Seongyeon Kang
@skang.bsky.social
PhD candidate in @uofa-eeb, Polyploidy and traits with phylo-comparative genomics🌼🧬 museum lover and dancer
Reposted by Seongyeon Kang
Symbiotic diversification relies on an ancestral gene network in plants
doi.org/10.1101/2025...
doi.org/10.1101/2025...
Symbiotic diversification relies on an ancestral gene network in plants
Symbioses have been fundamental to colonization of terrestrial ecosystems by plants and their evolution. Emergence of the ancient arbuscular mycorrhizal symbiosis was followed by the diversification o...
doi.org
November 4, 2025 at 5:46 PM
Symbiotic diversification relies on an ancestral gene network in plants
doi.org/10.1101/2025...
doi.org/10.1101/2025...
Reposted by Seongyeon Kang
I cannot believe our work is finally out there and in @journal-evo.bsky.social ! This was an enormous group effort!
We provide an updated estimate of the number of buzz pollinated angiosperm species, genera, and families, look at consequences for diversification, number of transitions, and more!
We provide an updated estimate of the number of buzz pollinated angiosperm species, genera, and families, look at consequences for diversification, number of transitions, and more!
October 23, 2025 at 5:34 AM
I cannot believe our work is finally out there and in @journal-evo.bsky.social ! This was an enormous group effort!
We provide an updated estimate of the number of buzz pollinated angiosperm species, genera, and families, look at consequences for diversification, number of transitions, and more!
We provide an updated estimate of the number of buzz pollinated angiosperm species, genera, and families, look at consequences for diversification, number of transitions, and more!
Reposted by Seongyeon Kang
We are excited to share GPN-Star, a cost-effective, biologically grounded genomic language modeling framework that achieves state-of-the-art performance across a wide range of variant effect prediction tasks relevant to human genetics.
www.biorxiv.org/content/10.1...
(1/n)
www.biorxiv.org/content/10.1...
(1/n)
September 22, 2025 at 5:29 AM
We are excited to share GPN-Star, a cost-effective, biologically grounded genomic language modeling framework that achieves state-of-the-art performance across a wide range of variant effect prediction tasks relevant to human genetics.
www.biorxiv.org/content/10.1...
(1/n)
www.biorxiv.org/content/10.1...
(1/n)
Reposted by Seongyeon Kang
🌸 FLOWERING NEWSLETTER REVIEW 🌸
🧬 Since the discovery of the first plant sex-determining gene, more than 20 other genes have been identified. Here Marais et al. review what this tells us about the evolution of separate sexes (dioecy) in angiosperms 🌸
🔗 doi.org/10.1093/jxb/...
#PlantScience 🧪
🧬 Since the discovery of the first plant sex-determining gene, more than 20 other genes have been identified. Here Marais et al. review what this tells us about the evolution of separate sexes (dioecy) in angiosperms 🌸
🔗 doi.org/10.1093/jxb/...
#PlantScience 🧪
September 23, 2025 at 1:12 PM
🌸 FLOWERING NEWSLETTER REVIEW 🌸
🧬 Since the discovery of the first plant sex-determining gene, more than 20 other genes have been identified. Here Marais et al. review what this tells us about the evolution of separate sexes (dioecy) in angiosperms 🌸
🔗 doi.org/10.1093/jxb/...
#PlantScience 🧪
🧬 Since the discovery of the first plant sex-determining gene, more than 20 other genes have been identified. Here Marais et al. review what this tells us about the evolution of separate sexes (dioecy) in angiosperms 🌸
🔗 doi.org/10.1093/jxb/...
