Jessica Bernardin
@jess-bernardin.bsky.social
Postdoctoral Researcher
@Lawrence Livermore National Lab
Interested in:
plant - microbe interactions | microbe - microbe interactions | community ecology
🧫 🌱 🏔 🌊
fungi-aware 🍄⎜mother⎜ she/her 🌈
https://sites.google.com/view/jessica-bernardin
@Lawrence Livermore National Lab
Interested in:
plant - microbe interactions | microbe - microbe interactions | community ecology
🧫 🌱 🏔 🌊
fungi-aware 🍄⎜mother⎜ she/her 🌈
https://sites.google.com/view/jessica-bernardin
Reposted by Jessica Bernardin
#statstab #464 Plotting p-check interaction {brms}
Thoughts: Annoyingly #brms doesn't natively allow plotting for interactions (that I know of). The forum has a solution.
#ppc #posterior #bayesian #modelfit #diagnostic #rstats #r #stan
discourse.mc-stan.org/t/plotting-p...
Thoughts: Annoyingly #brms doesn't natively allow plotting for interactions (that I know of). The forum has a solution.
#ppc #posterior #bayesian #modelfit #diagnostic #rstats #r #stan
discourse.mc-stan.org/t/plotting-p...
Plotting pp_check interactions
I am trying to model ordinal data with an interaction of two predictors. However, I have issues with plotting interactions and individual data with the BRMS functions. My model is of the type ratin...
discourse.mc-stan.org
November 20, 2025 at 8:15 PM
#statstab #464 Plotting p-check interaction {brms}
Thoughts: Annoyingly #brms doesn't natively allow plotting for interactions (that I know of). The forum has a solution.
#ppc #posterior #bayesian #modelfit #diagnostic #rstats #r #stan
discourse.mc-stan.org/t/plotting-p...
Thoughts: Annoyingly #brms doesn't natively allow plotting for interactions (that I know of). The forum has a solution.
#ppc #posterior #bayesian #modelfit #diagnostic #rstats #r #stan
discourse.mc-stan.org/t/plotting-p...
Reposted by Jessica Bernardin
News & Views out now - Entomopathogenic fungi bait and kill insects with longifolene
By Thiago Luiz Alves e Silva & Joel Vega-Rodriguez
#microsky #malaria
www.nature.com/articles/s41...
By Thiago Luiz Alves e Silva & Joel Vega-Rodriguez
#microsky #malaria
www.nature.com/articles/s41...
November 20, 2025 at 10:37 AM
News & Views out now - Entomopathogenic fungi bait and kill insects with longifolene
By Thiago Luiz Alves e Silva & Joel Vega-Rodriguez
#microsky #malaria
www.nature.com/articles/s41...
By Thiago Luiz Alves e Silva & Joel Vega-Rodriguez
#microsky #malaria
www.nature.com/articles/s41...
Reposted by Jessica Bernardin
Come be our colleague! We are looking for a tenure track cell / molecular biologist with focus on biochemical sciences. Strong bio department, lovely rural communities and living among the redwoods! Ask me questions !
careers.humboldt.edu/mob/hm/en-us...
careers.humboldt.edu/mob/hm/en-us...
Tenure Track Faculty - Department of Biological Sciences (Cellular and Molecular Biology)
Cal Poly Humboldt and the Department of Biological Sciences invites applicants for a full-time, academic year, tenure-track faculty position with an emphasis in Cellular and Molecular Biology with a f...
careers.humboldt.edu
November 21, 2025 at 12:29 AM
Come be our colleague! We are looking for a tenure track cell / molecular biologist with focus on biochemical sciences. Strong bio department, lovely rural communities and living among the redwoods! Ask me questions !
careers.humboldt.edu/mob/hm/en-us...
careers.humboldt.edu/mob/hm/en-us...
Reposted by Jessica Bernardin
#NatMicroPicks
CRISPR Metagenome Engineering! 🦠🔧🧬
MetaEdit enables precise genetic editing of native gut bacteria in mice.
