Kyle Gervers
@pseudotsugonoid.bsky.social
Postdoc in the Lundberg lab(@derekseveri.bsky.social) @ SLU studying the role of host adaptation in beneficial bacteria of Norway spruce
github.com/gerverska
github.com/gerverska
Reposted by Kyle Gervers
I did an interview with the In Defense of Plants podcast about my journey into researching seed microbiota, some of what we currently know and what remains to be explored! You can check it out here: www.indefenseofplants.com/podcast/2025...
Ep. 539 - Exploring the Seed Microbiome — In Defense of Plants
In Defense of Plants' Matt Candeias talks with Dr. Gillian Bergmann about the microbiomes of seeds.
www.indefenseofplants.com
August 17, 2025 at 8:42 PM
I did an interview with the In Defense of Plants podcast about my journey into researching seed microbiota, some of what we currently know and what remains to be explored! You can check it out here: www.indefenseofplants.com/podcast/2025...
Reposted by Kyle Gervers
Science friends, life is difficult now, but please still try to peer review papers if you can.
I'm the editor handling a paper that just had it's 43rd person decline to review. We may have to reject it because no one is willing to review it, which sucks for the authors.
I'm the editor handling a paper that just had it's 43rd person decline to review. We may have to reject it because no one is willing to review it, which sucks for the authors.
August 13, 2025 at 1:31 PM
Science friends, life is difficult now, but please still try to peer review papers if you can.
I'm the editor handling a paper that just had it's 43rd person decline to review. We may have to reject it because no one is willing to review it, which sucks for the authors.
I'm the editor handling a paper that just had it's 43rd person decline to review. We may have to reject it because no one is willing to review it, which sucks for the authors.
Reposted by Kyle Gervers
New from the Carter Lab!
Led by @bhuwanabbot.bsky.social, we sequenced almost twice as many complete genomes as were available for the endofungal Mycetohabitans genus.
Unsurprisingly, they are a little weird, giving us insight into endosymbiotic genome changes 🧬 🦠
www.biorxiv.org/content/10.1...
Led by @bhuwanabbot.bsky.social, we sequenced almost twice as many complete genomes as were available for the endofungal Mycetohabitans genus.
Unsurprisingly, they are a little weird, giving us insight into endosymbiotic genome changes 🧬 🦠
www.biorxiv.org/content/10.1...
www.biorxiv.org
June 17, 2025 at 8:55 PM
New from the Carter Lab!
Led by @bhuwanabbot.bsky.social, we sequenced almost twice as many complete genomes as were available for the endofungal Mycetohabitans genus.
Unsurprisingly, they are a little weird, giving us insight into endosymbiotic genome changes 🧬 🦠
www.biorxiv.org/content/10.1...
Led by @bhuwanabbot.bsky.social, we sequenced almost twice as many complete genomes as were available for the endofungal Mycetohabitans genus.
Unsurprisingly, they are a little weird, giving us insight into endosymbiotic genome changes 🧬 🦠
www.biorxiv.org/content/10.1...
Reposted by Kyle Gervers
#2025ISMPMI Xin Li shows the exiting finding that sclerotinia is haploid with two nuclei harboring different chromosome sets making together the full set of the genome.
July 15, 2025 at 6:28 AM
#2025ISMPMI Xin Li shows the exiting finding that sclerotinia is haploid with two nuclei harboring different chromosome sets making together the full set of the genome.
Reposted by Kyle Gervers
This work started nearly 10 years ago and was once my main postdoctoral project at @plantevolution.bsky.social before I slowed work on it to a trickle because it became confusing. But it always remained extremely interesting.
journals.plos.org/plosbiology/...
journals.plos.org/plosbiology/...
A major trade-off between growth and defense in Arabidopsis thaliana can vanish in field conditions
In controlled greenhouse conditions, Arabidopsis thaliana plants with a hyperactive allele of the ACD6 gene have stronger pathogen defenses but are smaller and make fewer seeds, in a classic fitness t...
journals.plos.org
July 15, 2025 at 10:10 AM
This work started nearly 10 years ago and was once my main postdoctoral project at @plantevolution.bsky.social before I slowed work on it to a trickle because it became confusing. But it always remained extremely interesting.
journals.plos.org/plosbiology/...
journals.plos.org/plosbiology/...
Reposted by Kyle Gervers
Last week, I had a great time at the New Phytologist EiC Symposium: “Microbes as hidden or prominent players in plant life” in Tartu, Estonia!
Honored and very happy to receive the Best Poster Award! ✨
Big thanks to the organizers and all the inspiring scientists I met! 🌱 @newphyt.bsky.social
Honored and very happy to receive the Best Poster Award! ✨
Big thanks to the organizers and all the inspiring scientists I met! 🌱 @newphyt.bsky.social
July 13, 2025 at 9:26 PM
Last week, I had a great time at the New Phytologist EiC Symposium: “Microbes as hidden or prominent players in plant life” in Tartu, Estonia!
