Maryse Berkhout
@maryseberkhout.bsky.social
Microbes & mucus 🤩 | Gut Microbial Ecology | Wageningen University, NL
Pinned
Mucin-driven ecological interactions in an in vitro synthetic community of human gut microbes
Abstract. Specific human gut microbes inhabit the outer mucus layer of the gastrointestinal tract. Certain residents of this niche can degrade the large an
academic.oup.com
📚 I am happy to share that our latest paper is out in Glycobiology!
🦠 We developed a synthetic community of human gut microbes that completely degrades mucin glycans.
🔬 We studied its enzymes and ecological interactions in vitro.
#glycotime #mucin #microbiome
academic.oup.com/glycob/artic...
🦠 We developed a synthetic community of human gut microbes that completely degrades mucin glycans.
🔬 We studied its enzymes and ecological interactions in vitro.
#glycotime #mucin #microbiome
academic.oup.com/glycob/artic...
Reposted by Maryse Berkhout
#MicroSky: ONE HEALTH: Gut bacteria can influence fertility! Ding et al found certain E. coli strains that protect against drug-induced reproductive damage in worms and mice. These “probiotic helpers” could lead to new ways to support male fertility. Read MBT doi.org/10.1111/1751...
November 6, 2025 at 11:02 AM
#MicroSky: ONE HEALTH: Gut bacteria can influence fertility! Ding et al found certain E. coli strains that protect against drug-induced reproductive damage in worms and mice. These “probiotic helpers” could lead to new ways to support male fertility. Read MBT doi.org/10.1111/1751...
Reposted by Maryse Berkhout
#microsky #mevosky @spp2389.bsky.social
A PhD position is available in my lab to work on:
Emergence and self-organisation of bacterial metabolism in consortia of cross-feeding bacteria.
Please RT
Deadline: 12.11.25
More infos 👇
shorturl.at/rAKAT
A PhD position is available in my lab to work on:
Emergence and self-organisation of bacterial metabolism in consortia of cross-feeding bacteria.
Please RT
Deadline: 12.11.25
More infos 👇
shorturl.at/rAKAT
October 28, 2025 at 8:43 AM
#microsky #mevosky @spp2389.bsky.social
A PhD position is available in my lab to work on:
Emergence and self-organisation of bacterial metabolism in consortia of cross-feeding bacteria.
Please RT
Deadline: 12.11.25
More infos 👇
shorturl.at/rAKAT
A PhD position is available in my lab to work on:
Emergence and self-organisation of bacterial metabolism in consortia of cross-feeding bacteria.
Please RT
Deadline: 12.11.25
More infos 👇
shorturl.at/rAKAT
Reposted by Maryse Berkhout
OUT NOW - Long-read metagenomics method for strain tracking after FMT #microsky www.nature.com/articles/s41...
Long-read metagenomics for strain tracking after faecal microbiota transplant - Nature Microbiology
A long-read metagenomics method empowers faecal microbiota transplantation studies by precisely tracking bacteria from donors to recipients, distinguishing co-existing strains and revealing genomic ch...
www.nature.com
October 23, 2025 at 12:59 PM
OUT NOW - Long-read metagenomics method for strain tracking after FMT #microsky www.nature.com/articles/s41...
Reposted by Maryse Berkhout
Elin Thomas, UK textile artist who uses embroidery/crochet to create unique work resembling petri dishes and bacteria spores #womensart
October 7, 2025 at 4:38 AM
Elin Thomas, UK textile artist who uses embroidery/crochet to create unique work resembling petri dishes and bacteria spores #womensart
👩🎓 I am a doctor now! #PhDone @w-u-r.bsky.social @mib-wur.bsky.social
❤️ Thank you everyone for making the big day - and the entire PhD journey - such a memorable one
🦠 Looking forward to what's next #microsky
📸 Picture by en.phddefencephoto.com
❤️ Thank you everyone for making the big day - and the entire PhD journey - such a memorable one
🦠 Looking forward to what's next #microsky
📸 Picture by en.phddefencephoto.com
October 6, 2025 at 2:31 PM
👩🎓 I am a doctor now! #PhDone @w-u-r.bsky.social @mib-wur.bsky.social
❤️ Thank you everyone for making the big day - and the entire PhD journey - such a memorable one
🦠 Looking forward to what's next #microsky
📸 Picture by en.phddefencephoto.com
❤️ Thank you everyone for making the big day - and the entire PhD journey - such a memorable one
🦠 Looking forward to what's next #microsky
📸 Picture by en.phddefencephoto.com
Reposted by Maryse Berkhout
Reposted by Maryse Berkhout
Deciphering microbial spatial organization: insights from synthetic and engineered communities url: academic.oup.com/ismecommun/a...