#MicroSky #SynBio
www.science.org/doi/10.1126/...
CRISPR Metagenome Engineering! 🦠🔧🧬
MetaEdit enables precise genetic editing of native gut bacteria in mice.
#MicroSky #SynBio
www.science.org/doi/10.1126/...
Metagenomic editing of commensal bacteria in vivo using CRISPR-associated transposases
Although metagenomic sequencing has revealed a rich microbial biodiversity in the mammalian gut, methods to genetically alter specific species in the microbiome are highly limited. Here, we introduce ...
www.science.org
November 20, 2025 at 5:16 PM
#NatMicroPicks
CRISPR Metagenome Engineering! 🦠🔧🧬
MetaEdit enables precise genetic editing of native gut bacteria in mice.
#MicroSky #SynBio
www.science.org/doi/10.1126/...
CRISPR Metagenome Engineering! 🦠🔧🧬
MetaEdit enables precise genetic editing of native gut bacteria in mice.
#MicroSky #SynBio
www.science.org/doi/10.1126/...
Reposted by Jessica Bernardin
I was thrilled to be interviewed by Matt Candeias for his cool podcast In Defense of Plants! Check it out if you want to hear about sagebrush, pitcher plants and leaf microbiomes!
www.indefenseofplants.com/podcast/2025...
www.indefenseofplants.com/podcast/2025...
Ep. 551 - Sagebrush, Pitcher Plants, & Leaf Microbiomes — In Defense of Plants
In Defense of Plants' Matt Candeias talks with Microbial Ecologist Dr. Leonora Bittleston about the leaf microbiomes of sagebrush (Artemisia tridentat) and pitcher plants (Sarracenia, Nepenthes, and C...
www.indefenseofplants.com
November 16, 2025 at 9:43 PM
I was thrilled to be interviewed by Matt Candeias for his cool podcast In Defense of Plants! Check it out if you want to hear about sagebrush, pitcher plants and leaf microbiomes!
www.indefenseofplants.com/podcast/2025...
www.indefenseofplants.com/podcast/2025...
Reposted by Jessica Bernardin
Ecological coherence in abundance dynamics across terrestrial and marine assemblages https://www.biorxiv.org/content/10.1101/2025.11.05.686795v1
November 6, 2025 at 3:32 AM
Ecological coherence in abundance dynamics across terrestrial and marine assemblages https://www.biorxiv.org/content/10.1101/2025.11.05.686795v1
Reposted by Jessica Bernardin
#NewResearch
Precipitation legacy effects on soil microbiota facilitate adaptive drought responses in plants
#microsky
www.nature.com/articles/s41...
Precipitation legacy effects on soil microbiota facilitate adaptive drought responses in plants
#microsky
www.nature.com/articles/s41...
Precipitation legacy effects on soil microbiota facilitate adaptive drought responses in plants - Nature Microbiology
Metagenomes from prairie soils in Kansas, USA, show how historical exposure to water stress impacts soil microorganisms and subsequently drought responses in plants.
www.nature.com
November 5, 2025 at 3:42 PM
#NewResearch
Precipitation legacy effects on soil microbiota facilitate adaptive drought responses in plants
#microsky
www.nature.com/articles/s41...
Precipitation legacy effects on soil microbiota facilitate adaptive drought responses in plants
#microsky
www.nature.com/articles/s41...
Reposted by Jessica Bernardin
This was such a neat study it got posted twice on our 'cool papers' channel in lab slack 😅
#ProtistsonSky
#ProtistsonSky
Ever wondered how single-celled predators in soil boost plant health?
🧬 Protists don't just eat bacteria -they team up with them to shape the rhizosphere.
📈 Auxin isn't just a plant hormone -it's an interkingdom signal influencing microbial and protist life.
🌱 Read: academic.oup.com/ismej/advanc...
🧬 Protists don't just eat bacteria -they team up with them to shape the rhizosphere.