#PlantScience 🧪
Reposted by Seongyeon Kang
Delighted that our paper about the distribution of genomic spans of clades/edges in genealogies (ARGs), and using this for detecting inversions and other SVs (and other phenomena that cause local disruption of recombination) is out in MBE academic.oup.com/mbe/article/... (1/n)
The Length of Haplotype Blocks and Signals of Structural Variation in Reconstructed Genealogies
Abstract. Recent breakthroughs have enabled the accurate inference of large-scale genealogies. Through modelling the impact of recombination on the correla
academic.oup.com
October 3, 2025 at 9:54 AM
Delighted that our paper about the distribution of genomic spans of clades/edges in genealogies (ARGs), and using this for detecting inversions and other SVs (and other phenomena that cause local disruption of recombination) is out in MBE academic.oup.com/mbe/article/... (1/n)
Reposted by Seongyeon Kang
New preprint led by grad student, Yu Mo! We introduce new software to calculate evolutionary rates of quantitative characters in the presence of discordance
1/
www.biorxiv.org/content/10.1...
1/
www.biorxiv.org/content/10.1...
Estimating the rate of quantitative trait evolution in the presence of gene tree discordance by calculating likelihoods across trees
Quantitative traits provide insights into how phenotypes evolve across species. However, standard comparative methods often assume a single species tree and overlook the discordant gene tree histories...
www.biorxiv.org
October 7, 2025 at 3:10 PM
New preprint led by grad student, Yu Mo! We introduce new software to calculate evolutionary rates of quantitative characters in the presence of discordance
1/
www.biorxiv.org/content/10.1...
1/
www.biorxiv.org/content/10.1...
Reposted by Seongyeon Kang
Evolutionary and functional dynamics of chimeric pseudogenes ({varphi}genes) https://www.biorxiv.org/content/10.1101/2025.10.01.679709v1
October 1, 2025 at 10:33 AM
Evolutionary and functional dynamics of chimeric pseudogenes ({varphi}genes) https://www.biorxiv.org/content/10.1101/2025.10.01.679709v1
Reposted by Seongyeon Kang
Life-history evolution under artificial selection in a clonal plant https://www.biorxiv.org/content/10.1101/2025.10.01.679824v1
October 2, 2025 at 12:32 AM
Life-history evolution under artificial selection in a clonal plant https://www.biorxiv.org/content/10.1101/2025.10.01.679824v1
Reposted by Seongyeon Kang
Estimating the rate of quantitative trait evolution in the presence of gene tree discordance by calculating likelihoods across trees https://www.biorxiv.org/content/10.1101/2025.10.06.680724v1
October 7, 2025 at 1:33 AM
Estimating the rate of quantitative trait evolution in the presence of gene tree discordance by calculating likelihoods across trees https://www.biorxiv.org/content/10.1101/2025.10.06.680724v1
Reposted by Seongyeon Kang
Excited to share the latest from the #eFLOWERproject: a morphospace study of angiosperm flowers led by Andrea López-Martínez and Marion Chartier!
Angiosperm flowers reached their highest morphological diversity early in their evolutionary history
nph.onlinelibrary.wiley.com/doi/10.1111/...
Angiosperm flowers reached their highest morphological diversity early in their evolutionary history
nph.onlinelibrary.wiley.com/doi/10.1111/...
Angiosperm flowers reached their highest morphological diversity early in their evolutionary history
Flowers are the complex and highly diverse reproductive structures of angiosperms. Because of their role in sexual reproduction, the evolution of flowers is tightly linked to angiosperm speciation a.....
nph.onlinelibrary.wiley.com
November 30, 2023 at 11:46 PM
Excited to share the latest from the #eFLOWERproject: a morphospace study of angiosperm flowers led by Andrea López-Martínez and Marion Chartier!
Angiosperm flowers reached their highest morphological diversity early in their evolutionary history
nph.onlinelibrary.wiley.com/doi/10.1111/...
Angiosperm flowers reached their highest morphological diversity early in their evolutionary history
nph.onlinelibrary.wiley.com/doi/10.1111/...
Reposted by Seongyeon Kang
Unsolicited listicle: My list of the most criminally underused/underappreciated phylogenetic comparative methods. Note, I am not involved in ANY of these methods; but I see them as things people are often asking of comparative data but have been surprised at how infrequently they have been cited.