Deciphering microbial spatial organization: insights from synthetic and engineered communities
Abstract. Microbial communities are frequently organized into complex spatial structures, shaped by intrinsic cellular traits, interactions between communi
academic.oup.com
September 11, 2025 at 6:23 AM
Reposted by Maryse Berkhout
Reposted by Maryse Berkhout
#Editorial
In this month's editorial, we talk about microbial foods. Bacteria and fungi can augment the flavour, composition and sustainability of foods, but more research is needed to push microbial foods — and consumer palates — to new heights.
#MicroSky 🦠
www.nature.com/articles/s41...
In this month's editorial, we talk about microbial foods. Bacteria and fungi can augment the flavour, composition and sustainability of foods, but more research is needed to push microbial foods — and consumer palates — to new heights.
#MicroSky 🦠
www.nature.com/articles/s41...
Microbes on the menu - Nature Microbiology
Bacteria and fungi can augment the flavour, composition and sustainability of foods, but more research is needed to push microbial foods — and consumer palates — to new heights.
www.nature.com
September 8, 2025 at 5:58 AM
#Editorial
In this month's editorial, we talk about microbial foods. Bacteria and fungi can augment the flavour, composition and sustainability of foods, but more research is needed to push microbial foods — and consumer palates — to new heights.
#MicroSky 🦠
www.nature.com/articles/s41...
In this month's editorial, we talk about microbial foods. Bacteria and fungi can augment the flavour, composition and sustainability of foods, but more research is needed to push microbial foods — and consumer palates — to new heights.
#MicroSky 🦠
www.nature.com/articles/s41...
Reposted by Maryse Berkhout
Reposted by Maryse Berkhout
Ecological design of high-performance synthetic microbial communities: from theoretical foundations to functional optimization
#SynCom
in #ISMEComms
academic.oup.com/ismecommun/a...
#SynCom
in #ISMEComms
academic.oup.com/ismecommun/a...
Ecological design of high-performance synthetic microbial communities: from theoretical foundations to functional optimization
Abstract. The complexity of natural microbial communities poses significant challenges for predictive manipulation, driving the emergence of Synthetic Micr
academic.oup.com
August 25, 2025 at 7:54 AM
Ecological design of high-performance synthetic microbial communities: from theoretical foundations to functional optimization
#SynCom
in #ISMEComms
academic.oup.com/ismecommun/a...
#SynCom
in #ISMEComms
academic.oup.com/ismecommun/a...
💡 Curious how we applied a synthetic community to study interactions between baby gut microbes and a lot of different sugars?
📖 I wrote a blog for the #FEMSmicroBlog to explain!
🦠 #microsky #microbiomesky #glycotime
fems-microbiology.org/femsmicroblo...
📖 I wrote a blog for the #FEMSmicroBlog to explain!
🦠 #microsky #microbiomesky #glycotime
fems-microbiology.org/femsmicroblo...
Interactions between a mother’s milk and baby's microbes
To explore the interactions between a baby's gut microbes and mother's milk, a study applies a synthetic community of glycan degraders and cross-feeders.
fems-microbiology.org
August 19, 2025 at 10:11 AM
💡 Curious how we applied a synthetic community to study interactions between baby gut microbes and a lot of different sugars?
📖 I wrote a blog for the #FEMSmicroBlog to explain!
🦠 #microsky #microbiomesky #glycotime
fems-microbiology.org/femsmicroblo...
📖 I wrote a blog for the #FEMSmicroBlog to explain!
🦠 #microsky #microbiomesky #glycotime
fems-microbiology.org/femsmicroblo...
Reposted by Maryse Berkhout
Milk sugars from the mother play crucial roles in the development of a baby's gut microbiome. 🍼
To explore the interactions between sugars and the gut microbes in an infant, a study applies a community of glycan degraders and cross-feeders. #FEMSmicroBlog #FascinatingMicrobes
To explore the interactions between sugars and the gut microbes in an infant, a study applies a community of glycan degraders and cross-feeders. #FEMSmicroBlog #FascinatingMicrobes
About the interactions between sugars from mother’s milk and the baby’s microbes
To explore the interactions between different sugars and the gut microbes in an infant, a new study applies a synthetic community consisting of glycan degraders and cross-feeders.
buff.ly
August 19, 2025 at 7:43 AM
Milk sugars from the mother play crucial roles in the development of a baby's gut microbiome. 🍼
To explore the interactions between sugars and the gut microbes in an infant, a study applies a community of glycan degraders and cross-feeders. #FEMSmicroBlog #FascinatingMicrobes
To explore the interactions between sugars and the gut microbes in an infant, a study applies a community of glycan degraders and cross-feeders. #FEMSmicroBlog #FascinatingMicrobes
Reposted by Maryse Berkhout
New paper from Burcu - working towards describing 'immune education' journals.plos.org/plosbiology/...