Honored and very happy to receive the Best Poster Award! ✨
Big thanks to the organizers and all the inspiring scientists I met! 🌱 @newphyt.bsky.social
Honored and very happy to receive the Best Poster Award! ✨
Big thanks to the organizers and all the inspiring scientists I met! 🌱 @newphyt.bsky.social
Reposted by Kyle Gervers
Thanks to everyone who came by my poster today for discussion! #2025ISMPMI
If you weren’t able to make it but still interested in the potential role native plasmids play within Sphingomonas-plant interactions. Can check it out now on Zenodo zenodo.org/records/1591...
If you weren’t able to make it but still interested in the potential role native plasmids play within Sphingomonas-plant interactions. Can check it out now on Zenodo zenodo.org/records/1591...
Small DNA, Big Impact? Exploring the role of plasmids in Sphingomonas – plant interactions
This poster was presented at the 2025 IS-MPMI, Cologne Submitted Abstract Plasmids provide traits that can enable bacteria to adapt to unique and changing environments. Sphingomonas, an often-benefici...
zenodo.org
July 15, 2025 at 1:07 PM
Thanks to everyone who came by my poster today for discussion! #2025ISMPMI
If you weren’t able to make it but still interested in the potential role native plasmids play within Sphingomonas-plant interactions. Can check it out now on Zenodo zenodo.org/records/1591...
If you weren’t able to make it but still interested in the potential role native plasmids play within Sphingomonas-plant interactions. Can check it out now on Zenodo zenodo.org/records/1591...
Reposted by Kyle Gervers
In @natcomms.nature.com, researchers from the JGI and @molecularfoundry.lbl.gov explored ways to make functional biomaterials with microbes. 🦠
Learn more about our DNA Synthesis program here: jgi.doe.gov/science-prog...
@nigelmouncey.bsky.social @axelvisel.bsky.social 🖥️🧬
Learn more about our DNA Synthesis program here: jgi.doe.gov/science-prog...
@nigelmouncey.bsky.social @axelvisel.bsky.social 🖥️🧬
June 18, 2025 at 8:59 PM
In @natcomms.nature.com, researchers from the JGI and @molecularfoundry.lbl.gov explored ways to make functional biomaterials with microbes. 🦠
Learn more about our DNA Synthesis program here: jgi.doe.gov/science-prog...
@nigelmouncey.bsky.social @axelvisel.bsky.social 🖥️🧬
Learn more about our DNA Synthesis program here: jgi.doe.gov/science-prog...
@nigelmouncey.bsky.social @axelvisel.bsky.social 🖥️🧬
Reposted by Kyle Gervers
Among the many family, friends and colleagues who supported my grad school journey, I must thank my fuzzy baby Kaylee. I adopted her a week after moving to Davis, and she’s been on so many adventures with me these 5 years. Now she’s honorary Dr. Fuzz!
June 17, 2025 at 6:41 PM
Among the many family, friends and colleagues who supported my grad school journey, I must thank my fuzzy baby Kaylee. I adopted her a week after moving to Davis, and she’s been on so many adventures with me these 5 years. Now she’s honorary Dr. Fuzz!
Reposted by Kyle Gervers
Managed to squeeze in the urgently necessary shoutout to marginaleffects marginaleffects.com @vincentab.bsky.social
![Speaking of quantification, another issue that remains open is the choice of appropriate metrics when pooling disparate analyses. Ideally, all effect estimates would be expressed in a common metric to ensure they are actually comparable [7]. Kowall and colleagues instead present a range of Hazard Ratios, Odds Ratios and Relative Risks. There are two pragmatic arguments to justify the usage of disparate metrics. First, it may not make a substantial numerical difference in this particular case—if the prevalence is low, Odds Ratios approach Relative Risks according to the rare disease assumption [8]. Second, readers of studies may interpret these different metrics in the same way anyway, thus rendering the differences between them irrelevant in practice.
But they are not irrelevant when the aim is to precisely identify sources of discrepancy, in which case a common effect metric would be desirable. There remains work to be done to enable translation between metrics for very different classes of models—which admittedly may not always be possible, but is at least conceivable, in particular when the underlying data are available (rather than just summary statistics). A promising development on that front is work on a more comprehensive marginaleffects framework in the social sciences [9] that enables researchers to derive a wide number of effect size quantifications from disparate classes of statistical models (with accompanying software packages in R and Python). This, in turn, should enable us to find out whether two different statistical models give the same answer when asked precisely the same question.](https://cdn.bsky.app/img/feed_thumbnail/plain/did:plc:gz53felr7btxgmbxae5aooxi/bafkreiajoplny2ioe5qbuzhjrky5hrdtdfdkuwztqpnv37ypsrn6ogwm4a@jpeg)
May 30, 2025 at 6:10 AM
Managed to squeeze in the urgently necessary shoutout to marginaleffects marginaleffects.com @vincentab.bsky.social
Reposted by Kyle Gervers
Bacterial genomes still contain many hidden genes.