📈 Auxin isn't just a plant hormone -it's an interkingdom signal influencing microbial and protist life.
🌱 Read: academic.oup.com/ismej/advanc...
Diverse soil protists show auxin regulated growth in partnership with auxin-producing bacteria
Abstract. Predatory protists are single-cell eukaryotic organisms capable of hunting and ingesting bacteria and other microorganisms, which are thought to
academic.oup.com
October 23, 2025 at 11:55 AM
This was such a neat study it got posted twice on our 'cool papers' channel in lab slack 😅
#ProtistsonSky
#ProtistsonSky
Reposted by Jessica Bernardin
Through an extensive investigation using over 20 complementary analytical techniques, researchers identify Spongiophyton as one of the earliest undisputed lichens in the fossil record.
Learn more in this week’s issue of #ScienceAdvances: https://scim.ag/4oHMxeU
Learn more in this week’s issue of #ScienceAdvances: https://scim.ag/4oHMxeU
October 31, 2025 at 9:15 PM
Through an extensive investigation using over 20 complementary analytical techniques, researchers identify Spongiophyton as one of the earliest undisputed lichens in the fossil record.
Learn more in this week’s issue of #ScienceAdvances: https://scim.ag/4oHMxeU
Learn more in this week’s issue of #ScienceAdvances: https://scim.ag/4oHMxeU
Reposted by Jessica Bernardin
The average nucleotide identity (ANI) underpins how we map microbial diversity, compare species, and connect genomes to ecology.
I wrote a short piece reflecting on the discovery and significance of this metric (and really enjoyed digging into the context and story behind it!) #microsky 🧬
I wrote a short piece reflecting on the discovery and significance of this metric (and really enjoyed digging into the context and story behind it!) #microsky 🧬
Average nucleotide identity — the backbone of modern ecological genomics - Nature Reviews Genetics
In this Journal Club, Luis Orellana recalls a 2005 publication by Konstantinidis and Tiedje that introduced average nucleotide identity as a sequence-based metric to determine the relatedness between ...
www.nature.com
October 30, 2025 at 9:11 PM
The average nucleotide identity (ANI) underpins how we map microbial diversity, compare species, and connect genomes to ecology.
I wrote a short piece reflecting on the discovery and significance of this metric (and really enjoyed digging into the context and story behind it!) #microsky 🧬
I wrote a short piece reflecting on the discovery and significance of this metric (and really enjoyed digging into the context and story behind it!) #microsky 🧬
Reposted by Jessica Bernardin
Whoa—my book is up for pre-order!
𝐌𝐨𝐝𝐞𝐥 𝐭𝐨 𝐌𝐞𝐚𝐧𝐢𝐧𝐠: 𝐇𝐨𝐰 𝐭𝐨 𝐈𝐧𝐭𝐞𝐫𝐩𝐫𝐞𝐭 𝐒𝐭𝐚𝐭 & 𝐌𝐋 𝐌𝐨𝐝𝐞𝐥𝐬 𝐢𝐧 #Rstats 𝐚𝐧𝐝 #PyData
The book presents an ultra-simple and powerful workflow to make sense of ± any model you fit
The web version will stay free forever and my proceeds go to charity.
tinyurl.com/4fk56fc8
𝐌𝐨𝐝𝐞𝐥 𝐭𝐨 𝐌𝐞𝐚𝐧𝐢𝐧𝐠: 𝐇𝐨𝐰 𝐭𝐨 𝐈𝐧𝐭𝐞𝐫𝐩𝐫𝐞𝐭 𝐒𝐭𝐚𝐭 & 𝐌𝐋 𝐌𝐨𝐝𝐞𝐥𝐬 𝐢𝐧 #Rstats 𝐚𝐧𝐝 #PyData
The book presents an ultra-simple and powerful workflow to make sense of ± any model you fit
The web version will stay free forever and my proceeds go to charity.
tinyurl.com/4fk56fc8
September 17, 2025 at 7:49 PM
Whoa—my book is up for pre-order!