A model of early-life interactions between the gut microbiome and adaptive immunity provides insights into the ontogeny of immune tolerance
The developing immune system must learn which microbes to tolerate and which to resist, but how this process unfolds is unclear. This study develops a mechanistic mathematical model of early-life gut ...
journals.plos.org
August 17, 2025 at 11:57 AM
New paper from Burcu - working towards describing 'immune education' journals.plos.org/plosbiology/...
Reposted by Maryse Berkhout
Summer strike #2: Our collaboration work with Arla Foods Ingredients has just been published in Food Research International:
www.sciencedirect.com/science/arti...
#microsky #gastrosky #microbiomesky #guthealth
www.sciencedirect.com/science/arti...
#microsky #gastrosky #microbiomesky #guthealth
Milk-derived casein glycomacropeptide improves colonic mucus function under Western-style diet feeding in a sialylation-dependent manner
The colonic mucus layer is the primary interface between the host and the gut microbiota. It serves both as an ecological niche for bacteria and a bar…
www.sciencedirect.com
August 11, 2025 at 9:35 PM
Summer strike #2: Our collaboration work with Arla Foods Ingredients has just been published in Food Research International:
www.sciencedirect.com/science/arti...
#microsky #gastrosky #microbiomesky #guthealth
www.sciencedirect.com/science/arti...
#microsky #gastrosky #microbiomesky #guthealth
Reposted by Maryse Berkhout
#Perspective
In this perspective, the authors propose research priorities necessary to facilitate the application of these ecological principles to improve microbiome functionality.
#MicroSky #MicrobiomeSky 🦠
www.nature.com/articles/s41...
In this perspective, the authors propose research priorities necessary to facilitate the application of these ecological principles to improve microbiome functionality.
#MicroSky #MicrobiomeSky 🦠
www.nature.com/articles/s41...
Applying ecological principles to microbiome engineering - Nature Microbiology
This Perspective discusses the application of ecological principles of macro-ecosystems to microbiome engineering. The authors propose research priorities necessary to facilitate the application of th...
www.nature.com
August 7, 2025 at 6:30 PM
#Perspective
In this perspective, the authors propose research priorities necessary to facilitate the application of these ecological principles to improve microbiome functionality.
#MicroSky #MicrobiomeSky 🦠
www.nature.com/articles/s41...
In this perspective, the authors propose research priorities necessary to facilitate the application of these ecological principles to improve microbiome functionality.
#MicroSky #MicrobiomeSky 🦠
www.nature.com/articles/s41...
Reposted by Maryse Berkhout
Counting soil microbial communities: the impact of qPCR platform and mastermix on accuracy and precision
#FEMS Mcirobiol Ecol by @aoifeduff.bsky.social et al
academic.oup.com/femsec/artic...
#FEMS Mcirobiol Ecol by @aoifeduff.bsky.social et al
academic.oup.com/femsec/artic...
Counting soil microbial communities: the impact of qPCR platform and mastermix on accuracy and precision
qPCR is used to measure soil microorganisms but can be affected by inhibitors, change in mastermix, and platform. This study measured precision and accurac
academic.oup.com
July 28, 2025 at 2:08 PM
Counting soil microbial communities: the impact of qPCR platform and mastermix on accuracy and precision
#FEMS Mcirobiol Ecol by @aoifeduff.bsky.social et al
academic.oup.com/femsec/artic...
#FEMS Mcirobiol Ecol by @aoifeduff.bsky.social et al
academic.oup.com/femsec/artic...
Reposted by Maryse Berkhout
#microsky #microbiomesky
Controlled colonization of the human gut with a genetically engineered microbial therapeutic | Science www.science.org/doi/10.1126/...
Controlled colonization of the human gut with a genetically engineered microbial therapeutic | Science www.science.org/doi/10.1126/...
Controlled colonization of the human gut with a genetically engineered microbial therapeutic
Precision microbiome programming for therapeutic applications is limited by challenges in achieving reproducible colonic colonization. Previously, we created an exclusive niche that we used to engraft...
www.science.org
July 18, 2025 at 5:18 AM
#microsky #microbiomesky
Controlled colonization of the human gut with a genetically engineered microbial therapeutic | Science www.science.org/doi/10.1126/...
Controlled colonization of the human gut with a genetically engineered microbial therapeutic | Science www.science.org/doi/10.1126/...
