Jonathon L. Baker, Ph.D.
@jonbakerlab.bsky.social
Using Microbiology and Bioinformatics to discover how the bacteria that live in our mouth impact health and disease. Assistant Professor at Oregon Health & Science University. Tweets my own.
jonbakerlab.github.io
jonbakerlab.github.io
Reposted by Jonathon L. Baker, Ph.D.
Really cool paper from @vincentdebakker.bsky.social @jonbakerlab.bsky.social now published @natcomms.nature.com #MicroSky www.nature.com/articles/s41...
Multi-omics profiling reveals atypical sugar utilization and a key membrane composition regulator in Streptococcus pneumoniae - Nature Communications
The pathogen Streptococcus pneumoniae can adapt to diverse microenvironments in the human body. Here, De Bakker et al. study these adaptation responses, showing unusual sugar utilization and identifyi...
www.nature.com
November 25, 2025 at 1:44 PM
Really cool paper from @vincentdebakker.bsky.social @jonbakerlab.bsky.social now published @natcomms.nature.com #MicroSky www.nature.com/articles/s41...
New Publication! In this collaboration with @veeninglab.com at the @unil.bsky.social, we used multi-omics to examine the response of Streptococcus pneumoniae to infection-mimicking growth conditions, discovering a novel regulator of membrane fatty acid composition.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Multi-omics profiling reveals atypical sugar utilization and a key membrane composition regulator in Streptococcus pneumoniae - Nature Communications
The pathogen Streptococcus pneumoniae can adapt to diverse microenvironments in the human body. Here, De Bakker et al. study these adaptation responses, showing unusual sugar utilization and identifyi...
www.nature.com
November 25, 2025 at 5:04 PM
New Publication! In this collaboration with @veeninglab.com at the @unil.bsky.social, we used multi-omics to examine the response of Streptococcus pneumoniae to infection-mimicking growth conditions, discovering a novel regulator of membrane fatty acid composition.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Last week, Molly Burnside from our lab did an amazing job presenting her research on Corynebacterium at the 2025 @asm.org Conference on Biofilms. Molly is applying to PhD programs this fall, and she is going to have a huge amount of success wherever she decides to go!
#microbiology #dentistry
#microbiology #dentistry
November 22, 2025 at 5:05 PM
Last week, Molly Burnside from our lab did an amazing job presenting her research on Corynebacterium at the 2025 @asm.org Conference on Biofilms. Molly is applying to PhD programs this fall, and she is going to have a huge amount of success wherever she decides to go!
#microbiology #dentistry
#microbiology #dentistry
November 14, 2025 at 12:38 AM
With my colleague Dr. Jens Kreth representing OHSU and the USA at what was a fantastic conference!
#microbiology #dentistry #immunology
#microbiology #dentistry #immunology
October 18, 2025 at 9:33 PM
With my colleague Dr. Jens Kreth representing OHSU and the USA at what was a fantastic conference!
#microbiology #dentistry #immunology
#microbiology #dentistry #immunology
After spending 7 months earlier this year visiting our lab at @ohsunews.bsky.social on a scholarship, Dr. Felipe Farias da Silva recently presented his work with us at the 2025 meeting of the Brazilian Society of Dental Research. Way to go Felipe! #microbiology #dentistry
September 13, 2025 at 12:23 AM
After spending 7 months earlier this year visiting our lab at @ohsunews.bsky.social on a scholarship, Dr. Felipe Farias da Silva recently presented his work with us at the 2025 meeting of the Brazilian Society of Dental Research. Way to go Felipe! #microbiology #dentistry
This summer, we hosted Sadie Drucker (Scripps Coll.) and Michelle Lee (Oregon State Univ.), through our NIH-funded DORS program. They did an amazing job, and Sadie won Best Poster at the OHSU Summer Internship Symposium! We wish them the best on the next step in their careers!
August 21, 2025 at 5:38 PM
This summer, we hosted Sadie Drucker (Scripps Coll.) and Michelle Lee (Oregon State Univ.), through our NIH-funded DORS program. They did an amazing job, and Sadie won Best Poster at the OHSU Summer Internship Symposium! We wish them the best on the next step in their careers!
Microbiology faculty welcoming incoming OHSU President, Dr. Shereef Elnahal, at a celebration for the Knight family’s $2B donation to our university to fight cancer.
