Lucas Venegas
@lucavegu.bsky.social
PhD Candidate - Université Laval 🇨🇦 and University of Chile 🇨🇱
Hologenomics 🦠🧬| Genomic prediction 🧬 | Microbiomes 🧫| Aquaculture 🐟
Hologenomics 🦠🧬| Genomic prediction 🧬 | Microbiomes 🧫| Aquaculture 🐟
Happy to share: The Role of Human–Pig Interactions in Modulating Gut Microbiota, Stress, and Performance, has been recently accepted in the Porcine Health Management journal.
I would like to congratulate all the authors, specially to Daniela Luna for all the work done ! Stay tuned for the next one!
I would like to congratulate all the authors, specially to Daniela Luna for all the work done ! Stay tuned for the next one!
September 16, 2025 at 2:19 PM
Happy to share: The Role of Human–Pig Interactions in Modulating Gut Microbiota, Stress, and Performance, has been recently accepted in the Porcine Health Management journal.
I would like to congratulate all the authors, specially to Daniela Luna for all the work done ! Stay tuned for the next one!
I would like to congratulate all the authors, specially to Daniela Luna for all the work done ! Stay tuned for the next one!
Reposted by Lucas Venegas
Today, our article "The entities enabling scientific fraud at scale are large, resilient, and growing rapidly" is finally published in PNAS. I hope that it proves to be a wake-up-call for the whole scientific community.
reeserichardson.blog/2025/08/04/a...
reeserichardson.blog/2025/08/04/a...
A do-or-die moment for the scientific enterprise
Reflecting on our paper “The entities enabling scientific fraud at scale are large, resilient, and growing rapidly”
reeserichardson.blog
August 4, 2025 at 8:47 PM
Today, our article "The entities enabling scientific fraud at scale are large, resilient, and growing rapidly" is finally published in PNAS. I hope that it proves to be a wake-up-call for the whole scientific community.
reeserichardson.blog/2025/08/04/a...
reeserichardson.blog/2025/08/04/a...
August 3, 2025 at 12:43 PM
Reposted by Lucas Venegas
Our new preprint is out!
www.biorxiv.org/content/10.1...
In this study, we present the largest systematic analysis of microbiome structure and function, integrating 85K uniformly processed metagenomes from diverse habitats worldwide.
@podlesny.bsky.social @jonas-bio.bsky.social @borklab.bsky.social
www.biorxiv.org/content/10.1...
In this study, we present the largest systematic analysis of microbiome structure and function, integrating 85K uniformly processed metagenomes from diverse habitats worldwide.
@podlesny.bsky.social @jonas-bio.bsky.social @borklab.bsky.social
Planetary microbiome structure and generalist-driven gene flow across disparate habitats
Microbes are ubiquitous on Earth, forming microbiomes that sustain macroscopic life and biogeochemical cycles. Microbial dispersion, driven by natural processes and human activities, interconnects mic...
www.biorxiv.org
July 21, 2025 at 11:56 AM
Our new preprint is out!
www.biorxiv.org/content/10.1...
In this study, we present the largest systematic analysis of microbiome structure and function, integrating 85K uniformly processed metagenomes from diverse habitats worldwide.
@podlesny.bsky.social @jonas-bio.bsky.social @borklab.bsky.social
www.biorxiv.org/content/10.1...
In this study, we present the largest systematic analysis of microbiome structure and function, integrating 85K uniformly processed metagenomes from diverse habitats worldwide.
@podlesny.bsky.social @jonas-bio.bsky.social @borklab.bsky.social
Reposted by Lucas Venegas
On the importance of negative controls in microbiota research (this one with a focus on insect microbiota) journals.asm.org/doi/full/10....
Blanking on blanks: few insect microbiota studies control for contaminants | mBio
Our systematic review reveals a major lack of methodological rigor within the field
of research on insect-associated microbiota. The small percentage of studies that
control for contamination suggests...
journals.asm.org
February 26, 2025 at 5:26 AM
On the importance of negative controls in microbiota research (this one with a focus on insect microbiota) journals.asm.org/doi/full/10....
Reposted by Lucas Venegas
Happy to share that my paper on creativity in research labs is out in the "Ten Simply Rules" article series.
Ten simple rules for fostering creativity in research labs
I hope you find it to be useful.
#AcademicSky
journals.plos.org/ploscompbiol...