𝐌𝐨𝐝𝐞𝐥 𝐭𝐨 𝐌𝐞𝐚𝐧𝐢𝐧𝐠: 𝐇𝐨𝐰 𝐭𝐨 𝐈𝐧𝐭𝐞𝐫𝐩𝐫𝐞𝐭 𝐒𝐭𝐚𝐭 & 𝐌𝐋 𝐌𝐨𝐝𝐞𝐥𝐬 𝐢𝐧 #Rstats 𝐚𝐧𝐝 #PyData
The book presents an ultra-simple and powerful workflow to make sense of ± any model you fit
The web version will stay free forever and my proceeds go to charity.
tinyurl.com/4fk56fc8
𝐌𝐨𝐝𝐞𝐥 𝐭𝐨 𝐌𝐞𝐚𝐧𝐢𝐧𝐠: 𝐇𝐨𝐰 𝐭𝐨 𝐈𝐧𝐭𝐞𝐫𝐩𝐫𝐞𝐭 𝐒𝐭𝐚𝐭 & 𝐌𝐋 𝐌𝐨𝐝𝐞𝐥𝐬 𝐢𝐧 #Rstats 𝐚𝐧𝐝 #PyData
The book presents an ultra-simple and powerful workflow to make sense of ± any model you fit
The web version will stay free forever and my proceeds go to charity.
tinyurl.com/4fk56fc8
Reposted by Jessica Bernardin
New @exeter.ac.uk reveals how cilia choreograph their “Mexican wave”, enabling marine creatures to swim!
Full paper in Science Advances - www.science.org/doi/10.1126/...
🦑🌊🌍🧪🐟 #AcademicSky
@micromotility.bsky.social
Full paper in Science Advances - www.science.org/doi/10.1126/...
🦑🌊🌍🧪🐟 #AcademicSky
@micromotility.bsky.social
October 29, 2025 at 3:20 PM
New @exeter.ac.uk reveals how cilia choreograph their “Mexican wave”, enabling marine creatures to swim!
Full paper in Science Advances - www.science.org/doi/10.1126/...
🦑🌊🌍🧪🐟 #AcademicSky
@micromotility.bsky.social
Full paper in Science Advances - www.science.org/doi/10.1126/...
🦑🌊🌍🧪🐟 #AcademicSky
@micromotility.bsky.social
Reposted by Jessica Bernardin
I find there's a huge mismatch between the standard advice that people give about scientific conference talks, and how people actually give talks.
So I picked out the most important pieces of advice that are most often ignored. 🧪
So I picked out the most important pieces of advice that are most often ignored. 🧪
The best scientific talk advice that gets ignored
Here are some prescriptions for a case of UCPS (Unengaging Conference Presentation Syndrome).
scienceforeveryone.science
October 28, 2025 at 9:24 PM
I find there's a huge mismatch between the standard advice that people give about scientific conference talks, and how people actually give talks.
So I picked out the most important pieces of advice that are most often ignored. 🧪
So I picked out the most important pieces of advice that are most often ignored. 🧪
Reposted by Jessica Bernardin
We wrote an article explaining why you shouldn't put several variables into a regression model and report which are statistically significant - even as exploratory research. bmjmedicine.bmj.com/content/4/1/.... How did we do?
October 27, 2025 at 5:39 PM
We wrote an article explaining why you shouldn't put several variables into a regression model and report which are statistically significant - even as exploratory research. bmjmedicine.bmj.com/content/4/1/.... How did we do?
Reposted by Jessica Bernardin
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 Jessica Bernardin
Our latest Research Briefing is out, on using metaproteomics and stable isotope labelling to uncover rare species involved in carbon turnover www.nature.com/articles/s41...
Identifying rare and active species that drive carbon turnover in complex microbiotas - Nature Microbiology
By combining bioorthogonal non-canonical amino acid tagging, metaproteomics and stable isotope probing, we identified a rare and uncharacterized bacterium with a glycine-mediated metabolism for syntro...
www.nature.com
October 23, 2025 at 1:02 PM
Our latest Research Briefing is out, on using metaproteomics and stable isotope labelling to uncover rare species involved in carbon turnover www.nature.com/articles/s41...
