Emily Davenport
@erdavenport.bsky.social
Asst. Professor | PennStateBio | she/her/hers | 🧫🦠🧬 | battery powered ⚡❤️ | Scientist, dessert lover, runner...that made me hungry, better have more dessert
Reposted by Emily Davenport
NEW pub in @science.org 🥳
Is it sponges (panels A & B) or comb jellies (C & D) that root the animal tree of life?
For over 15 years, #phylogenomic studies have been divided.
We provide new evidence suggesting that...
🔗: www.science.org/doi/10.1126/...
Is it sponges (panels A & B) or comb jellies (C & D) that root the animal tree of life?
For over 15 years, #phylogenomic studies have been divided.
We provide new evidence suggesting that...
🔗: www.science.org/doi/10.1126/...
November 13, 2025 at 8:34 PM
NEW pub in @science.org 🥳
Is it sponges (panels A & B) or comb jellies (C & D) that root the animal tree of life?
For over 15 years, #phylogenomic studies have been divided.
We provide new evidence suggesting that...
🔗: www.science.org/doi/10.1126/...
Is it sponges (panels A & B) or comb jellies (C & D) that root the animal tree of life?
For over 15 years, #phylogenomic studies have been divided.
We provide new evidence suggesting that...
🔗: www.science.org/doi/10.1126/...
Reposted by Emily Davenport
Do you teach #rstats? Do your students complain about how lame and old-fashioned dplyr is? Don't worry: I have the solution for you: github.com/hadley/genzp....
genzplyr is dplyr, but bussin fr fr no cap.
genzplyr is dplyr, but bussin fr fr no cap.
GitHub - hadley/genzplyr: dplyr but make it bussin fr fr no cap
dplyr but make it bussin fr fr no cap. Contribute to hadley/genzplyr development by creating an account on GitHub.
github.com
November 6, 2025 at 11:25 PM
Do you teach #rstats? Do your students complain about how lame and old-fashioned dplyr is? Don't worry: I have the solution for you: github.com/hadley/genzp....
genzplyr is dplyr, but bussin fr fr no cap.
genzplyr is dplyr, but bussin fr fr no cap.
Reposted by Emily Davenport
🚨Our collaboration with @centriolelab.bsky.social & @gautamdey.bsky.social is out today in @cp-cell.bsky.social
We show that #Expansion #Microscopy is a broad-spectrum modality for Euks, enabling 3D phenotypic maps rooted to phylogeny.
#ProtistsOnSky #SciComm #SciSky
www.cell.com/cell/fulltex...
We show that #Expansion #Microscopy is a broad-spectrum modality for Euks, enabling 3D phenotypic maps rooted to phylogeny.
#ProtistsOnSky #SciComm #SciSky
www.cell.com/cell/fulltex...
October 31, 2025 at 2:42 PM
🚨Our collaboration with @centriolelab.bsky.social & @gautamdey.bsky.social is out today in @cp-cell.bsky.social
We show that #Expansion #Microscopy is a broad-spectrum modality for Euks, enabling 3D phenotypic maps rooted to phylogeny.
#ProtistsOnSky #SciComm #SciSky
www.cell.com/cell/fulltex...
We show that #Expansion #Microscopy is a broad-spectrum modality for Euks, enabling 3D phenotypic maps rooted to phylogeny.
#ProtistsOnSky #SciComm #SciSky
www.cell.com/cell/fulltex...
Reposted by Emily Davenport
We selected the laziest mouse at each round to inoculate the next batch of germfree mice: over rounds of selection and passaging, behavior shifted without changes to the mouse genome: rdcu.be/eM3rO
🦠🧫
🦠🧫
Selection and transmission of the gut microbiome alone can shift mammalian behavior
Nature Communications - Here, the authors present evidence that the gut microbiome alone, without changes in the host genome, can shape how animals respond to selection, identifying a bacterium and...
rdcu.be
October 28, 2025 at 7:51 AM
We selected the laziest mouse at each round to inoculate the next batch of germfree mice: over rounds of selection and passaging, behavior shifted without changes to the mouse genome: rdcu.be/eM3rO
🦠🧫
🦠🧫
Reposted by Emily Davenport
The gut MYCOBIOME is akin to the tiny group of kids in the corner of a huge homecoming dance. Their story is largely unknown. In our latest, @emilyvansyoc.bsky.social dives into the evolutionary associations of gut fungi with @erdavenport.bsky.social & Andres Gomez
journals.plos.org/plosbiology/...
journals.plos.org/plosbiology/...