Ten simple rules for fostering creativity in research labs
I hope you find it to be useful.
#AcademicSky
journals.plos.org/ploscompbiol...
Ten simple rules for fostering creativity in research labs
Research lab groups are hotspots for the education of the next generation of scientists, and making these units work as creatively as possible is essential for solving pressing issues in biology, the ...
journals.plos.org
February 15, 2025 at 9:22 AM
Happy to share that my paper on creativity in research labs is out in the "Ten Simply Rules" article series.
Ten simple rules for fostering creativity in research labs
I hope you find it to be useful.
#AcademicSky
journals.plos.org/ploscompbiol...
Ten simple rules for fostering creativity in research labs
I hope you find it to be useful.
#AcademicSky
journals.plos.org/ploscompbiol...
Reposted by Lucas Venegas
Really excited to share a new preprint on data combination in 16S rRNA studies. I'm going to come back and do a skeetorial shortly, but I wanted to put it out first.
In 60 studies w/ 2+ microbiome datasets, we looked at data source, data description, bioinfo & analysis
doi.org/10.1101/2025...
In 60 studies w/ 2+ microbiome datasets, we looked at data source, data description, bioinfo & analysis
doi.org/10.1101/2025...
In harmony? A scoping review of methods to combine multiple 16S amplicon data sets
Robust evidence on relationships between the human microbiome and health are critical for understanding and improving the human condition. However, there is little information about methodological app...
www.biorxiv.org
February 12, 2025 at 10:14 PM
Really excited to share a new preprint on data combination in 16S rRNA studies. I'm going to come back and do a skeetorial shortly, but I wanted to put it out first.
In 60 studies w/ 2+ microbiome datasets, we looked at data source, data description, bioinfo & analysis
doi.org/10.1101/2025...
In 60 studies w/ 2+ microbiome datasets, we looked at data source, data description, bioinfo & analysis
doi.org/10.1101/2025...
Reposted by Lucas Venegas
Here is a great new initiative in #ScientificPublishing:
* Transparant and collaborative peer review
* Recognition for peer reviewers
* Affordable publishing: single article submission is only $400 !
www.stacksjournal.org
* Transparant and collaborative peer review
* Recognition for peer reviewers
* Affordable publishing: single article submission is only $400 !
www.stacksjournal.org
Stacks Journal | Create better science, together.
A scientific journal designed for ethics and ease. Publishing articles, Special Issues, and entire journals.
www.stacksjournal.org
February 2, 2025 at 10:32 PM
Here is a great new initiative in #ScientificPublishing:
* Transparant and collaborative peer review
* Recognition for peer reviewers
* Affordable publishing: single article submission is only $400 !
www.stacksjournal.org
* Transparant and collaborative peer review
* Recognition for peer reviewers
* Affordable publishing: single article submission is only $400 !
www.stacksjournal.org
Reposted by Lucas Venegas
while looking at the literature, we realised how understudied is this animals as #holobiont, so we put together all the relative current knowledge in this paper "#Bacterial #Diversity Associated with #Terrestrial and #Aquatic #Snails"
doi.org/10.3390/micr...
#SymbioSky #MikroSky ##hostmicrobiota
doi.org/10.3390/micr...
#SymbioSky #MikroSky ##hostmicrobiota
Bacterial Diversity Associated with Terrestrial and Aquatic Snails
The introduction of the holobiont concept has triggered scientific interest in depicting the structural and functional diversity of animal microbial symbionts, which has resulted in an unprecedented w...
doi.org
December 31, 2024 at 2:05 PM
while looking at the literature, we realised how understudied is this animals as #holobiont, so we put together all the relative current knowledge in this paper "#Bacterial #Diversity Associated with #Terrestrial and #Aquatic #Snails"
doi.org/10.3390/micr...
#SymbioSky #MikroSky ##hostmicrobiota
doi.org/10.3390/micr...
#SymbioSky #MikroSky ##hostmicrobiota
Reposted by Lucas Venegas
Resignation of the Journal of Human Evolution Editorial Board: We are saddened to announce the resignations of The Joint Editors-in-Chief, all Emeritus Editors retired or active in the field, and all but one Associate Editor. Press release below.
December 26, 2024 at 4:52 PM
Resignation of the Journal of Human Evolution Editorial Board: We are saddened to announce the resignations of The Joint Editors-in-Chief, all Emeritus Editors retired or active in the field, and all but one Associate Editor. Press release below.