Reposted by Maryse Berkhout
Nice! A bacterium that is poorly described in literature can boost the function of check point therapy inhibitors in mice- shows the potential of microbiome that we have only just started to tap into -summary here 🧪 #MicroSky #ImmunoSky 🧵
Found: a human gut microbe that makes cancer therapy more effective in mice
Cancer therapies called checkpoint inhibitor drugs, which ratchet up the immune system, work better when this bacterium is around.
www.nature.com
July 18, 2025 at 7:46 AM
Nice! A bacterium that is poorly described in literature can boost the function of check point therapy inhibitors in mice- shows the potential of microbiome that we have only just started to tap into -summary here 🧪 #MicroSky #ImmunoSky 🧵
Another publication in @femsjournals.bsky.social @femsmicro.org 🔬
How do glycans shape the infant gut microbiota? 👶
With a novel in vitro synthetic community we studied the interplay between microbes and HMOs, mucin glycans and GOS/FOS.🍼🤱🦠
#microsky #glycotime
doi.org/10.1093/fems...
How do glycans shape the infant gut microbiota? 👶
With a novel in vitro synthetic community we studied the interplay between microbes and HMOs, mucin glycans and GOS/FOS.🍼🤱🦠
#microsky #glycotime
doi.org/10.1093/fems...
Milk and mucin glycans orchestrate a synthetic infant gut microbiota structure
Dietary and gut glycans drive the composition of an in vitro synthetic community of infant gut microbes.
doi.org
July 17, 2025 at 1:03 PM
Another publication in @femsjournals.bsky.social @femsmicro.org 🔬
How do glycans shape the infant gut microbiota? 👶
With a novel in vitro synthetic community we studied the interplay between microbes and HMOs, mucin glycans and GOS/FOS.🍼🤱🦠
#microsky #glycotime
doi.org/10.1093/fems...
How do glycans shape the infant gut microbiota? 👶
With a novel in vitro synthetic community we studied the interplay between microbes and HMOs, mucin glycans and GOS/FOS.🍼🤱🦠
#microsky #glycotime
doi.org/10.1093/fems...
Reposted by Maryse Berkhout
New RESOURCE!
Integrative genomic reconstruction reveals heterogeneity in carbohydrate utilization across human gut bifidobacteria
@arzamasovalex.bsky.social @drlarsbode.bsky.social Andrei Osterman, Jeff Gordon & co
#microbiomesky #microsky
www.nature.com/articles/s41...
Integrative genomic reconstruction reveals heterogeneity in carbohydrate utilization across human gut bifidobacteria
@arzamasovalex.bsky.social @drlarsbode.bsky.social Andrei Osterman, Jeff Gordon & co
#microbiomesky #microsky
www.nature.com/articles/s41...
Integrative genomic reconstruction reveals heterogeneity in carbohydrate utilization across human gut bifidobacteria - Nature Microbiology
A comprehensive genomic analysis reveals species- and strain-level heterogeneity in carbohydrate utilization potential across bifidobacteria of human origin.
www.nature.com
July 16, 2025 at 11:31 AM
New RESOURCE!
Integrative genomic reconstruction reveals heterogeneity in carbohydrate utilization across human gut bifidobacteria
@arzamasovalex.bsky.social @drlarsbode.bsky.social Andrei Osterman, Jeff Gordon & co
#microbiomesky #microsky
www.nature.com/articles/s41...
Integrative genomic reconstruction reveals heterogeneity in carbohydrate utilization across human gut bifidobacteria
@arzamasovalex.bsky.social @drlarsbode.bsky.social Andrei Osterman, Jeff Gordon & co
#microbiomesky #microsky
www.nature.com/articles/s41...
Just published in @femsjournals.bsky.social🦠:
Akkermansia muciniphila, Ruminococcus torques and Bacteroides thetaiotaomicron differ in their preferences for degradation of porcine gastric mucin O- and N-glycans.
#microsky #microbiomesky #glycotime @mib-wur.bsky.social
doi.org/10.1093/fems...
Akkermansia muciniphila, Ruminococcus torques and Bacteroides thetaiotaomicron differ in their preferences for degradation of porcine gastric mucin O- and N-glycans.
#microsky #microbiomesky #glycotime @mib-wur.bsky.social
doi.org/10.1093/fems...
Distinct in vitro utilization and degradation of porcine gastric mucin glycans by human intestinal bacteria
The degradation and utilization of mucin glycans depend on microbial composition and the interactions between the present bacteria.
doi.org
July 15, 2025 at 12:59 PM
Just published in @femsjournals.bsky.social🦠:
Akkermansia muciniphila, Ruminococcus torques and Bacteroides thetaiotaomicron differ in their preferences for degradation of porcine gastric mucin O- and N-glycans.
#microsky #microbiomesky #glycotime @mib-wur.bsky.social
doi.org/10.1093/fems...
Akkermansia muciniphila, Ruminococcus torques and Bacteroides thetaiotaomicron differ in their preferences for degradation of porcine gastric mucin O- and N-glycans.
#microsky #microbiomesky #glycotime @mib-wur.bsky.social
doi.org/10.1093/fems...