Gut fungal profiles reveal phylosymbiosis and codiversification across humans and nonhuman primates
Fungi in the gut microbiome (the "mycobiome") are a neglected component of the human holobiont. This study of gut fungal profiles across natural populations of humans and non-human primates reveals si...
journals.plos.org
September 24, 2025 at 5:36 PM
The gut MYCOBIOME is akin to the tiny group of kids in the corner of a huge homecoming dance. Their story is largely unknown. In our latest, @emilyvansyoc.bsky.social dives into the evolutionary associations of gut fungi with @erdavenport.bsky.social & Andres Gomez
journals.plos.org/plosbiology/...
journals.plos.org/plosbiology/...
Reposted by Emily Davenport
What determines the human gut fungal community? @emilyvansyoc.bsky.social @erdavenport.bsky.social @symbionticism.bsky.social &co present the first #GWAS of human genetic loci that influence the abundance of gut #fungi, linking these to disease risk #mycobiome @plosbiology.org 🧪 plos.io/42bCKou
September 3, 2025 at 7:38 AM
What determines the human gut fungal community? @emilyvansyoc.bsky.social @erdavenport.bsky.social @symbionticism.bsky.social &co present the first #GWAS of human genetic loci that influence the abundance of gut #fungi, linking these to disease risk #mycobiome @plosbiology.org 🧪 plos.io/42bCKou
Reposted by Emily Davenport
We published a new lane of research today on human gut fungi. Shout out to 1st author @emilyvansyoc.bsky.social sky.social & @erdavenport.bsky.social For 20 years, bacteria received the lion's share of interest in the human gut. Yet we know little about the gut mycobiome. doi.org/10.1371/jour...
Gut fungi are associated with human genetic variation and disease risk
In contrast to decades of research on gut bacteria, human genetic determinants of the gut fungal community (mycobiome) remain understudied. This investigation presents the first GWAS on the number and...
doi.org
September 2, 2025 at 7:31 PM
We published a new lane of research today on human gut fungi. Shout out to 1st author @emilyvansyoc.bsky.social sky.social & @erdavenport.bsky.social For 20 years, bacteria received the lion's share of interest in the human gut. Yet we know little about the gut mycobiome. doi.org/10.1371/jour...
Reposted by Emily Davenport
The 2026 Probabilistic Modeling in Genomics (ProbGen) meeting will be held at UC Berkeley, March 25-28, 2026. We have an amazing list of keynote speakers and session chairs:
probgen2026.github.io
Please help spread the news.
probgen2026.github.io
Please help spread the news.
Home - ProbGen 2026
Your Site Description
probgen2026.github.io
June 6, 2025 at 5:52 PM
The 2026 Probabilistic Modeling in Genomics (ProbGen) meeting will be held at UC Berkeley, March 25-28, 2026. We have an amazing list of keynote speakers and session chairs:
probgen2026.github.io
Please help spread the news.
probgen2026.github.io
Please help spread the news.
Reposted by Emily Davenport
Microbiology professor, want to join a slack for microbiology professors, any career stage, diverse career types (pure teaching, med school, R1, community college, pure research fed PIs, ...)
Message me for an invite link if you are interested.
No imposter syndrome, if you are 1% micro, join!
Message me for an invite link if you are interested.
No imposter syndrome, if you are 1% micro, join!
July 25, 2025 at 3:43 AM
Microbiology professor, want to join a slack for microbiology professors, any career stage, diverse career types (pure teaching, med school, R1, community college, pure research fed PIs, ...)
Message me for an invite link if you are interested.
No imposter syndrome, if you are 1% micro, join!
Message me for an invite link if you are interested.
No imposter syndrome, if you are 1% micro, join!
Reposted by Emily Davenport
Our paper demonstrating that within-species warfare interactions are ecologically important on human skin is now published in Nature Micro! www.nature.com/articles/s41...
June 30, 2025 at 12:26 PM
Our paper demonstrating that within-species warfare interactions are ecologically important on human skin is now published in Nature Micro! www.nature.com/articles/s41...
Reposted by Emily Davenport
Job is up, consider joining us!
psu.wd1.myworkdayjobs.com/en-US/PSU_St...
psu.wd1.myworkdayjobs.com/en-US/PSU_St...
June 20, 2025 at 8:09 PM
Job is up, consider joining us!
psu.wd1.myworkdayjobs.com/en-US/PSU_St...
psu.wd1.myworkdayjobs.com/en-US/PSU_St...
Reposted by Emily Davenport
Come to work with us!