May 21, 2025 at 8:06 PM
Unsolicited listicle: My list of the most criminally underused/underappreciated phylogenetic comparative methods. Note, I am not involved in ANY of these methods; but I see them as things people are often asking of comparative data but have been surprised at how infrequently they have been cited.
Reposted by Seongyeon Kang
"To plan for the future, it’s sometimes necessary to look to the past." Nice highlight of our work synthesizing temporal, taxonomic, and spatial trends in botanical collections to facilitate new research avenues @emlombardi.bsky.social @softcorebotany.bsky.social
New research prepares way for future botanical research
To plan for the future, it’s sometimes necessary to look to the past. To improve natural history collection and analysis in the future, a team of researchers is looking at collections of plants from a...
news.unm.edu
February 20, 2025 at 2:34 PM
"To plan for the future, it’s sometimes necessary to look to the past." Nice highlight of our work synthesizing temporal, taxonomic, and spatial trends in botanical collections to facilitate new research avenues @emlombardi.bsky.social @softcorebotany.bsky.social
Reposted by Seongyeon Kang
From Liam Revell et al. Testing for heterogeneous rates of discrete character evolution on phylogenies 🧪 academic.oup.com/jeb/article-...
Testing for heterogeneous rates of discrete character evolution on phylogenies
Abstract. Many hypotheses in the field of phylogenetic comparative biology involve specific changes in the rate or process of trait evolution. This is part
academic.oup.com
December 11, 2024 at 7:38 PM
From Liam Revell et al. Testing for heterogeneous rates of discrete character evolution on phylogenies 🧪 academic.oup.com/jeb/article-...
Reposted by Seongyeon Kang
December 17, 2024 at 4:50 PM
Reposted by Seongyeon Kang
December 21, 2024 at 5:41 PM
Reposted by Seongyeon Kang
A new interpretable #MachineLearning approach to identify plant traits associated with #PlantAdaptation to divergent ecoregions
New in #AppsPlantSci by Sambadi Majumder & Chase Mason (@plantevoecophys.bsky.social)
bsapubs.onlinelibrary.wiley.com/doi/full/10.... #ecophysiology #Helianthus #botany
New in #AppsPlantSci by Sambadi Majumder & Chase Mason (@plantevoecophys.bsky.social)
bsapubs.onlinelibrary.wiley.com/doi/full/10.... #ecophysiology #Helianthus #botany
June 26, 2025 at 6:40 PM
A new interpretable #MachineLearning approach to identify plant traits associated with #PlantAdaptation to divergent ecoregions
New in #AppsPlantSci by Sambadi Majumder & Chase Mason (@plantevoecophys.bsky.social)
bsapubs.onlinelibrary.wiley.com/doi/full/10.... #ecophysiology #Helianthus #botany
New in #AppsPlantSci by Sambadi Majumder & Chase Mason (@plantevoecophys.bsky.social)
bsapubs.onlinelibrary.wiley.com/doi/full/10.... #ecophysiology #Helianthus #botany
Reposted by Seongyeon Kang
Genetic diversity matters because it determines species' capacity to adapt, persist, & recover onlinelibrary.wiley.com/doi/10.1111/... #biodiversity #genomics
Future Projections of Biodiversity Under Global Change Need to Include Genetic Diversity
This perspective argues that current methods for predicting biodiversity loss from future land use and climate change models are incomplete without incorporating projections of genetic diversity. Wit...
onlinelibrary.wiley.com
August 27, 2025 at 1:24 PM
Genetic diversity matters because it determines species' capacity to adapt, persist, & recover onlinelibrary.wiley.com/doi/10.1111/... #biodiversity #genomics
Reposted by Seongyeon Kang
Chromosome-scale Genome Assemblies of Two Allopolyploid Cuscuta Species Uncover Genomic Signatures of Parasitic Lifestyle and Polyploid Evolution
doi.org/10.1101/2025...
