S. Lorena Ament
@loreament.bsky.social
Evolutionary biologist interested in genomics, speciation, reproductive strategies, fungi, and biodiversity. And cats! She/her
Pinned
Reconstructing NOD-like receptor alleles with high internal conservation in Podospora anserina using long-read sequencing
NOD-like receptors (NLRs) are intracellular immune receptors that detect pathogen-associated cues and trigger defence mechanisms, including regulated cell death. In filamentous fungi, some NLRs mediat...
www.microbiologyresearch.org
Happy to see this out! "Reconstructing NOD-like receptor alleles with high internal conservation in #Podospora anserina using long-read sequencing", now in @microbiologysociety.org! 🧬
Keep reading for a simple explanation 🧵 1/n
#Fungi #Allorecognition
www.microbiologyresearch.org/content/jour...
Keep reading for a simple explanation 🧵 1/n
#Fungi #Allorecognition
www.microbiologyresearch.org/content/jour...
"When the female bugs lay their eggs, they rub the cultivated hyphae across the egg mass. The hyphae grow to envelope the eggs and physically exclude attentive parasitoid wasps until the bugs hatch."
#fungi #symbiosis
#fungi #symbiosis
Defensive fungal symbiosis on insect hindlegs
Dinidorid stinkbugs were reported to possess a conspicuous tympanal organ on female hindlegs. In this study, we show that this organ is specialized to retain microbial symbionts rather than to perceiv...
www.science.org
November 10, 2025 at 10:05 PM
"When the female bugs lay their eggs, they rub the cultivated hyphae across the egg mass. The hyphae grow to envelope the eggs and physically exclude attentive parasitoid wasps until the bugs hatch."
#fungi #symbiosis
#fungi #symbiosis
Wow O_o
Wound healing is a hallmark feature of all life, including single cells. In a new preprint, Ambika Nadkarni @biochembika.bsky.social investigates a new dimension in cellular wound healing: how cells recover AFTER the wound has been closed
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
November 10, 2025 at 9:58 PM
Wow O_o
Reposted by S. Lorena Ament
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.
Our paper was included in the Collection "Microbial Genomics of Eukaryotes" from the @microbiologysociety.org 🧬 😁
#genomics #longreadsequencing
www.microbiologyresearch.org/content/micr...
#genomics #longreadsequencing
www.microbiologyresearch.org/content/micr...
October 24, 2025 at 6:55 PM
Our paper was included in the Collection "Microbial Genomics of Eukaryotes" from the @microbiologysociety.org 🧬 😁
#genomics #longreadsequencing
www.microbiologyresearch.org/content/micr...
#genomics #longreadsequencing
www.microbiologyresearch.org/content/micr...
O.o
"From genotype to phenotype with 1,086 near telomere-to-telomere yeast genomes" | Nature share.google/IAaPSj5t9OvQ...
#pangenome #fungi #yeast
"From genotype to phenotype with 1,086 near telomere-to-telomere yeast genomes" | Nature share.google/IAaPSj5t9OvQ...
#pangenome #fungi #yeast
From genotype to phenotype with 1,086 near telomere-to-telomere yeast genomes - Nature
A newly compiled atlas of species-wide structural variants and gene-based and graph pangenomes derived from highly complete assemblies of genomes from 1,086 natural isolates enable integrative genome-...
share.google
October 16, 2025 at 9:24 PM
O.o
"From genotype to phenotype with 1,086 near telomere-to-telomere yeast genomes" | Nature share.google/IAaPSj5t9OvQ...
#pangenome #fungi #yeast
"From genotype to phenotype with 1,086 near telomere-to-telomere yeast genomes" | Nature share.google/IAaPSj5t9OvQ...
#pangenome #fungi #yeast
Wooo!
NOD-like receptor genes evolve under diversity-enhancing mechanisms in a fungal species complex https://www.biorxiv.org/content/10.1101/2025.09.29.679196v1
October 1, 2025 at 5:47 AM
Wooo!