We have 2 PhD positions:
1: On stability of gut microbiome in longitudinal well phenotyped adult cohorts:
tinyurl.com/MicrobiomeExpo…
2: On integrative multi-omics analysis in a unique longitudinal mother-infant cohort.
tinyurl.com/EarlyLifeOmics
We have 2 PhD positions:
1: On stability of gut microbiome in longitudinal well phenotyped adult cohorts:
tinyurl.com/MicrobiomeExpo…
2: On integrative multi-omics analysis in a unique longitudinal mother-infant cohort.
tinyurl.com/EarlyLifeOmics
https://tinyurl.com/MicrobiomeExpo…
June 18, 2025 at 12:23 PM
Come to work with us!
We have 2 PhD positions:
1: On stability of gut microbiome in longitudinal well phenotyped adult cohorts:
tinyurl.com/MicrobiomeExpo…
2: On integrative multi-omics analysis in a unique longitudinal mother-infant cohort.
tinyurl.com/EarlyLifeOmics
We have 2 PhD positions:
1: On stability of gut microbiome in longitudinal well phenotyped adult cohorts:
tinyurl.com/MicrobiomeExpo…
2: On integrative multi-omics analysis in a unique longitudinal mother-infant cohort.
tinyurl.com/EarlyLifeOmics
Very proud of my graduate student Naomi Huntley for being selected to participate in this internship!
Industry-Academia Alliance Update: We've put it all into innovation and a leadership alliance with QIAGEN to optimize MICROBIOME PhD training from @psumbiome.bsky.social. Home to the 1st Microbiome PhD, the team is always looking for the next round of future PhD talent.
www.psu.edu/news/huck-in...
www.psu.edu/news/huck-in...
Two Penn State doctoral students selected for industry internship in Germany | Penn State University
Two doctoral students from Penn State's One Health Microbiome Center have been selected for a prestigious internship at QIAGEN's headquarters in Germany this summer. The internship program was develoe...
www.psu.edu
June 10, 2025 at 6:47 PM
Very proud of my graduate student Naomi Huntley for being selected to participate in this internship!
Reposted by Emily Davenport
Sharing the most significant work from my group, led by the @evolvingstem.bsky.social team.
Come for the discoveries of how Pseudomonas adapts in biofilms, stay for the story of how they were discovered by thousands of young scientists in grades 9-12. 🧪🧫🧬🧵
www.biorxiv.org/content/10.1...
Come for the discoveries of how Pseudomonas adapts in biofilms, stay for the story of how they were discovered by thousands of young scientists in grades 9-12. 🧪🧫🧬🧵
www.biorxiv.org/content/10.1...
Student-led experimental evolution reveals novel biofilm regulatory networks underlying adaptations to multiple niches
We established a research-education partnership known as EvolvingSTEM that provides secondary school students the opportunity to conduct authentic research experiments centered on microbial evolution....
www.biorxiv.org
June 8, 2025 at 8:09 PM
Sharing the most significant work from my group, led by the @evolvingstem.bsky.social team.
Come for the discoveries of how Pseudomonas adapts in biofilms, stay for the story of how they were discovered by thousands of young scientists in grades 9-12. 🧪🧫🧬🧵
www.biorxiv.org/content/10.1...
Come for the discoveries of how Pseudomonas adapts in biofilms, stay for the story of how they were discovered by thousands of young scientists in grades 9-12. 🧪🧫🧬🧵
www.biorxiv.org/content/10.1...
Reposted by Emily Davenport
Opening for a #postdoc in the lab available immediately. Please spread the word.
DETAILS HERE: jobrxiv.org/job/baylor-c...
cc: #academicJobs #postdocJobs #microbiome #Celegans #organoids #IBD #PathSky #Medsky #AcademicSky 🧪 🧬 🦠
DETAILS HERE: jobrxiv.org/job/baylor-c...
cc: #academicJobs #postdocJobs #microbiome #Celegans #organoids #IBD #PathSky #Medsky #AcademicSky 🧪 🧬 🦠
Postdoctoral Associate in IBD genetics in C. elegans and organoids
Post a job in 3min, or find thousands of job offers like this one at jobRxiv!
jobrxiv.org
May 31, 2025 at 4:28 PM
Opening for a #postdoc in the lab available immediately. Please spread the word.