Reposted by Jessica Bernardin
📣Tomorrow our next series of online seminars restarts: Chris Klausmeier (MSU) will present:
⭐Microbial cross-feeding: coexistence and collapse, spatial patterns and population cycles⭐
Free and open to all:
Zoom link: iite.info/seminar/
Global Times: www.timeanddate.com/worldclock/f...
⭐Microbial cross-feeding: coexistence and collapse, spatial patterns and population cycles⭐
Free and open to all:
Zoom link: iite.info/seminar/
Global Times: www.timeanddate.com/worldclock/f...
October 20, 2025 at 10:50 AM
📣Tomorrow our next series of online seminars restarts: Chris Klausmeier (MSU) will present:
⭐Microbial cross-feeding: coexistence and collapse, spatial patterns and population cycles⭐
Free and open to all:
Zoom link: iite.info/seminar/
Global Times: www.timeanddate.com/worldclock/f...
⭐Microbial cross-feeding: coexistence and collapse, spatial patterns and population cycles⭐
Free and open to all:
Zoom link: iite.info/seminar/
Global Times: www.timeanddate.com/worldclock/f...
Reposted by Jessica Bernardin
📣Our line-up for our next theoretical ecology series (crossing three continents!),
It will have been 5 years since we started, and still all our seminars are fully open on Zoom (iite.info/seminar/).
There is no need to register, but you can sign up to email updates here iite.info/seminar-emai...
It will have been 5 years since we started, and still all our seminars are fully open on Zoom (iite.info/seminar/).
There is no need to register, but you can sign up to email updates here iite.info/seminar-emai...
October 9, 2025 at 2:01 PM
📣Our line-up for our next theoretical ecology series (crossing three continents!),
It will have been 5 years since we started, and still all our seminars are fully open on Zoom (iite.info/seminar/).
There is no need to register, but you can sign up to email updates here iite.info/seminar-emai...
It will have been 5 years since we started, and still all our seminars are fully open on Zoom (iite.info/seminar/).
There is no need to register, but you can sign up to email updates here iite.info/seminar-emai...
Reposted by Jessica Bernardin
So many Russulas about #FungiFriends
October 14, 2025 at 4:49 PM
So many Russulas about #FungiFriends
Reposted by Jessica Bernardin
New blog post!
Let's say you have two measures meant to capture the same confounder. They're highly correlated. Can you still proceed with your regression analysis?
(I admit, the title is a bit of a spoiler)
www.the100.ci/2025/10/13/i...
Let's say you have two measures meant to capture the same confounder. They're highly correlated. Can you still proceed with your regression analysis?
(I admit, the title is a bit of a spoiler)
www.the100.ci/2025/10/13/i...
If you have two measures of the same confounder, you can just include both of them in your regression model
Sometimes, researchers worry about multicollinearity in situations where it’s actually a non-issue. Here’s one such scenario.
Imagine a situation where you are interested in the effect of X on Y (X...
www.the100.ci
October 13, 2025 at 1:14 PM
New blog post!
Let's say you have two measures meant to capture the same confounder. They're highly correlated. Can you still proceed with your regression analysis?
(I admit, the title is a bit of a spoiler)
www.the100.ci/2025/10/13/i...
Let's say you have two measures meant to capture the same confounder. They're highly correlated. Can you still proceed with your regression analysis?
(I admit, the title is a bit of a spoiler)
www.the100.ci/2025/10/13/i...
Reposted by Jessica Bernardin
#statstab #266 When to use negative binomial and Poisson regression
Thoughts: A heated debate and condemnation of NB by @noah_greifer. Seems term confusion is also an issue in the field.
#poisson #regression #negativebinomial #countdata #overdispersion
stats.stackexchange.com/questions/65...