Reposted by S. Lorena Ament
How do species diverge? Could the relative immobility of plants increase their likelihood of speciating in the same place?🧵
September 22, 2025 at 2:11 PM
How do species diverge? Could the relative immobility of plants increase their likelihood of speciating in the same place?🧵
Reposted by S. Lorena Ament
Hybridization and introgression are major evolutionary processes. Since the 1940s, the prevailing view has been that they shape plants far more than animals. In our new study (www.science.org/doi/10.1126/...
), we find the opposite: animals exchange genes more, and for longer, than plants
), we find the opposite: animals exchange genes more, and for longer, than plants
September 12, 2025 at 7:55 AM
Hybridization and introgression are major evolutionary processes. Since the 1940s, the prevailing view has been that they shape plants far more than animals. In our new study (www.science.org/doi/10.1126/...
), we find the opposite: animals exchange genes more, and for longer, than plants
), we find the opposite: animals exchange genes more, and for longer, than plants
"Rapid establishment of species barriers in plants compared with that in animals" by Monnet et al
#Speciation
www.science.org/doi/10.1126/...
#Speciation
www.science.org/doi/10.1126/...
Rapid establishment of species barriers in plants compared with that in animals
Speciation, the process by which new reproductively isolated species emerge from ancestral populations, results from the gradual accumulation of barriers to gene flow within genomes. To date, the noti...
www.science.org
September 12, 2025 at 7:34 AM
"Rapid establishment of species barriers in plants compared with that in animals" by Monnet et al
#Speciation
www.science.org/doi/10.1126/...
#Speciation
www.science.org/doi/10.1126/...
mRNA A-to-I editing in vegetative cells of Fusarium
#fungionsky #fungi #epigenetics
link.springer.com/article/10.1...
#fungionsky #fungi #epigenetics
link.springer.com/article/10.1...
Hyphal editing of the conserved premature stop codon in CHE1 is stimulated by oxidative stress in Fusarium graminearum - Stress Biology
Although genome-wide A-to-I editing mediated by adenosine-deaminase-acting-on-tRNA (ADAT) occurs during sexual reproduction in the presence of stage-specific cofactors, RNA editing is not known to occ...
link.springer.com
September 6, 2025 at 12:04 PM
mRNA A-to-I editing in vegetative cells of Fusarium
#fungionsky #fungi #epigenetics
link.springer.com/article/10.1...
#fungionsky #fungi #epigenetics
link.springer.com/article/10.1...
Reposted by S. Lorena Ament
What causes viral transmission bottlenecks? This study uses barcoded virions to show that in the case of #influenza A #virus, early within-host replication dynamics (rather than a reduced inoculum population) drive loss of diversity during transmission @plosbiology.org 🧪 plos.io/4ngicDK
September 3, 2025 at 7:52 AM
What causes viral transmission bottlenecks? This study uses barcoded virions to show that in the case of #influenza A #virus, early within-host replication dynamics (rather than a reduced inoculum population) drive loss of diversity during transmission @plosbiology.org 🧪 plos.io/4ngicDK
Reposted by S. Lorena Ament
🌎👩🔬 For 15+ years biology has accumulated petabytes (million gigabytes) of🧬DNA sequencing data🧬 from the far reaches of our planet.🦠🍄🌵
Logan now democratizes efficient access to the world’s most comprehensive genetics dataset. Free and open.
doi.org/10.1101/2024...
Logan now democratizes efficient access to the world’s most comprehensive genetics dataset. Free and open.
doi.org/10.1101/2024...
September 3, 2025 at 8:39 AM
🌎👩🔬 For 15+ years biology has accumulated petabytes (million gigabytes) of🧬DNA sequencing data🧬 from the far reaches of our planet.🦠🍄🌵
Logan now democratizes efficient access to the world’s most comprehensive genetics dataset. Free and open.
doi.org/10.1101/2024...
Logan now democratizes efficient access to the world’s most comprehensive genetics dataset. Free and open.
doi.org/10.1101/2024...
Reposted by S. Lorena Ament
Check out our new paper on adopting a trait-based framework for protist diversity! We make the case for a unified protist trait database, how to build it, and how it could transform research on protist ecology and evolution.
