Wenfei Xian (冼文飞)
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wenfeixian.bsky.social
Wenfei Xian (冼文飞)
@wenfeixian.bsky.social
100 followers 160 following 7 posts
PhD student in Weigel world https://www.weigelworld.org/
how genetic variants are generated, how they evolve, and how they are maintained in the genomes.
github: https://github.com/Wenfei-Xian
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Reposted by Wenfei Xian (冼文飞)
plantevolution.bsky.social
1/3 New preprint led by Shanshan Wang, in collaboration with the Timmermans lab.

Several groups have presented sc/snRNA-seq analyses of Arabidopsis leaves after bacterial infection before. Is there anything left to discover? Turns out: Yes.

#plantscience
www.biorxiv.org/content/10.1...
August 2, 2025 at 2:46 PM
wenfeixian.bsky.social
😃
plantevolution.bsky.social PlantEvolution 🌱🌾 @plantevolution.bsky.social · Aug 6
1/2 Study led by @wenfeixian.bsky.social revisiting somatic mutations in the Napoleon Oak now out after peer review, using @pacbio.bsky.social data to improve the genome assembly. Wenfei also developed a clever way to map short reads to a highly heterozygous genome.
academic.oup.com/g3journal/ar...
August 7, 2025 at 7:35 AM
wenfeixian.bsky.social
Super happy to share that I’ve passed my PhD defense! 🍾
It’s been an amazing journey doing my PhD in the Weigel World.
Huge thanks to my supervisor, Detlef @plantevolution.bsky.social , even with your crazy schedule, you always made time to guide me.
Couldn’t have done it without all your support!!!
August 6, 2025 at 1:36 PM
Reposted by Wenfei Xian (冼文飞)
plantevolution.bsky.social
In our latest @biorxiv-genomic.bsky.social preprint, we describe our approach to use PacBio HiFi reads to detect somatic TE transposition -- good enough to detect rare events that are present in only single cells. Led by Andrea Movilli.
#plantscience
www.biorxiv.org/content/10.1...
Diagram of somatic TE insertions across the A. thaliana genome
February 10, 2025 at 10:57 AM
wenfeixian.bsky.social
Large repeats are common in plant organellar genomes. Half of the A. thaliana mitogenomes we assembled have two large repeat pairs, while others have only one, where we identified two potential HGT events. Large repeats link to geography and cold traits.
Feedback welcome on bioRxiv, Email, etc.!
January 15, 2025 at 9:57 AM
Reposted by Wenfei Xian (冼文飞)
plantevolution.bsky.social
Announcing a curated collection of long-read genomes for Arabidopsis thaliana: The 1001 Genomes Plus Project. Currently 453 unique accessions/almost 600 assemblies.
Interested in contributing? Please contact us!
#plantscience
www.biorxiv.org/content/10.1...
December 27, 2024 at 7:51 AM
Reposted by Wenfei Xian (冼文飞)
hmchen93.bsky.social
Super excited to announce that our SCRM story is officially published!!! 🎉🎉🎉

Want to discover the exciting new functions of ICE1/SCRM?

Want to dive into the latest model of plant embryo initiation?