Reposted by Lucas Venegas
...that the evidence does not support the notion that probiotics help recover the microbiome from antibiotics.
This is in line with a recent meta-analysis performed by an independent group of researchers (pmc.ncbi.nlm.nih.gov/articles/PMC...)
‼️ This does not mean that probiotics are useless ‼️ 5/🧵
This is in line with a recent meta-analysis performed by an independent group of researchers (pmc.ncbi.nlm.nih.gov/articles/PMC...)
‼️ This does not mean that probiotics are useless ‼️ 5/🧵
December 13, 2024 at 11:34 PM
...that the evidence does not support the notion that probiotics help recover the microbiome from antibiotics.
This is in line with a recent meta-analysis performed by an independent group of researchers (pmc.ncbi.nlm.nih.gov/articles/PMC...)
‼️ This does not mean that probiotics are useless ‼️ 5/🧵
This is in line with a recent meta-analysis performed by an independent group of researchers (pmc.ncbi.nlm.nih.gov/articles/PMC...)
‼️ This does not mean that probiotics are useless ‼️ 5/🧵
Reposted by Lucas Venegas
Today we report that an engineered skin bacterium, swabbed gently on the head of a mouse, can unleash a potent antibody response against a pathogen. Could lead to topical vaccines that are applied in a cream. @djenetbousbaine.bsky.social led the charge... @natureportfolio.bsky.social 1/55
December 11, 2024 at 4:29 PM
Today we report that an engineered skin bacterium, swabbed gently on the head of a mouse, can unleash a potent antibody response against a pathogen. Could lead to topical vaccines that are applied in a cream. @djenetbousbaine.bsky.social led the charge... @natureportfolio.bsky.social 1/55
Reposted by Lucas Venegas
Frustrating - I reviewed a paper that was highly problematic, mainly in scientific rigour undermining most of the conclusions, so I recommend Reject. However the editor decides to Revise presumably due to the more positive comments from reviewer 2... /1
December 11, 2024 at 9:09 AM
Frustrating - I reviewed a paper that was highly problematic, mainly in scientific rigour undermining most of the conclusions, so I recommend Reject. However the editor decides to Revise presumably due to the more positive comments from reviewer 2... /1
Reposted by Lucas Venegas
Pleased to see this out in @peercomjournal.bsky.social @peercommunityin.bsky.social
The effect of dietary #fish #oil replacement by #microalgae on the #gilthead #seabream #midgut bacterial #microbiota
@hostmicrobelit.bsky.social #SymbioSky #SciComm
peercommunityjournal.org/articles/10....
The effect of dietary #fish #oil replacement by #microalgae on the #gilthead #seabream #midgut bacterial #microbiota
@hostmicrobelit.bsky.social #SymbioSky #SciComm
peercommunityjournal.org/articles/10....
The effect of dietary fish oil replacement by microalgae on the gilthead sea bream midgut bacterial microbiota
peercommunityjournal.org
December 10, 2024 at 8:10 AM
Pleased to see this out in @peercomjournal.bsky.social @peercommunityin.bsky.social
The effect of dietary #fish #oil replacement by #microalgae on the #gilthead #seabream #midgut bacterial #microbiota
@hostmicrobelit.bsky.social #SymbioSky #SciComm
peercommunityjournal.org/articles/10....
The effect of dietary #fish #oil replacement by #microalgae on the #gilthead #seabream #midgut bacterial #microbiota
@hostmicrobelit.bsky.social #SymbioSky #SciComm
peercommunityjournal.org/articles/10....
Reposted by Lucas Venegas
The older I get the more I understand how little I really know. I shudder at the certitude of my youth. Actually, it wasn’t really certitude; it was ego. We spend too much time reinforcing what we wish to be true….instead of learning. IMO.
November 25, 2024 at 2:42 PM
The older I get the more I understand how little I really know. I shudder at the certitude of my youth. Actually, it wasn’t really certitude; it was ego. We spend too much time reinforcing what we wish to be true….instead of learning. IMO.