#microbiology
#microbiology
August 20, 2025 at 3:50 PM
Microbiology faculty welcoming incoming OHSU President, Dr. Shereef Elnahal, at a celebration for the Knight family’s $2B donation to our university to fight cancer.
#microbiology
#microbiology
The Baker Lab at OHSU, Summer 2025. 🦠🔬🧫🧪
#microbiology
#microbiology
August 16, 2025 at 8:52 PM
The Baker Lab at OHSU, Summer 2025. 🦠🔬🧫🧪
#microbiology
#microbiology
New publication!
We examined the viruses present in the human oral microbiome of children with severe cavities versus healthy teeth and there was a significant difference in the diversity of viruses present in the groups!
journals.asm.org/eprint/FDPZ4...
We examined the viruses present in the human oral microbiome of children with severe cavities versus healthy teeth and there was a significant difference in the diversity of viruses present in the groups!
journals.asm.org/eprint/FDPZ4...
The salivary virome during childhood dental caries | mSphere
Dental caries is the most common chronic infectious disease worldwide and is caused
by dysbiosis of the oral microbiome featuring an increased abundance of acid-tolerant,
acid-producing, and biofilm-f...
journals.asm.org
July 28, 2025 at 5:31 PM
New publication!
We examined the viruses present in the human oral microbiome of children with severe cavities versus healthy teeth and there was a significant difference in the diversity of viruses present in the groups!
journals.asm.org/eprint/FDPZ4...
We examined the viruses present in the human oral microbiome of children with severe cavities versus healthy teeth and there was a significant difference in the diversity of viruses present in the groups!
journals.asm.org/eprint/FDPZ4...
Reposted by Jonathon L. Baker, Ph.D.
If high quality treatment is provided to everyone with bacterial infections + innovative new antibiotics funded ...
By 2050:
Health costs ⬇️ $97 billion
The economy ⬆️ $960 billion
Generated health benefits 🟰 $680 billion to countries
Return on Investment 🟰 28 to 1
www.cgdev.org/publication/...
By 2050:
Health costs ⬇️ $97 billion
The economy ⬆️ $960 billion
Generated health benefits 🟰 $680 billion to countries
Return on Investment 🟰 28 to 1
www.cgdev.org/publication/...
July 21, 2025 at 4:45 PM
If high quality treatment is provided to everyone with bacterial infections + innovative new antibiotics funded ...
By 2050:
Health costs ⬇️ $97 billion
The economy ⬆️ $960 billion
Generated health benefits 🟰 $680 billion to countries
Return on Investment 🟰 28 to 1
www.cgdev.org/publication/...
By 2050:
Health costs ⬇️ $97 billion
The economy ⬆️ $960 billion
Generated health benefits 🟰 $680 billion to countries
Return on Investment 🟰 28 to 1
www.cgdev.org/publication/...
Excited to see this out! We identified a novel regulator of fatty acid composition in S. pneumoniae (among a lot of other cool stuff in the paper)!
Some positive news in troubled times: New preprint by Vincent de Bakker, Xue Liu @jonbakerlab.bsky.social Infection-mimicking conditions+transcriptomics/proteomics/'essentialomics'/lipidomics shows many cool things!
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Multi-omics profiling reveals atypical sugar utilization and identifies a key membrane composition regulator in Streptococcus pneumoniae
The human body comprises many different microenvironments, each with their own challenges for microorganisms to overcome in order to survive, and possibly cause infection. The human pathogen Streptoco...
www.biorxiv.org
June 15, 2025 at 11:13 PM
Excited to see this out! We identified a novel regulator of fatty acid composition in S. pneumoniae (among a lot of other cool stuff in the paper)!
May 30, 2025 at 8:55 PM
Congratulations to our high school intern, Daniela, and our Research Assistants, Matthew and Jonah, on publishing their pilot study on the impact of beetroot supplement on an in-vitro microbiome of e-cigarette users! #microbiology #dentistry
www.tandfonline.com/doi/full/10....
www.tandfonline.com/doi/full/10....
The effect of Beta vulgaris on an in vitro oral microbiome of electronic cigarette users
Although touted as a safer alternative to cigarette smoking, electronic cigarette usage has been increasingly linked to a myriad of health issues and appears to impact the oral microbiome. Meanwhil...
www.tandfonline.com
May 26, 2025 at 12:01 AM
Congratulations to our high school intern, Daniela, and our Research Assistants, Matthew and Jonah, on publishing their pilot study on the impact of beetroot supplement on an in-vitro microbiome of e-cigarette users! #microbiology #dentistry
www.tandfonline.com/doi/full/10....
www.tandfonline.com/doi/full/10....
