Selected Publications
Uhrig Lab HQP (Bold & Italics)
2023
Scandola S, Mehta D, Castillo B, Boyce N and Uhrig RG. Systems-level proteomics and metabolomics reveals the diel molecular landscape
of diverse kale cultivars. Frontiers in Plant Science. Jun 26. doi: 10.3389/fpls.2023.1170448
Download
Scandola et al 2022 - Pre-Print. BioRxiv. doi: https://doi.org/10.1101/2022.04.09.487754
Download
Mehta D, Scandola S, Tan M, Kennedy C, Uhrig RG. Twilight length alters growth, flowering time, and clock function in Arabidopsis via LHY/CCA1. BioRxiv. Jun 09. doi: https://doi.org/10.1101/2023.06.09.544111.
Download
Sakeef N, Scandola S, Kennedy C, Lummer C, Chang J, Uhrig RG, Lin G. Machine learning classification of plant genotypes grown under different light conditions through the integration of multi-scale time-series data. CSBJ. Jun 03. doi: 10.1016/j.csbj.2023.05.005.
Download
Rodriguez Gallo MC, Li Q, Talasila M, Uhrig RG. Quantitative Time-Course Analysis of Osmotic and Salt Stress in Arabidopsis thaliana using Short Gradient Multi-CV FAIMSpro BoxCar DIA. BioRxiv Feb 22. doi: https://doi.org/10.1101/2023.02.22.529555.
Download
Kilburn R, Fedosejevs ET, Mehta D, Soleimani F, Ghahremani M, Monaghan J, Thelen JJ, Uhrig RG, Snedden WA, Plaxton WC. Substrate profiling of the Arabidopsis Ca2+-dependent protein kinase AtCPK4 and its Ricinus communis ortholog RcCDPK1. Plant Sci. Mar 15. doi: 10.1016/j.plantsci.2023.111675
Download
Boyd A, Luu I, Mehta D, Myers SP, Stewart CB, Shivakumar KR, Snihur KN, Alessi DS, Rodriguez Gallo MC, Veilleux H, Wiltse ME, Borch T, Uhrig RG, Blewett TA. Persisting Effects in Daphnia magna Following an Acute Exposure to Flowback and Produced Waters from the Montney Formation. Environ Sci Technol. Feb 01. doi: 10.1021/acs.est.2c07441.
Download
2022
Mehta D, Ahkami AH, Walley J, Xu SL, Uhrig RG. The incongruity of validating quantitative proteomics using western blots. Nature Plants. Dec 01. doi: 10.1038/s41477-022-01314-8.
Download
Rodriguez MC, Li Q, Mehta D, Uhrig RG. Genome-scale analysis of Arabidopsis splicing-related protein kinase families reveals roles in abiotic stress adaptation. BMC Plant Biol. Oct 22. doi: 10.1186/s12870-022-03870-9.
Download
Adhikary D, Mehta D, Uhrig RG, Rahman H and Kav NV. A Proteome-level investigation into Plasmodiophora brassicae resistance in Brassica napus canola. Frontiers in Plant Science. Mar 24. doi: 10.3389/fpls.2022.860393
Download
Mehta D, Scandola S and Uhrig RG. BoxCar and library-free data-independent acquisition substantially improve the depth, range, and completeness of label-free quantitative proteomics. Analytical Chemistry. Jan 3. doi: 10.1021/acs.analchem.1c03338
Download
Mehta et al 2020 - Pre-Print. BioRxiv. https://doi.org/10.1101/2020.11.07.372276
Download
Scandola S, Mehta D, Rodriguez M, Li Q and Uhrig RG. Multi-omic analysis of the Arabidopsis clock activator mutant rve 4 6 8 reveals connections to carbohydrate metabolism and proteasome regulation. Plant Physiology. 07 June. doi.org/10.1093/plphys/kiac269
Download
Scandola et al 2021 - Pre-Print. BioRxiv. https://doi.org/10.1101/2021.10.25.465654
Download
2021
Rodriguez MC*, Mehta D*, Tan M and Uhrig RG. Quantitative proteome and PTMome analysis of Arabidopsis thaliana root responses to persistent osmotic and salinity stress. Plant and Cell Physiology. Jul 27. https://doi.org/10.1093/pcp/pcab076
Download
Rodriguez et al 2020 - Pre-Print. BioRxiv. https://doi.org/10.1101/2020.12.28.424236