DETAILS HERE: jobrxiv.org/job/baylor-c...
cc: #academicJobs #postdocJobs #microbiome #Celegans #organoids #IBD #PathSky #Medsky #AcademicSky 🧪 🧬 🦠
DETAILS HERE: jobrxiv.org/job/baylor-c...
cc: #academicJobs #postdocJobs #microbiome #Celegans #organoids #IBD #PathSky #Medsky #AcademicSky 🧪 🧬 🦠
Reposted by Emily Davenport
PICRUSt2-SC: an update to the reference database used for functional prediction within PICRUSt2 academic.oup.com/bioinformati... #jcampubs
PICRUSt2-SC: an update to the reference database used for functional prediction within PICRUSt2
AbstractSummary. PICRUSt2 is a bioinformatic tool that predicts microbial functions in amplicon sequencing data using a database of annotated reference gen
academic.oup.com
May 30, 2025 at 1:42 PM
PICRUSt2-SC: an update to the reference database used for functional prediction within PICRUSt2 academic.oup.com/bioinformati... #jcampubs
Reposted by Emily Davenport
🚨 I’m hiring a postdoc for Fall 2025 with experience in microbial ‘omics data analysis and phylogenetics/genomics. Projects will be centered around ancient microbial ecology & evolution. Click here for more information: bpb-us-e1.wpmucdn.com/wp.txstate.e...
Please share, thank you 🙏🏻
Please share, thank you 🙏🏻
May 28, 2025 at 3:17 PM
🚨 I’m hiring a postdoc for Fall 2025 with experience in microbial ‘omics data analysis and phylogenetics/genomics. Projects will be centered around ancient microbial ecology & evolution. Click here for more information: bpb-us-e1.wpmucdn.com/wp.txstate.e...
Please share, thank you 🙏🏻
Please share, thank you 🙏🏻
Reposted by Emily Davenport
A poem for my last day working at the writing center for the semester (by Joseph Fasano)
November 23, 2024 at 2:09 AM
A poem for my last day working at the writing center for the semester (by Joseph Fasano)
Reposted by Emily Davenport
It’s Thursday! Episode #91 of #MattersMicrobial is up. Dr. Emily Davenport of Penn State joins the #QualityQuorum to discuss how host genetics impacts the microbiome. Please spread the #GoodMicrobialWord! @microbe.tv @asmicrobiology @univpugetsound
youtu.be/5c7lxC1mHxk?...
youtu.be/5c7lxC1mHxk?...
May 16, 2025 at 1:27 AM
It’s Thursday! Episode #91 of #MattersMicrobial is up. Dr. Emily Davenport of Penn State joins the #QualityQuorum to discuss how host genetics impacts the microbiome. Please spread the #GoodMicrobialWord! @microbe.tv @asmicrobiology @univpugetsound
youtu.be/5c7lxC1mHxk?...
youtu.be/5c7lxC1mHxk?...
Reposted by Emily Davenport
Yesterday, the NIH R35 “Outstanding Investigator” grant to fund scientists in my lab studying antibiotic resistance was terminated for reasons not related to the content of the science, or any actions taken by me or members of my lab
May 13, 2025 at 11:37 PM
Yesterday, the NIH R35 “Outstanding Investigator” grant to fund scientists in my lab studying antibiotic resistance was terminated for reasons not related to the content of the science, or any actions taken by me or members of my lab
Reposted by Emily Davenport
Yes, it's Thursday! Time for Episode 90 of #MattersMicrobial. Dr. Francisco Dini Andreote of Penn State joins the #QualityQuorum to discuss how the plant microbiome can be used in agriculture. Please spread the #GoodMicrobialWord. microbe.tv
youtu.be/krQGvMggA3Y?...
youtu.be/krQGvMggA3Y?...
May 9, 2025 at 4:41 AM
Yes, it's Thursday! Time for Episode 90 of #MattersMicrobial. Dr. Francisco Dini Andreote of Penn State joins the #QualityQuorum to discuss how the plant microbiome can be used in agriculture. Please spread the #GoodMicrobialWord. microbe.tv
youtu.be/krQGvMggA3Y?...
youtu.be/krQGvMggA3Y?...
Reposted by Emily Davenport
We have a starter pack! Follow along and DM if you are part of the OHMC and would like to be added:
go.bsky.app/7X9RRT2
go.bsky.app/7X9RRT2
April 29, 2025 at 8:49 PM
We have a starter pack! Follow along and DM if you are part of the OHMC and would like to be added:
go.bsky.app/7X9RRT2
go.bsky.app/7X9RRT2
Reposted by Emily Davenport
Pennsylvania could lose $973 million due to federal health research cuts. Visit scienceimpacts.org to learn more. scienceimpacts.org
SCIMaP - Impacts of Federal Cuts to Science and Medical Research
Developed by an interdisciplinary research team, this website shows how funding cuts reduce economic activity and employment nationwide
scienceimpacts.org
April 26, 2025 at 8:24 PM
Pennsylvania could lose $973 million due to federal health research cuts. Visit scienceimpacts.org to learn more. scienceimpacts.org
Reposted by Emily Davenport
