#phenotypic — Public Fediverse posts

Alright everyone, with a slight delay, here is my first paper as first author ! Might also be the last one lol.
Thanks a lot to everyone involved, and especially to Jochen who supervised this work. 🫶

#wheat #historical #phenotypic #data from #european #genebanks as an important resource for #research and #breeding

https://doi.org/10.1038/s41597-026-06908-x

New publication: #Hypoxia induces #phenotypic and #metabolic shifts in endophytic #Flavobacterium sp. 98.
https://doi.org/10.1093/ismejo/wraf269

How does #phenotypic #diversity relate to #genomic #evolution over #geological time?
In this #openaccess research article, Yang et al. find that species diversification (SD) in the Fagales (which includes oaks, chestnuts, and walnuts) appears decoupled from both, highlighting the multidimensional nature of SD evolution.

⌛️ https://doi.org/10.1111/jipb.70011

Wiley Plant Science
#JIPB #botany

#Genomic and #phenotypic characterization of an #Oropouche virus #strain implicated in the 2023-24 large-scale #outbreak in #Brazil http://biorxiv.org/cgi/content/short/2024.08.02.606252v1?rss=1

Our data shows that OROV can readily infect and replicate in non-human #primate #cells, supporting the role of non-human primates as important #reservoirs. Phylogenetic data supports a direct introduction of the same lineages causing the 2022-24 outbreak in Brazil from the #Amazonas state, the epicenter of the epidemics in Brazil.

#Genotypic & #phenotypic susceptibility of emerging avian #influenza A viruses to
#NAIs & cap-dependent endonuclease #inhibitors, Antiviral Res.: https://www.sciencedirect.com/science/article/pii/S0166354224001682?via%3Dihub

Frequencies of markers of resistance to antivirals were low among >20,000 avian influenza A viruses studied. #H5Nx, #H7Nx, & #H9N2 viruses were susceptible to sub-nanomolar concentrations of antivirals. NA-I222M, but not NA-S246N or NA-I222V, in H5N1 confers reduced inhibition by #oseltamivir.

Molecular Markers and Mechanisms of Influenza A Virus Cross-Species Transmission and New Host Adaptation, Viruses: https://www.mdpi.com/1999-4915/16/6/883

We discuss the #genetic and #phenotypic #traits associated with the #airborne #transmission of influenza A viruses in order to provide theoretical #guidance for the #surveillance of new strains with #pandemic potential and the prevention of pandemics.

Widespread #inversions shape the #genetic and #phenotypic #diversity in #rice.

#agriculture #genomics

https://phys.org/news/2024-03-widespread-inversions-genetic-phenotypic-diversity.html

"Phenotypic adaptation to #temperature in the #mosquito #vector, Aedes aegypti" https://onlinelibrary.wiley.com/doi/10.1111/gcb.17041

"... We identified significant #phenotypic variation in thermal tolerance between populations ... Moreover, these differences in thermal tolerance translated to shifts in the thermal performance curves for multiple life-history traits, leading to differences in overall fitness ..."

#Dengue #AedesAegypti

» He tackled #complexProblems such as:
the evolution of #phenotypic plasticity,
the role of evolution in modulating interspecific interactions & extinction,
and the #evolutionary dimensions of #geneticDrive
..
His well-crafted papers are models of rigour and have true staying power
..
general theory of the interplay between demographic & genetic constraints in #evolution
..
formalize the #geographic #MosaicTheory of #coevolution «

#RIP

Richard S. Gomulkiewicz
1962–2023

https://www.nature.com/articles/s41559-023-02136-3

Very nice overview by @jfmclaughlin92 et al of the complexity of concepts of "sex" in animals, at both #genetic and #phenotypic levels. #EvolutionaryBiology #SexChromosomes #ecoevo #zoology
https://ecoevo.social/@jfmclaughlin92/109779136788347129

The speed of environmental change is very challenging for wild #organisms. When exposed to a new #environment individual #plants and #animals can potentially adjust their biology to better cope with new pressures they are exposed to - this is known as #phenotypic #plasticity.
#EarthScience #Environmental #Biology #sflorg
https://www.sflorg.com/2023/01/en01282301.html

Now ahead of print! Hierarchical Variation in #Phenotypic Flexibility across Timescales and Associated #Survival Selection Shape the Dynamics of Partial Seasonal #Migration by Acker et al. https://www.journals.uchicago.edu/doi/10.1086/722484

What #genetic changes are responsible for the #evolution of #phenotypic traits? This question is not always easy to answer. A newly developed method now makes the search much easier.
#EarthScience #sflorg
https://www.sflorg.com/2023/01/en01062301.html

👀 #Preprint @strucbio
#AlphaFold2 can predict #structural and #phenotypic effects of #single #mutations https://www.biorxiv.org/content/10.1101/2022.04.14.488301v2

Here is another highly valuable #openaccess resource combining cellular gene expression and morphological profile data. Marzieh Haghighi and colleagues at the Broad Institute measured roughly 1,000 features for each of the two data types, across more than 28,000 chemical and genetic perturbations.

Article in Nature Methods: https://www.nature.com/articles/s41592-022-01667-0

Data on #github: https://github.com/carpenterlab/2021_Haghighi_NatureMethods

#geneexpression #transcriptomics #phenotypic #multimodal #datascience #artificialintelligence

Rosie Gillespie had previously shown that there have been instances of #repeated #phenotypic evolution (sensu #parallel / #convergent evol).

Using 76 new #genomes, we confirmed this using nuclear (left) and mitochondrial (right) data (notice labeling).

@traverhart I bookmarked this earlier for later reading, but wow, this is a great piece of work combining #crisprcas9 screening and #microscopy / #phenotypic analysis.

Thanks for sharing.

Since I've not done an #introduction yet, here goes:
I'm a #bioinformatics research software engineer. I love developing open source software both at work and in my spare time. My work covers areas like #phenotypic data collection, plant genetic resources databases and #visualisations.
My personal projects evolve around #weather data and #photo library software.
Find all my code on GitHub at https://github.com/sebastian-raubach

Feel free to follow me for toots around these topics and random #dog photos 🐕

High #phenotypic # plasticity at old age: Large old #trees increase growth under shifting #climatic constraints: Aligning tree longevity and individual growth dynamics in primary mountain #spruce #forests: https://onlinelibrary.wiley.com/doi/full/10.1111/gcb.16461?saml_referrer