Uhrig Lab

Uhrig Lab

@uhriglab.bsky.social

Proteomics, Functional Genomics, PTMs, Plant Cell Signalling. 🌱 https://www.uhriglab.com/

797 followers418 following57 posts

Uhrig Lab
@uhriglab.bsky.social

New preprint examining circadian control of the diel plant proteome. Collaboration between @mehta-lab.com @ezer-lab, @bar-plantbio.bsky.social and @uhriglab.bsky.social www.biorxiv.org/content/10.6... -> WT + 6 clock mutants -> 2h sampling -> Paired RNAseq analysis -> ePlant data visualization

biorxiv.orgThe plant circadian clock exerts stronger control over the diel proteome than the transcriptomeThe plant circadian clock is a genetic circuit composed of multiple mutually-regulating transcription factors that together synchronize internal biological rhythms to the ~24-hour period of planetary ...

Uhrig Lab reposted

Russell Dinnage
@rdinnager.bsky.social

Replying to @rdinnager.bsky.social

I am also actively recruiting graduate student for my new Assistant Professor role starting in July at the University of Alberta. If you will be at #Evol2025 and are looking for opportunities to study at the intersection of AI/ML and biology (especially evolution), let's talk in Athens!

Uhrig Lab reposted

Tatsuya Nobori
@tatsuyanobori.bsky.social

Excited to share my new Tansley Review @newphyt.bsky.social on emerging single-cell and spatial omics technologies, many of which are just beginning to be applied in plant biology! Big opportunities lie ahead for the field. [1/n]  nph.onlinelibrary.wiley.com/doi/10.1111/...

nph.onlinelibrary.wiley.comExploring the untapped potential of single‐cell and spatial omics in plant biologyAdvances in single-cell and spatial omics technologies have revolutionised biology by revealing the diverse molecular states of individual cells and their spatial organization within tissues. The fie...
Uhrig Lab
@uhriglab.bsky.social

And #inppo2025 has ended. What a wonderful meeting! Thanks to all who joined to share their wonderful plant proteomic research and to our sponsors for continuing to support Plant Proteomics! Stay tuned for more details on INPPO 2027 in Lisbon, Portugal!

Uhrig Lab
@uhriglab.bsky.social

The opportunities of AI in the plant sciences is vast. See how the future is bright with how AI can impact plant proteomics in a Trends in Plant Science Opinion with @uhriglab.bsky.social and Dr. Jennifer Geddes-McAlister www.cell.com/trends/plant...

cell.comThe plant proteome delivers from discovery to innovationThe field of mass spectrometry (MS)-based proteomics is rapidly advancing with technological and computational improvements, including leveraging the power of artificial intelligence (AI) to drive inn...

Uhrig Lab reposted

Maddy Seale
@maddyseale.bsky.social

2 papers in @science.org this week uncover wheat tandem kinase function. Working in parallel, the authors of each paper show that two different tandem kinases converge to activate the same NLR! www.science.org/doi/10.1126/... www.science.org/doi/10.1126/... #PlantScience

science.orgA wheat tandem kinase activates an NLR to trigger immunityThe role of nucleotide-binding leucine-rich repeat (NLR) receptors in plant immunity is well studied, but the function of a class of tandem kinases (TKs) that confer disease resistance in wheat and ba...

Uhrig Lab reposted

Nicholas Provart
@bar-plantbio.bsky.social

Want to travel to Portland, Maine and present at the Gordon Research Conference on Single-Cell Approaches in Plant Biology? Short talk submissions are open until April 30, 2025. All other applications for this conference are due July 13th. To apply: bit.ly/ApplyforGRC (submit as a poster abstract)

bit.ly2025 Single-Cell Approaches in Plant Biology Conference GRCThe 2025 Gordon Research Conference on Single-Cell Approaches in Plant Biology will be held in Portland, Maine. Apply today to reserve your spot.
Uhrig Lab
@uhriglab.bsky.social

!! INPPO 2025 Early Bird Registration Extended !! Due to request, we have extended the early bird deadline to March 7th 2025. Check out www.inppo2025.org to register today! Multiple travel awards available for trainees & abstract selected talks available for everyone!

Uhrig Lab reposted

Christa Testerink
@christatesterink.bsky.social

And.... the story is now out in PNAS, greatly improved with new data since the pre-print, so check it out and find out how ABA plays an unexpected role in root responses to salinity. @pph-wur.bsky.social @w-u-r.bsky.social www.pnas.org/doi/10.1073/...

pnas.orgAbscisic acid signaling gates salt-induced responses of plant roots | PNASSoil salinity presents a dual challenge for plants, involving both osmotic and ionic stress. In response, plants deploy distinct yet interconnected...
Christa Testerink@christatesterink.bsky.social

This all started with a classic “hey, that’s funny” observation by Jasper early in his PhD, when he found that in response to salinity in Arabidopsis roots, a specific cluster of up-regulated genes showed an opposite response to Na+-containing salts compared to osmotic stress and …. ABA.

Uhrig Lab reposted

Vadim Demichev
@vadim-demichev.bsky.social

DIA-NN 2.0 is released! We consider it the biggest step forward in the history of DIA-NN. On modern LC-MS almost all identifications are now peptidoform-confident, with major improvements e.g. for phospho. Some other cool things too: github.com/vdemichev/Di...

github.comRelease DIA-NN 2.0 · vdemichev/DiaNNWe are excited to announce DIA-NN 2.0, the most significant milestone in the history of DIA-NN development. Key Breakthroughs Proteoform Confidence mode: DIA-NN 2.0 solves the long-standing chall...
Uhrig Lab
@uhriglab.bsky.social

Some really nice work by @anderton.bsky.social

Chris Anderton ⚜️@anderton.bsky.social

Single tissue untargeted multiomics? Yes, please! Our new paper is now online. @pnnl.bsky.social @bindesh1.bsky.social @imsis-americas.bsky.social pubs.acs.org/doi/10.1021/...

pubs.acs.orgUntargeted Spatial Metabolomics and Spatial Proteomics on the Same Tissue SectionAn increasing number of spatial multiomic workflows have recently been developed. Some of these approaches have leveraged initial mass spectrometry imaging (MSI)-based spatial metabolomics to inform the region of interest (ROI) selection for downstream spatial proteomics. However, these workflows have been limited by varied substrate requirements between modalities or have required analyzing serial sections (i.e., one section per modality). To mitigate these issues, we present a new multiomic workflow that uses desorption electrospray ionization (DESI)-MSI to identify representative spatial metabolite patterns on-tissue prior to spatial proteomic analyses on the same tissue section. This workflow is demonstrated here with a model mammalian tissue (coronal rat brain section) mounted on a poly(ethylene naphthalate)-membrane slide. Initial DESI-MSI resulted in 160 annotations (SwissLipids) within the METASPACE platform (≤20% false discovery rate). A segmentation map from the annotated ion images informed the downstream ROI selection for spatial proteomics characterization from the same sample. The unspecific substrate requirements and minimal sample disruption inherent to DESI-MSI allowed for an optimized, downstream spatial proteomics assay, resulting in 3888 ± 240 to 4717 ± 48 proteins being confidently directed per ROI (200 μm × 200 μm). Finally, we demonstrate the integration of multiomic information, where we found ceramide localization to be correlated with SMPD3 abundance (ceramide synthesis protein), and we also utilized protein abundance to resolve metabolite isomeric ambiguity. Overall, the integration of DESI-MSI into the multiomic workflow allows for complementary spatial- and molecular-level information to be achieved from optimized implementations of each MS assay inherent to the workflow itself.