#protistsonsky
#protistsonsky
Hello there 🦋
Happy to share our piece "Towards a trait-based framework for protist ecology and evolution" in @cp-trendsmicrobiol.bsky.social
Let's build a unified trait 📏 database to unlock transformative insights into protist 🔬 ecology 🌍 and evolution ⏳
▶️ doi.org/10.1016/j.ti...
#protistsonsky
Happy to share our piece "Towards a trait-based framework for protist ecology and evolution" in @cp-trendsmicrobiol.bsky.social
Let's build a unified trait 📏 database to unlock transformative insights into protist 🔬 ecology 🌍 and evolution ⏳
▶️ doi.org/10.1016/j.ti...
#protistsonsky
September 3, 2025 at 8:47 AM
Check out our new paper on adopting a trait-based framework for protist diversity! We make the case for a unified protist trait database, how to build it, and how it could transform research on protist ecology and evolution.
#protistsonsky
#protistsonsky
Sclerotina and its weird-ass arrangement of different chromosomes in two separate nuclei still follow normal meiosis, it turns out.
#fungi #meiosis
www.nature.com/articles/s41...
#fungi #meiosis
www.nature.com/articles/s41...
Normal meiosis in the fungus Sclerotinia sclerotiorum despite the irregular distribution of haploid chromosomes between two nuclei - Nature Communications
The fungus Sclerotinia sclerotiorum distributes its 16 chromosomes irregularly between two nuclei within single ascospore cells. Here, the authors show that chromosomal segregation and genetic recombi...
www.nature.com
August 27, 2025 at 4:46 PM
Sclerotina and its weird-ass arrangement of different chromosomes in two separate nuclei still follow normal meiosis, it turns out.
#fungi #meiosis
www.nature.com/articles/s41...
#fungi #meiosis
www.nature.com/articles/s41...
Reposted by S. Lorena Ament
I'm super bummed to be missing #ESEB2025 @eseb2025.bsky.social due to a cancelled flight! Here's a quick overview of my talk "Gene- and genome-focused perspectives on microbial pangenomes" slated to be part of The Evolution of Microbial Pangenomes -- which I recommend you attend tomorrow (Fri) !
1/n
1/n
August 21, 2025 at 4:57 PM
I'm super bummed to be missing #ESEB2025 @eseb2025.bsky.social due to a cancelled flight! Here's a quick overview of my talk "Gene- and genome-focused perspectives on microbial pangenomes" slated to be part of The Evolution of Microbial Pangenomes -- which I recommend you attend tomorrow (Fri) !
1/n
1/n
Reposted by S. Lorena Ament
Our paper describing our new improved GFmix models for phylogenetic inference that capture site-and-branch heterogeneity in amino acid composition.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Modeling site-and-branch-heterogeneity with GFmix
Phylogenetic trees are often inferred from protein sequences sampled from diverse taxa across the tree of life. The compositions of these amino acid sequences may be heterogeneous across both sites an...
www.biorxiv.org
August 12, 2025 at 12:53 PM
Our paper describing our new improved GFmix models for phylogenetic inference that capture site-and-branch heterogeneity in amino acid composition.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by S. Lorena Ament
How predictably does complex trait adaptation proceed over space and time in wild populations?
doi.org/10.1093/evle...
Now in @evolletters.bsky.social by @skylerberardi.bsky.social, @paulrschmidt.bsky.social et al.
📷: Dr. Rush Dhillon
doi.org/10.1093/evle...
Now in @evolletters.bsky.social by @skylerberardi.bsky.social, @paulrschmidt.bsky.social et al.
📷: Dr. Rush Dhillon
July 31, 2025 at 6:35 PM
How predictably does complex trait adaptation proceed over space and time in wild populations?
doi.org/10.1093/evle...
Now in @evolletters.bsky.social by @skylerberardi.bsky.social, @paulrschmidt.bsky.social et al.
📷: Dr. Rush Dhillon
doi.org/10.1093/evle...
Now in @evolletters.bsky.social by @skylerberardi.bsky.social, @paulrschmidt.bsky.social et al.