I was interviewed by Business Insider magazine as part of an article about the impact of the oral microbiome on overall human health!
#microbiology #dentistry
www.businessinsider.com/oral-microbi...
#microbiology #dentistry
www.businessinsider.com/oral-microbi...
Cleaning your teeth could help you live longer: meet your oral microbiome
You may know that caring for your gut microbiome could help you live longer. But brushing and flossing your teeth is also a potential shortcut to better health.
www.businessinsider.com
May 9, 2025 at 2:56 PM
I was interviewed by Business Insider magazine as part of an article about the impact of the oral microbiome on overall human health!
#microbiology #dentistry
www.businessinsider.com/oral-microbi...
#microbiology #dentistry
www.businessinsider.com/oral-microbi...
New publication!
Our findings reveal that the specificity of several FISH probes is compromised, with cross-species hybridization being more common than previously assumed as more genomic data becomes available. #microbiology
onlinelibrary.wiley.com/doi/10.1111/...
Our findings reveal that the specificity of several FISH probes is compromised, with cross-species hybridization being more common than previously assumed as more genomic data becomes available. #microbiology
onlinelibrary.wiley.com/doi/10.1111/...
Shining Light on Oral Biofilm Fluorescence In Situ Hybridization (FISH): Probing the Accuracy of In Situ Biogeography Studies
The oral biofilm has been instrumental in advancing microbial research and enhancing our understanding of oral health and disease. Recent developments in next-generation sequencing have provided deta...
onlinelibrary.wiley.com
May 2, 2025 at 5:02 PM
New publication!
Our findings reveal that the specificity of several FISH probes is compromised, with cross-species hybridization being more common than previously assumed as more genomic data becomes available. #microbiology
onlinelibrary.wiley.com/doi/10.1111/...
Our findings reveal that the specificity of several FISH probes is compromised, with cross-species hybridization being more common than previously assumed as more genomic data becomes available. #microbiology
onlinelibrary.wiley.com/doi/10.1111/...
Exciting news! Our very first hire, Jonah Tang, was accepted into and will be joining the Bioinformatics Graduate Program at the University of Oregon! After 1.5 years in the lab, Jonah is already an author on 3 submitted publications and several more that are in preparation. Congratulations Jonah!
March 26, 2025 at 10:58 PM
Exciting news! Our very first hire, Jonah Tang, was accepted into and will be joining the Bioinformatics Graduate Program at the University of Oregon! After 1.5 years in the lab, Jonah is already an author on 3 submitted publications and several more that are in preparation. Congratulations Jonah!
Tomorrow, 1:30pm. AADOCR in NYC.
Honored to be a speaker alongside @jmarkwelch.bsky.social and @mbio.bsky.social Editor in Chief Marvin Whiteley.
#microbiology #dentistry
Honored to be a speaker alongside @jmarkwelch.bsky.social and @mbio.bsky.social Editor in Chief Marvin Whiteley.
#microbiology #dentistry
March 11, 2025 at 3:26 PM
Tomorrow, 1:30pm. AADOCR in NYC.
Honored to be a speaker alongside @jmarkwelch.bsky.social and @mbio.bsky.social Editor in Chief Marvin Whiteley.
#microbiology #dentistry
Honored to be a speaker alongside @jmarkwelch.bsky.social and @mbio.bsky.social Editor in Chief Marvin Whiteley.
#microbiology #dentistry
The Baker Lab was very well represented at OHSU School of Dentistry Research Day!
I’m so proud of my team!
#microbiology
#dentistry
I’m so proud of my team!
#microbiology
#dentistry
March 5, 2025 at 6:33 PM
The Baker Lab was very well represented at OHSU School of Dentistry Research Day!
I’m so proud of my team!
#microbiology
#dentistry
I’m so proud of my team!
#microbiology
#dentistry
February 18, 2025 at 3:53 PM
Reposted by Jonathon L. Baker, Ph.D.