Reposted by Lucas Venegas
I wrote about the backstory of our recently published metagenomic profiler called sylph (www.nature.com/articles/s41...), partially to celebrate the new migration to bluesky
Check out the blog here: jim-shaw-bluenote.github.io/blog/2024/de... -- and I apologize in advance for the lack of brevity :)
Check out the blog here: jim-shaw-bluenote.github.io/blog/2024/de... -- and I apologize in advance for the lack of brevity :)
Developing sylph - a look into bioinformatics tool development | Jim Shaw
Jim Shaw's academic website.
jim-shaw-bluenote.github.io
November 19, 2024 at 5:05 AM
I wrote about the backstory of our recently published metagenomic profiler called sylph (www.nature.com/articles/s41...), partially to celebrate the new migration to bluesky
Check out the blog here: jim-shaw-bluenote.github.io/blog/2024/de... -- and I apologize in advance for the lack of brevity :)
Check out the blog here: jim-shaw-bluenote.github.io/blog/2024/de... -- and I apologize in advance for the lack of brevity :)
Reposted by Lucas Venegas
Enjoying this deep dive into the link between coffee and the microbiome
They found a microbe (Lawsonibacter asaccharolyticus) that is 4- to 8-fold more abundant in coffee drinkers, and correlates with coffee intake in worldwide populations
www.nature.com/articles/s41...
They found a microbe (Lawsonibacter asaccharolyticus) that is 4- to 8-fold more abundant in coffee drinkers, and correlates with coffee intake in worldwide populations
www.nature.com/articles/s41...
Coffee consumption is associated with intestinal Lawsonibacter asaccharolyticus abundance and prevalence across multiple cohorts - Nature Microbiology
Coffee consumption is associated with the presence and abundance of a specific member of the human gut microbiome, Lawsonibacter asaccharolyticus, and changes to the plasma metabolome.
www.nature.com
November 19, 2024 at 10:09 PM
Enjoying this deep dive into the link between coffee and the microbiome
They found a microbe (Lawsonibacter asaccharolyticus) that is 4- to 8-fold more abundant in coffee drinkers, and correlates with coffee intake in worldwide populations
www.nature.com/articles/s41...
They found a microbe (Lawsonibacter asaccharolyticus) that is 4- to 8-fold more abundant in coffee drinkers, and correlates with coffee intake in worldwide populations
www.nature.com/articles/s41...
Post a picture you took (no description) to bring some zen to the timeline
November 16, 2024 at 7:19 PM
Post a picture you took (no description) to bring some zen to the timeline
Reposted by Lucas Venegas
Estimates of microbiome heritability across hosts.
#Microbiome #NatureMicrobiology #BioSky #SciSky 🧪
www.nature.com/articles/s41...
#Microbiome #NatureMicrobiology #BioSky #SciSky 🧪
www.nature.com/articles/s41...
Estimates of microbiome heritability across hosts - Nature Microbiology
In this Perspective, Morris and Bohannan discuss heritability of microbiome-mediated traits across hosts and future research questions with implications for animal and plant breeding.
www.nature.com
November 16, 2024 at 11:18 AM
Estimates of microbiome heritability across hosts.
#Microbiome #NatureMicrobiology #BioSky #SciSky 🧪
www.nature.com/articles/s41...
#Microbiome #NatureMicrobiology #BioSky #SciSky 🧪
www.nature.com/articles/s41...
Reposted by Lucas Venegas
🚀Thrilled to announce our new #Science perspective on #holobiont #biology! 🎉
💡Read how considering #host-microbe interactions, can revolutionise #food production, #conservation, #medicine and more.🦠🌾🧬
Find the paper here👇 science.org/doi/10.1126/...
🧵👇 #hologenomics #collaboration #network
💡Read how considering #host-microbe interactions, can revolutionise #food production, #conservation, #medicine and more.🦠🌾🧬
Find the paper here👇 science.org/doi/10.1126/...
🧵👇 #hologenomics #collaboration #network
The disciplinary matrix of holobiont biology
Uniting life’s seen and unseen realms guides a conceptual advance in research
science.org
November 15, 2024 at 10:30 AM
🚀Thrilled to announce our new #Science perspective on #holobiont #biology! 🎉
💡Read how considering #host-microbe interactions, can revolutionise #food production, #conservation, #medicine and more.🦠🌾🧬
Find the paper here👇 science.org/doi/10.1126/...
🧵👇 #hologenomics #collaboration #network
💡Read how considering #host-microbe interactions, can revolutionise #food production, #conservation, #medicine and more.🦠🌾🧬
Find the paper here👇 science.org/doi/10.1126/...
🧵👇 #hologenomics #collaboration #network