is frequently sequenced to classify prokaryotes and identify new taxa. If sequences from two strains share less than ~99% identity, the strains are usually classified...
www.biorxiv.org
February 5, 2025 at 2:33 PM
Setting new boundaries of 16S rRNA gene identity for prokaryotic taxonomy www.biorxiv.org/content/10.1... #jcampubs
Reposted by Malte Rühlemann
Auschwitz was at the end of a long process. It did not start from gas chambers.
This hatred was gradually developed by humans. From ideas, words, stereotypes & prejudice through legal exclusion, dehumanization & escalating violence... to systematic and industrial murder.
Auschwitz took time.
This hatred was gradually developed by humans. From ideas, words, stereotypes & prejudice through legal exclusion, dehumanization & escalating violence... to systematic and industrial murder.
Auschwitz took time.
January 27, 2025 at 10:00 AM
Auschwitz was at the end of a long process. It did not start from gas chambers.
This hatred was gradually developed by humans. From ideas, words, stereotypes & prejudice through legal exclusion, dehumanization & escalating violence... to systematic and industrial murder.
Auschwitz took time.
This hatred was gradually developed by humans. From ideas, words, stereotypes & prejudice through legal exclusion, dehumanization & escalating violence... to systematic and industrial murder.
Auschwitz took time.
Reposted by Malte Rühlemann
To mark #InternationalHolocaustRemembranceDay, you can help build the world’s largest digital memorial to the victims and survivors of Nazism. We want to digitize 27,000 prisoner registration cards from Auschwitz & other concentration camps. Join in and help! everynamecounts.arolsen-archives.org/en/
January 24, 2025 at 7:34 AM
To mark #InternationalHolocaustRemembranceDay, you can help build the world’s largest digital memorial to the victims and survivors of Nazism. We want to digitize 27,000 prisoner registration cards from Auschwitz & other concentration camps. Join in and help! everynamecounts.arolsen-archives.org/en/
Combining 168k gut microbiome samples into a single analysis - what a great and important effort. Congrats!
Today we report a new compendium of human gut microbiomes with >168,000 samples
By analyzing this massive dataset, we discovered distinct microbiome patterns across the globe, and show we can predict where a person lives just from their gut bacteria
Now out in Cell:
www.cell.com/cell/fulltex...
By analyzing this massive dataset, we discovered distinct microbiome patterns across the globe, and show we can predict where a person lives just from their gut bacteria
Now out in Cell:
www.cell.com/cell/fulltex...
Integration of 168,000 samples reveals global patterns of the human gut microbiome
The Human Microbiome Compendium is a unified database of publicly available human
gut microbiome 16S samples, built with the integrated data from hundreds of independent
projects. The compendium is us...
www.cell.com
January 23, 2025 at 7:45 AM
Combining 168k gut microbiome samples into a single analysis - what a great and important effort. Congrats!
Reposted by Malte Rühlemann
We are looking for 2 #postdoctoral fellows on #gutmicrobiota, #diet and the #gut mucosal barrier in #health and #disease!
Details & Application: umustipendie.varbi.com/en/what:job/...
Please share!!
#postdoc #postdocjob #academicjobs #MicroSky #GISky #Microbiome #MicroSky #AcademicSky #PhdSky
Details & Application: umustipendie.varbi.com/en/what:job/...
Please share!!
#postdoc #postdocjob #academicjobs #MicroSky #GISky #Microbiome #MicroSky #AcademicSky #PhdSky
December 9, 2024 at 11:19 AM
We are looking for 2 #postdoctoral fellows on #gutmicrobiota, #diet and the #gut mucosal barrier in #health and #disease!
Details & Application: umustipendie.varbi.com/en/what:job/...
Please share!!
#postdoc #postdocjob #academicjobs #MicroSky #GISky #Microbiome #MicroSky #AcademicSky #PhdSky
Details & Application: umustipendie.varbi.com/en/what:job/...
Please share!!
#postdoc #postdocjob #academicjobs #MicroSky #GISky #Microbiome #MicroSky #AcademicSky #PhdSky
Reposted by Malte Rühlemann
Hey #HiSciSky 👋.
I'm a post-doc researcher with a background in scientific device dev.
I have just released an open-source STEM-Education project for a $40, 3D-printed, DNA fluorometer with ng/uL levels of sensitivity. Follow for updates!
GitHub Repo: github.com/traulab/DIYN...
#DIYNAFLUOR #STEM
I'm a post-doc researcher with a background in scientific device dev.
I have just released an open-source STEM-Education project for a $40, 3D-printed, DNA fluorometer with ng/uL levels of sensitivity. Follow for updates!
GitHub Repo: github.com/traulab/DIYN...
#DIYNAFLUOR #STEM
December 8, 2024 at 6:13 AM
Hey #HiSciSky 👋.
I'm a post-doc researcher with a background in scientific device dev.
I have just released an open-source STEM-Education project for a $40, 3D-printed, DNA fluorometer with ng/uL levels of sensitivity. Follow for updates!
GitHub Repo: github.com/traulab/DIYN...
#DIYNAFLUOR #STEM
I'm a post-doc researcher with a background in scientific device dev.
I have just released an open-source STEM-Education project for a $40, 3D-printed, DNA fluorometer with ng/uL levels of sensitivity. Follow for updates!
GitHub Repo: github.com/traulab/DIYN...
#DIYNAFLUOR #STEM
End-of-the-year-vibes with little sleep and lots of things to be done.
www.youtube.com/watch?v=wNfK...
www.youtube.com/watch?v=wNfK...
Phoebe Bridgers - If We Make It Through December (Official Audio)
YouTube video by Dead Oceans
www.youtube.com
December 4, 2024 at 8:27 AM
End-of-the-year-vibes with little sleep and lots of things to be done.
www.youtube.com/watch?v=wNfK...
www.youtube.com/watch?v=wNfK...
Reposted by Malte Rühlemann
1/3 🌍 We're hiring! The Medical Systems Biology Lab at Kiel University is looking for a passionate #PostDoc in #Metabolic #Microbiome #Modeling. Join us at one of Europe’s microbiome research hubs and push the boundaries of microbiome science! @kieluni @UKSH_KI_HL
🔗 jobs.uksh.de/job/Kiel-Pos...
🔗 jobs.uksh.de/job/Kiel-Pos...
November 15, 2024 at 9:24 AM
1/3 🌍 We're hiring! The Medical Systems Biology Lab at Kiel University is looking for a passionate #PostDoc in #Metabolic #Microbiome #Modeling. Join us at one of Europe’s microbiome research hubs and push the boundaries of microbiome science! @kieluni @UKSH_KI_HL
🔗 jobs.uksh.de/job/Kiel-Pos...
🔗 jobs.uksh.de/job/Kiel-Pos...
Returning after a first month of parental leave, I am thrilled to see many reasearchers moving to this place. A good timepoint to re-introduce myself:
I am a PostDoc at @mmmicrobiomelab.bsky.social interested in how the human microbiome is shaped by lifestyle, disease, genetics and evolution.
I am a PostDoc at @mmmicrobiomelab.bsky.social interested in how the human microbiome is shaped by lifestyle, disease, genetics and evolution.
November 22, 2024 at 8:55 AM
Returning after a first month of parental leave, I am thrilled to see many reasearchers moving to this place. A good timepoint to re-introduce myself:
I am a PostDoc at @mmmicrobiomelab.bsky.social interested in how the human microbiome is shaped by lifestyle, disease, genetics and evolution.
I am a PostDoc at @mmmicrobiomelab.bsky.social interested in how the human microbiome is shaped by lifestyle, disease, genetics and evolution.