📷: Dr. Rush Dhillon
Reposted by S. Lorena Ament
@charleston.bsky.social and colleagues introduce the ancestry-specific expected genetic relationship matrix (as-eGRM), an analysis framework that estimates the relatedness within ancestry components between admixed individuals, in the @ajhgnews.bsky.social latest article: bit.ly/3U5p0aI #ASHG
July 31, 2025 at 8:08 PM
@charleston.bsky.social and colleagues introduce the ancestry-specific expected genetic relationship matrix (as-eGRM), an analysis framework that estimates the relatedness within ancestry components between admixed individuals, in the @ajhgnews.bsky.social latest article: bit.ly/3U5p0aI #ASHG
Reposted by S. Lorena Ament
A pangenomics-enabled platform for the high-throughput discovery of antifungal resistance factors in crop pathogens https://www.biorxiv.org/content/10.1101/2025.07.18.665620v1
July 20, 2025 at 4:17 AM
A pangenomics-enabled platform for the high-throughput discovery of antifungal resistance factors in crop pathogens https://www.biorxiv.org/content/10.1101/2025.07.18.665620v1
Reposted by S. Lorena Ament
Our description of the transcriptomic changes during sexual development in #Podospora anserina is out in @genomics.peercommunityin.org ! peercommunityjournal.org/articles/10....
@i2bcparissaclay.bsky.social @univparissaclay.bsky.social
@i2bcparissaclay.bsky.social @univparissaclay.bsky.social
Sexual reproduction is controlled by successive transcriptomic waves in Podospora anserina
peercommunityjournal.org
July 7, 2025 at 5:40 AM
Our description of the transcriptomic changes during sexual development in #Podospora anserina is out in @genomics.peercommunityin.org ! peercommunityjournal.org/articles/10....
@i2bcparissaclay.bsky.social @univparissaclay.bsky.social
@i2bcparissaclay.bsky.social @univparissaclay.bsky.social
Reposted by S. Lorena Ament
New preprint: we advertise DAFNEE, a database of academia-friendly eco-evo-archaeo journals. 1/6
#AcademicPublishing #ecoevo #archaeology #EthicalPublishing #SocietyJournals #DiamondOpenAccess
doi.org/10.32942/X24...
#AcademicPublishing #ecoevo #archaeology #EthicalPublishing #SocietyJournals #DiamondOpenAccess
doi.org/10.32942/X24...
Time to publish ethically: DAFNEE, a database of academia-friendly journals in ecology and evolutionary biology.
doi.org
June 24, 2025 at 6:42 PM
New preprint: we advertise DAFNEE, a database of academia-friendly eco-evo-archaeo journals. 1/6
#AcademicPublishing #ecoevo #archaeology #EthicalPublishing #SocietyJournals #DiamondOpenAccess
doi.org/10.32942/X24...
#AcademicPublishing #ecoevo #archaeology #EthicalPublishing #SocietyJournals #DiamondOpenAccess
doi.org/10.32942/X24...
Happy to see this out! "Reconstructing NOD-like receptor alleles with high internal conservation in #Podospora anserina using long-read sequencing", now in @microbiologysociety.org! 🧬
Keep reading for a simple explanation 🧵 1/n
#Fungi #Allorecognition
www.microbiologyresearch.org/content/jour...
Keep reading for a simple explanation 🧵 1/n
#Fungi #Allorecognition
www.microbiologyresearch.org/content/jour...
Reconstructing NOD-like receptor alleles with high internal conservation in Podospora anserina using long-read sequencing
NOD-like receptors (NLRs) are intracellular immune receptors that detect pathogen-associated cues and trigger defence mechanisms, including regulated cell death. In filamentous fungi, some NLRs mediat...
www.microbiologyresearch.org
July 2, 2025 at 6:10 PM
Happy to see this out! "Reconstructing NOD-like receptor alleles with high internal conservation in #Podospora anserina using long-read sequencing", now in @microbiologysociety.org! 🧬
Keep reading for a simple explanation 🧵 1/n
#Fungi #Allorecognition
www.microbiologyresearch.org/content/jour...
Keep reading for a simple explanation 🧵 1/n
#Fungi #Allorecognition
www.microbiologyresearch.org/content/jour...