Don’t miss out—check it out here:
nph.onlinelibrary.wiley.com/doi/10.1111/...
Phosphorylation‐dependent activation of the bHLH transcription factor ICE1/SCRM promotes polarization of the Arabidopsis zygote
In Arabidopsis thaliana, the asymmetric cell division (ACD) of the zygote gives rise to the embryo proper and an extraembryonic suspensor, respectively. This process is controlled by the ERECTA-YODA...
nph.onlinelibrary.wiley.com
November 17, 2024 at 7:46 PM
Reposted by Wenfei Xian (冼文飞)
biorxiv-molbio.bsky.social
Accessory proteins increase the efficiency of RNA editing by Arabidopsis chloroplast editosomes https://www.biorxiv.org/content/10.1101/2024.04.05.588343v1
Accessory proteins increase the efficiency of RNA editing by Arabidopsis chloroplast editosomes https://www.biorxiv.org/content/10.1101/2024.04.05.588343v1
RNA editing modifies cytidines to uridines in plant organelle transcripts so that their sequence dif
www.biorxiv.org
April 7, 2024 at 5:18 AM
Reposted by Wenfei Xian (冼文飞)
biorxiv-evobio.bsky.social
Effects of spontaneous mutations on survival and reproduction of Drosophila serrata infected with Drosophila C virus https://www.biorxiv.org/content/10.1101/2024.04.04.588202v1
Effects of spontaneous mutations on survival and reproduction of Drosophila serrata infected with Drosophila C virus https://www.biorxiv.org/content/10.1101/2024.04.04.588202v1
The impact of selection on host immune function genes has been widely documented. However, it remain
www.biorxiv.org
April 7, 2024 at 5:31 AM
Reposted by Wenfei Xian (冼文飞)
plantevolution.bsky.social
How cool is that -- would not have guessed that the type of genetic incompatibility, hybrid necrosis, that we've studied for many years, is also the cause for graft incompatibility. I wonder whether it's a story of mismatched helper NLRs... @kamounlab.bsky.social
April 4, 2024 at 3:43 PM
Reposted by Wenfei Xian (冼文飞)
biorxiv-evobio.bsky.social
Transposable elements as evolutionary driving force to ecological speciation in cactophilic Drosophila species https://www.biorxiv.org/content/10.1101/2024.03.27.587021v1
Transposable elements as evolutionary driving force to ecological speciation in cactophilic Drosophila species https://www.biorxiv.org/content/10.1101/2024.03.27.587021v1
Background The host shift in insects has been considered a key process with potential to collaborate
www.biorxiv.org
March 30, 2024 at 8:32 PM
Reposted by Wenfei Xian (冼文飞)
duetosymmetry.com
The Event Horizon Telescope has measured the *polarized* radiation from our friendly neighborhood black hole, Sgr A*! Press release: eventhorizontelescope.org/blog/astrono..., papers in next skeet 🔭🧪
A view of the Milky Way supermassive black hole Sagittarius A* in polarized light.
March 27, 2024 at 1:10 PM
Reposted by Wenfei Xian (冼文飞)
lepidodendron.bsky.social
last week my latest paper on #cycads came out.
The article deals with the idea of cycads as "living #fossils", but what does this mean exactly, and what did we actually test? A thread for #FossilFriday!
www.nature.com/articles/s42...
Disparity of cycad leaves dispels the living fossil metaphor - Communications Biology
An analysis of leaf disparity through time in cycads shows that this group has a dynamic and expanding morphological diversity until the present, and thus does not fit the ‘living fossil’ hypothesis o...
www.nature.com
March 22, 2024 at 2:08 PM
Reposted by Wenfei Xian (冼文飞)
stsci.edu
Asymmetry has never been so pleasing! Hubble’s near-infrared and visible-light view shows jostled dark brown dust lanes and a core knocked off center. Why? Galaxy M96 is part of a group of galaxies in a gravitational “tug of war.”