𝗪𝗼𝗿𝘁𝗵 𝗦𝗵𝗮𝗿𝗶𝗻𝗴:
𝗥𝗼𝗹𝗲 𝗼𝗳 𝘁𝗵𝗲 𝗡𝗜𝗛 𝗶𝗻
𝗦𝘂𝘀𝘁𝗮𝗶𝗻𝗶𝗻𝗴 𝘁𝗵𝗲 𝗘𝗰𝗼𝗻𝗼𝗺𝘆
www.unitedformedicalresearch.org/wp-content/u...
𝗥𝗼𝗹𝗲 𝗼𝗳 𝘁𝗵𝗲 𝗡𝗜𝗛 𝗶𝗻
𝗦𝘂𝘀𝘁𝗮𝗶𝗻𝗶𝗻𝗴 𝘁𝗵𝗲 𝗘𝗰𝗼𝗻𝗼𝗺𝘆
www.unitedformedicalresearch.org/wp-content/u...
February 10, 2025 at 4:11 AM
𝗪𝗼𝗿𝘁𝗵 𝗦𝗵𝗮𝗿𝗶𝗻𝗴:
𝗥𝗼𝗹𝗲 𝗼𝗳 𝘁𝗵𝗲 𝗡𝗜𝗛 𝗶𝗻
𝗦𝘂𝘀𝘁𝗮𝗶𝗻𝗶𝗻𝗴 𝘁𝗵𝗲 𝗘𝗰𝗼𝗻𝗼𝗺𝘆
www.unitedformedicalresearch.org/wp-content/u...
𝗥𝗼𝗹𝗲 𝗼𝗳 𝘁𝗵𝗲 𝗡𝗜𝗛 𝗶𝗻
𝗦𝘂𝘀𝘁𝗮𝗶𝗻𝗶𝗻𝗴 𝘁𝗵𝗲 𝗘𝗰𝗼𝗻𝗼𝗺𝘆
www.unitedformedicalresearch.org/wp-content/u...
Happy to share that I was a Finalist for the OHSU 2024 Distinguished Faculty Award in Collaboration! In the last 5 years, collaborated with 83 co-authors from 29 institutions in 9 countries. Congratulations to the other finalists and winner, Dr. Lyndie Foster Page!
www.linkedin.com/feed/update/...
www.linkedin.com/feed/update/...
OHSU School of Dentistry on LinkedIn: #dentistry #ohsuschoolofdentistry #ohsudentistry #ohsu #ohsuresearch
Oregon Health & Science University celebrated its 2024 Distinguished Faculty Award winners recently and the OHSU School of Dentistry had a winner and several…
www.linkedin.com
January 26, 2025 at 5:20 PM
Happy to share that I was a Finalist for the OHSU 2024 Distinguished Faculty Award in Collaboration! In the last 5 years, collaborated with 83 co-authors from 29 institutions in 9 countries. Congratulations to the other finalists and winner, Dr. Lyndie Foster Page!
www.linkedin.com/feed/update/...
www.linkedin.com/feed/update/...
A great week at FOP-UNICAMP! We brainstormed ways to get dentists involved in National Action Plans being implemented to combat antibiotic resistance (AMR), showed how to use sequencing to analyze AMR, and also practiced developing grant proposals with the students 🇳🇴🇧🇷🇺🇸
December 19, 2024 at 11:22 PM
A great week at FOP-UNICAMP! We brainstormed ways to get dentists involved in National Action Plans being implemented to combat antibiotic resistance (AMR), showed how to use sequencing to analyze AMR, and also practiced developing grant proposals with the students 🇳🇴🇧🇷🇺🇸
In Brazil this week at the Faculdade de Odontologia de Piracicaba with my good friend @AMRTwilight to promote awareness of antimicrobial resistance and antibiotic stewardship.
who.int/campaigns/worl…
who.int/campaigns/worl…
World Antimicrobial Awareness Week 2024
World Antimicrobial Awareness Week aims to increase awareness of global antimicrobial resistance (AMR) and to encourage best practices.
www.who.int
December 19, 2024 at 11:22 PM
In Brazil this week at the Faculdade de Odontologia de Piracicaba with my good friend @AMRTwilight to promote awareness of antimicrobial resistance and antibiotic stewardship.
who.int/campaigns/worl…
who.int/campaigns/worl…
First start-to-finish, completely in-house RNA-seq in our lab this month, what a time to be alive.
December 19, 2024 at 11:22 PM
First start-to-finish, completely in-house RNA-seq in our lab this month, what a time to be alive.