Plant genome sequence assembly in the era of long reads: Progress, challenges and future directions
doi.org/10.1017/qpb....
doi.org/10.1101/2025...
Plant genome sequence assembly in the era of long reads: Progress, challenges and future directions
doi.org/10.1017/qpb....
Chromosome-scale Genome Assemblies of Two Allopolyploid Cuscuta Species Uncover Genomic Signatures of Parasitic Lifestyle and Polyploid Evolution
Dodders (Cuscuta spp.) is an obligated parasitic plant, which lost a large part of photosynthetic genes but gained host genes through parasitism-mediated horizontal gene transfer (HGT). Their migrator...
doi.org
August 23, 2025 at 6:44 AM
Chromosome-scale Genome Assemblies of Two Allopolyploid Cuscuta Species Uncover Genomic Signatures of Parasitic Lifestyle and Polyploid Evolution
doi.org/10.1101/2025...
Plant genome sequence assembly in the era of long reads: Progress, challenges and future directions
doi.org/10.1017/qpb....
doi.org/10.1101/2025...
Plant genome sequence assembly in the era of long reads: Progress, challenges and future directions
doi.org/10.1017/qpb....
Reposted by Seongyeon Kang
Important modification... from the FAQ, it seems that students who are beginning their PhDs in Fall 2025 can apply (as long as matriculation date is August 1, 2025 or after). Awards start in Fall 2026.
www.simonsfoundation.org/grant/simons...
www.simonsfoundation.org/grant/simons...
June 2, 2025 at 6:00 PM
Important modification... from the FAQ, it seems that students who are beginning their PhDs in Fall 2025 can apply (as long as matriculation date is August 1, 2025 or after). Awards start in Fall 2026.
www.simonsfoundation.org/grant/simons...
www.simonsfoundation.org/grant/simons...
Reposted by Seongyeon Kang
Partial retention of ancient function increases genetic pleiotropy in grass evolution https://www.biorxiv.org/content/10.1101/2025.08.22.670905v1
August 24, 2025 at 7:03 AM
Partial retention of ancient function increases genetic pleiotropy in grass evolution https://www.biorxiv.org/content/10.1101/2025.08.22.670905v1
Reposted by Seongyeon Kang
I’m proud to present the main work from my postdoc, 3+ years in making from scratch, my ultimate #MimulusPropaganda up till now:
The Moment
That
Symmetry
Breaks.
#plantscience #development #imaging #microscopy 🧪🌸🔬
w. Captain Yaowu & @biancatash.bsky.social
www.biorxiv.org/content/10.1...
The Moment
That
Symmetry
Breaks.
#plantscience #development #imaging #microscopy 🧪🌸🔬
w. Captain Yaowu & @biancatash.bsky.social
www.biorxiv.org/content/10.1...
August 7, 2025 at 2:44 PM
I’m proud to present the main work from my postdoc, 3+ years in making from scratch, my ultimate #MimulusPropaganda up till now:
The Moment
That
Symmetry
Breaks.
#plantscience #development #imaging #microscopy 🧪🌸🔬
w. Captain Yaowu & @biancatash.bsky.social
www.biorxiv.org/content/10.1...
The Moment
That
Symmetry
Breaks.
#plantscience #development #imaging #microscopy 🧪🌸🔬
w. Captain Yaowu & @biancatash.bsky.social
www.biorxiv.org/content/10.1...
Reposted by Seongyeon Kang
The unique morphological basis & repeated evolutionary origins of personate flowers in #Penstemon
New #AJB research by @trinitydepatie.bsky.social & @carriewessi.bsky.social
doi.org/10.1002/ajb2...
#botany #plantscience #phylogenomics #evolution #snapdragon
New #AJB research by @trinitydepatie.bsky.social & @carriewessi.bsky.social
doi.org/10.1002/ajb2...