Credit: ESA/Hubble, NASA, and the LEGUS Team. 🔭 🧪
A spiral galaxy takes up almost the entire frame, from bottom left to top right. The circular-shaped galaxy is not seen perfectly face-on, but is slightly tilted. The galaxy has a bright light yellow central core that is surrounded by tightly wound spiral arms that are oriented counter clockwise. Beginning at the core and going to the right and then to the top are prominent, dark brown dust lanes. The other region forms an arc toward the bottom left, starting near the core at around 9 o’clock. The outer edges of the galaxy are where there are brighter blue areas filled with clusters of stars. Pink star clusters are found throughout, are most obvious toward the edges, and appear more clustered toward the middle-right edge and toward the bottom left corner. The background of space is black.
March 22, 2024 at 2:55 PM
Reposted by Wenfei Xian (冼文飞)
biorxiv-bioinfo.bsky.social
Permutation analysis prior to variable selection greatly enhances robustness of OPLS analysis in small cohorts https://www.biorxiv.org/content/10.1101/2024.03.18.585475v1
Permutation analysis prior to variable selection greatly enhances robustness of OPLS analysis in small cohorts https://www.biorxiv.org/content/10.1101/2024.03.18.585475v1
The R-workflow roplspvs (R orthogonal projections of latent structures with permutation over variabl
www.biorxiv.org
March 20, 2024 at 6:48 PM
Reposted by Wenfei Xian (冼文飞)
georgeimatsumoto.bsky.social
reposting to 🧪 cause it's a very cool paper
March 16, 2024 at 3:53 PM
Reposted by Wenfei Xian (冼文飞)
biorxiv-bioinfo.bsky.social
IDRWalker: A Random Walk based Modeling Tool for Disordered Regions in Proteins https://www.biorxiv.org/content/10.1101/2024.03.17.585378v1
IDRWalker: A Random Walk based Modeling Tool for Disordered Regions in Proteins https://www.biorxiv.org/content/10.1101/2024.03.17.585378v1
Motivation: With the advancement of structural biology techniques, the elucidation of increasingly l
www.biorxiv.org
March 19, 2024 at 2:46 AM
Reposted by Wenfei Xian (冼文飞)
biorxiv-evobio.bsky.social
Estimation of spatial demographic maps from polymorphism data using a neural network https://www.biorxiv.org/content/10.1101/2024.03.15.585300v1
Estimation of spatial demographic maps from polymorphism data using a neural network https://www.biorxiv.org/content/10.1101/2024.03.15.585300v1
A fundamental goal in population genetics is to understand how variation is arrayed over natural lan
www.biorxiv.org
March 18, 2024 at 5:32 AM
Reposted by Wenfei Xian (冼文飞)
zbao.bsky.social
T2T with ONT-only 🏃🏻🍅🌽
March 17, 2024 at 5:21 PM
Reposted by Wenfei Xian (冼文飞)
biorxiv-bioinfo.bsky.social
Characterising tandem repeat complexities across long-read sequencing platforms with TREAT https://www.biorxiv.org/content/10.1101/2024.03.15.585288v1
Characterising tandem repeat complexities across long-read sequencing platforms with TREAT https://www.biorxiv.org/content/10.1101/2024.03.15.585288v1
Tandem repeats (TR) play important roles in genomic variation and disease risk in humans. Long-read
www.biorxiv.org
March 17, 2024 at 5:47 PM
Reposted by Wenfei Xian (冼文飞)
plantevolution.bsky.social
German-Spanish-Argentinean collaboration on haplotype-resolved Malbec 🍇🍷genome. Trio-binning used short reads from the parental varietals Prunelard and Magdeleine Noire des Charentes, which are both almost extinct

academic.oup.com/hr/advance-a...
March 16, 2024 at 11:58 AM
Reposted by Wenfei Xian (冼文飞)
biorxiv-evobio.bsky.social
Global climate change effect on Asian Mus musculus; Implication from last glacial maximum to the end of the 21st century https://www.biorxiv.org/content/10.1101/2024.03.14.584992v1
Global climate change effect on Asian Mus musculus; Implication from last glacial maximum to the end of the 21st century https://www.biorxiv.org/content/10.1101/2024.03.14.584992v1
Global climate change poses unprecedented challenges to biodiversity, prompting urgent investigation
www.biorxiv.org
March 16, 2024 at 2:32 PM
Reposted by Wenfei Xian (冼文飞)
biorxiv-evobio.bsky.social
FST and genetic diversity in an island model with background selection https://www.biorxiv.org/content/10.1101/2024.03.15.585154v1
FST and genetic diversity in an island model with background selection https://www.biorxiv.org/content/10.1101/2024.03.15.585154v1
Background selection, by which selection on deleterious alleles reduces diversity at linked neutral
www.biorxiv.org
March 16, 2024 at 2:32 PM
Reposted by Wenfei Xian (冼文飞)
biorxiv-evobio.bsky.social
Genome streamlining: effect of mutation rate and population size on genome size reduction https://www.biorxiv.org/content/10.1101/2024.03.14.584996v1
Genome streamlining: effect of mutation rate and population size on genome size reduction https://www.biorxiv.org/content/10.1101/2024.03.14.584996v1
Genome streamlining, i.e. genome size reduction, is observed in bacteria with very different life tr
www.biorxiv.org
March 15, 2024 at 8:33 AM
Reposted by Wenfei Xian (冼文飞)
stsci.edu
The #Hubble images used in this animated science visualization present a full rotation of #Jupiter. It's not a real-time movie, but snapshots of the planet, taken in January, have been photo-mapped onto a sphere, and the model is then rotated in animation. 🔭 🧪
Jupiter Rotation using the Hubble Space Telescope - 2024
The Hubble Space Telescope images used in this animated science visualization present a full rotation of the giant planet Jupiter. This is not a real-time mo...
youtu.be
March 14, 2024 at 4:28 PM