This article reports a high-resolution map of translated proteins, incl. small ones, in the pathogen Campylobacter jejuni
@uniwuerzburg.bsky.social @campy-bara.bsky.social @sharmalab.bsky.social
This article reports a high-resolution map of translated proteins, incl. small ones, in the pathogen Campylobacter jejuni
@uniwuerzburg.bsky.social @campy-bara.bsky.social @sharmalab.bsky.social
Complementary Ribo-seq approaches map the translatome and provide a small protein census in the foodborne pathogen Campylobacter jejuni - Nature Communications
Bacterial genomes still contain many hidden and uncharacterized genes. Using complementary Ribo-seq approaches, Froschauer, Svensson et al. here annotate start and stop codons of Campylobacter jejuni, reporting a high-resolution translatome and identifying several novel small ORFs in this foodborne pathogen.
bit.ly
May 30, 2025 at 10:45 AM
Bacterial genomes still contain many hidden genes.
This article reports a high-resolution map of translated proteins, incl. small ones, in the pathogen Campylobacter jejuni
@uniwuerzburg.bsky.social @campy-bara.bsky.social @sharmalab.bsky.social
This article reports a high-resolution map of translated proteins, incl. small ones, in the pathogen Campylobacter jejuni
@uniwuerzburg.bsky.social @campy-bara.bsky.social @sharmalab.bsky.social
Reposted by Kyle Gervers
Hi! Do you want to rip your face off over the constant attacks on science in the US? Here are some actions you can take! They require varying amounts of time, repetitiveness, and sticking your neck out, so hopefully you can find something in here that’s right for you:
🧪 #scicomm
🧪 #scicomm
May 23, 2025 at 4:24 PM
Hi! Do you want to rip your face off over the constant attacks on science in the US? Here are some actions you can take! They require varying amounts of time, repetitiveness, and sticking your neck out, so hopefully you can find something in here that’s right for you:
🧪 #scicomm
🧪 #scicomm
Reposted by Kyle Gervers
Hello bluesky! Here’s a new preprint of some of my PhD work. Super proud that three undergraduates, as well as collaborators @microbialmarie.bsky.social and @lmatthieul.bsky.social , are co-authors! Now we’re waiting for peer review!
Contribution of floral transmission to the assembly and health impact of bacterial communities in watermelon seeds https://www.biorxiv.org/content/10.1101/2025.02.12.637993v1
February 28, 2025 at 2:48 AM
Hello bluesky! Here’s a new preprint of some of my PhD work. Super proud that three undergraduates, as well as collaborators @microbialmarie.bsky.social and @lmatthieul.bsky.social , are co-authors! Now we’re waiting for peer review!
Reposted by Kyle Gervers
We are very excited to announce a new @events.embl.org conference with a general focus on all infections with the goal to foster discussions across researchers working on multiple pathogens. We couldn't find a conference as such in Europe, so we decided to organize it 😊
www.embl.org/about/info/c...
www.embl.org/about/info/c...
December 20, 2024 at 9:53 AM
We are very excited to announce a new @events.embl.org conference with a general focus on all infections with the goal to foster discussions across researchers working on multiple pathogens. We couldn't find a conference as such in Europe, so we decided to organize it 😊
www.embl.org/about/info/c...
www.embl.org/about/info/c...
Reposted by Kyle Gervers
🚨 There's still time to register for the OIKOS Finland 2025 conference!
Interested in JSDMs? our HMSC workshop still has spots left!
Registration closes on Jan 31st.
www.jyu.fi/oikos2025
Interested in JSDMs? our HMSC workshop still has spots left!
Registration closes on Jan 31st.
www.jyu.fi/oikos2025
Oikos-Finland 2025 Conference
Oikos-Finland 2025 Conference is to be hold in Jyväskylä 11th-14th March 2025.
www.jyu.fi
January 16, 2025 at 3:14 PM
🚨 There's still time to register for the OIKOS Finland 2025 conference!
Interested in JSDMs? our HMSC workshop still has spots left!
Registration closes on Jan 31st.
www.jyu.fi/oikos2025
Interested in JSDMs? our HMSC workshop still has spots left!
Registration closes on Jan 31st.
www.jyu.fi/oikos2025