#botany #plantscience #phylogenomics #evolution #snapdragon
August 4, 2025 at 4:04 PM
The unique morphological basis & repeated evolutionary origins of personate flowers in #Penstemon
New #AJB research by @trinitydepatie.bsky.social & @carriewessi.bsky.social
doi.org/10.1002/ajb2...
#botany #plantscience #phylogenomics #evolution #snapdragon
New #AJB research by @trinitydepatie.bsky.social & @carriewessi.bsky.social
doi.org/10.1002/ajb2...
#botany #plantscience #phylogenomics #evolution #snapdragon
Reposted by Seongyeon Kang
OrthoFinder just dropped a major update
It’s faster, more accurate, and ready for thousands of genomes
Let’s break it down (1/10)
github.com/OrthoFinder/...
www.biorxiv.org/content/10.1...
It’s faster, more accurate, and ready for thousands of genomes
Let’s break it down (1/10)
github.com/OrthoFinder/...
www.biorxiv.org/content/10.1...
July 16, 2025 at 5:51 PM
OrthoFinder just dropped a major update
It’s faster, more accurate, and ready for thousands of genomes
Let’s break it down (1/10)
github.com/OrthoFinder/...
www.biorxiv.org/content/10.1...
It’s faster, more accurate, and ready for thousands of genomes
Let’s break it down (1/10)
github.com/OrthoFinder/...
www.biorxiv.org/content/10.1...
Reposted by Seongyeon Kang
Plasticity in climate change responses - just published in Biological Reviews
What in the role of phenotypic plasticity as an adaptive response to climate change?
Looking at mechanisms from the subcellular to the community and ecosystem levels.
With Stollewerk, @davidboukal.bsky.social, et al.
What in the role of phenotypic plasticity as an adaptive response to climate change?
Looking at mechanisms from the subcellular to the community and ecosystem levels.
With Stollewerk, @davidboukal.bsky.social, et al.
Plasticity in climate change responses
Recent research has shown that climate change can both induce and modulate the expression of plastic traits but our understanding of the role of phenotypic plasticity as an adaptive response to clima...
onlinelibrary.wiley.com
August 3, 2025 at 5:25 PM
Plasticity in climate change responses - just published in Biological Reviews
What in the role of phenotypic plasticity as an adaptive response to climate change?
Looking at mechanisms from the subcellular to the community and ecosystem levels.
With Stollewerk, @davidboukal.bsky.social, et al.
What in the role of phenotypic plasticity as an adaptive response to climate change?
Looking at mechanisms from the subcellular to the community and ecosystem levels.
With Stollewerk, @davidboukal.bsky.social, et al.
Reposted by Seongyeon Kang
🚨 Our GW paper is out in Nature Methods!🥲
GW is a fast genomics browser (up to 100x faster!)
github.com/kcleal/gw
Also, just released a Python interface for GW
github.com/kcleal/gwplot
📝 nature.com/articles/s4159…#Genomicsc#Bioinformaticscs
GW is a fast genomics browser (up to 100x faster!)
github.com/kcleal/gw
Also, just released a Python interface for GW
github.com/kcleal/gwplot
📝 nature.com/articles/s4159…#Genomicsc#Bioinformaticscs
GitHub - kcleal/gw: Genome browser and variant annotation
Genome browser and variant annotation. Contribute to kcleal/gw development by creating an account on GitHub.
github.com
June 26, 2025 at 2:47 PM
🚨 Our GW paper is out in Nature Methods!🥲
GW is a fast genomics browser (up to 100x faster!)
github.com/kcleal/gw
Also, just released a Python interface for GW
github.com/kcleal/gwplot
📝 nature.com/articles/s4159…#Genomicsc#Bioinformaticscs
GW is a fast genomics browser (up to 100x faster!)
github.com/kcleal/gw
Also, just released a Python interface for GW
github.com/kcleal/gwplot
📝 nature.com/articles/s4159…#Genomicsc#Bioinformaticscs