Thoughts: A heated debate and condemnation of NB by @noah_greifer. Seems term confusion is also an issue in the field.
#poisson #regression #negativebinomial #countdata #overdispersion
stats.stackexchange.com/questions/65...
When to use negative binomial and Poisson regression
When would one use a negative binomial regression and when would one use Poisson regression with respect to the mean and variance?
stats.stackexchange.com
January 27, 2025 at 2:04 PM
#statstab #266 When to use negative binomial and Poisson regression
Thoughts: A heated debate and condemnation of NB by @noah_greifer. Seems term confusion is also an issue in the field.
#poisson #regression #negativebinomial #countdata #overdispersion
stats.stackexchange.com/questions/65...
Thoughts: A heated debate and condemnation of NB by @noah_greifer. Seems term confusion is also an issue in the field.
#poisson #regression #negativebinomial #countdata #overdispersion
stats.stackexchange.com/questions/65...
Reposted by Jessica Bernardin
#statstab #433 The Table 2 Fallacy: Presenting and Interpreting Confounder and Modifier Coefficients
Thoughts: Adding predictors to your model results in marked changes in inference. Be mindful!
#table2 #fallacy #covariates #bias #inference #regression
doi.org/10.1093/aje/...
Thoughts: Adding predictors to your model results in marked changes in inference. Be mindful!
#table2 #fallacy #covariates #bias #inference #regression
doi.org/10.1093/aje/...
The Table 2 Fallacy: Presenting and Interpreting Confounder and Modifier Coefficients
Abstract. It is common to present multiple adjusted effect estimates from a single model in a single table. For example, a table might show odds ratios for
doi.org
October 8, 2025 at 7:45 PM
#statstab #433 The Table 2 Fallacy: Presenting and Interpreting Confounder and Modifier Coefficients
Thoughts: Adding predictors to your model results in marked changes in inference. Be mindful!
#table2 #fallacy #covariates #bias #inference #regression
doi.org/10.1093/aje/...
Thoughts: Adding predictors to your model results in marked changes in inference. Be mindful!
#table2 #fallacy #covariates #bias #inference #regression
doi.org/10.1093/aje/...
Reposted by Jessica Bernardin
How can we identify #coexistence in #ecology? There are at least three common approaches (structural stability, eigenvalues, and invasion), and each investigates different aspects of community dynamics (equilibria, locally stable equilibria, and global stability). 1/2
A practical guide to characterising ecological coexistence
Coexistence is simultaneously one of the most fundamental concepts of ecology, and one of the most difficult to define. A particular challenge is that, despite a well-developed body of research, seve...
onlinelibrary.wiley.com
October 14, 2025 at 10:53 AM
How can we identify #coexistence in #ecology? There are at least three common approaches (structural stability, eigenvalues, and invasion), and each investigates different aspects of community dynamics (equilibria, locally stable equilibria, and global stability). 1/2
Reposted by Jessica Bernardin
Cathy is an outstanding scientist and mentor! Definitely apply if your research interests align:
I am recruiting graduate students (MS and/or PhD) for the upcoming fall semester (more info here: tinyurl.com/35p6hfx7), and will soon be hiring a research associate/technician (details TBD).
Study - Department of Biological Sciences | University of South Carolina
tinyurl.com
October 8, 2025 at 5:01 PM
Cathy is an outstanding scientist and mentor! Definitely apply if your research interests align:
Reposted by Jessica Bernardin
Ohio State microbiology department is hiring assistant professor of Microbiome science (due Nov 6). It's an amazing department please apply!! (I would apply if I had more pubs haha...)
jobs.sciencecareers.org/job/675478/a...
jobs.sciencecareers.org/job/675478/a...
October 9, 2025 at 1:49 AM
Ohio State microbiology department is hiring assistant professor of Microbiome science (due Nov 6). It's an amazing department please apply!! (I would apply if I had more pubs haha...)
jobs.sciencecareers.org/job/675478/a...
jobs.sciencecareers.org/job/675478/a...