Download
** PCP Research Highlight June 2021 - "Don’t sweat it – multifaceted omics networks help plants cope with stress" **
Download
Schläpfer, P* Mehta D*, Ridderikhoff, C and Uhrig RG. DomainViz: intuitive visualization of consensus domain distributions across groups of proteins. Nucleic Acids Research. May 22. https://doi.org/10.1093/nar/gkab391
Download
Mehta D, Krahmer J and Uhrig RG. Closing the protein gap in plant chronobiology. The Plant Journal. Mar 30. https://doi.org/10.1111/tpj.15254
Download
2020
Uhrig RG, Eschevarria-Zomeno S,Schlapfer P, Grossmann J, Roschitzki B, Koerber N, Fiorani F, Gruissem W. Diurnal Dynamics of the Arabidopsis Rosette Proteome and Phosphoproteome. Plant Cell Environment. Dec 5. doi: 10.1111/pce.13969
Download
Uhrig et al 2020 - Pre-Print. BioRxiv. doi: 10.1101/2020.09.11.293779
Download
Mehta D, Ghahremani M, Perez-Fernandez M, Tan M, Schlapfer P, Plaxton WC, Uhrig RG. Phosphate and phosphite differentially impact the proteome and phosphoproteome of Arabidopsis suspension cell cultures. The Plant Journal. Nov 13. doi: 10.1111/tpj.15078
Download
Mehta et al 2020 - Pre-Print. BioRxiv. doi: 10.1101/2020.05.29.124040
Download
2019
Uhrig RG, Schläpfer P, Roschitzki B, Hirsch-Hoffmann M, Gruissem W. Diurnal changes in concerted plant protein phosphorylation and acetylation in Arabidopsis organs and seedlings. The Plant Journal. Mar 28. doi: 10.1111/tpj.14315.
Download
2018
Labandera AM, Uhrig RG, Colville K, Moorhead GB, Ng KKS. Structural basis for the preference of the Arabidopsis thaliana phosphatase RLPH2 for tyrosine-phosphorylated substrates. Science Signalling. 11(524). doi: 10.1126/scisignal.aan8804.
Download
2017
Hartl M, Füßl M, Boersema PJ, Jost JO, Kramer K, Bakirbas A, Sindlinger J, Plöchinger M, Leister D, Uhrig G, Moorhead GB, Cox J, Salvucci ME, Schwarzer D, Mann M, Finkemeier I. Lysine acetylome profiling uncovers novel histone deacetylase substrate proteins in Arabidopsis. Molecular Systems Biology. 13(10):949. doi: 10.15252/msb.20177819.
Download
Uhrig RG, Schlapfer P, Mehta D, Hirsch-Hoffmann M and Gruissem W. Genome-scale analysis of regulatory protein acetylation enzymes from photosynthetic eukaryotes. BMC Genomics. 2017. 18(1):514. doi: 10.1186/s12864-017-3894-0.
Download
Graf A*, Coman D*, Uhrig RG*, Walsh S, Flis A, Stitt M and Gruissem W. Parallel analysis of Arabidopsis circadian clock mutants reveals different scales of transcriptome and proteome regulation. Open Biology. 7(3). doi: 10.1098/rsob.160333.
Download
Uhrig RG, Labandera A-M, Tang L-Y, Sieben NA, Goudreault M, Yeung ECT, Gingras A-C, Samuel M and Moorhead GB. Activation of mitochondrial protein phosphatase SLP2 by MIA40 regulates seed germination. Plant Physiology. 173(2):956-969. doi: 10.1104/pp.16.01641.
Download
2023
Scandola S, Mehta D, Castillo B, Boyce N and Uhrig RG. Systems-level proteomics and metabolomics reveals the diel molecular landscape
of diverse kale cultivars. Frontiers in Plant Science. Jun 26. doi: 10.3389/fpls.2023.1170448
Download
Scandola et al 2022 - Pre-Print. BioRxiv. doi: https://doi.org/10.1101/2022.04.09.487754
Download
Mehta D, Scandola S, Tan M, Kennedy C, Uhrig RG. Twilight length alters growth, flowering time, and clock function in Arabidopsis via LHY/CCA1. BioRxiv. Jun 09. doi: https://doi.org/10.1101/2023.06.09.544111.
Download
Sakeef N, Scandola S, Kennedy C, Lummer C, Chang J, Uhrig RG, Lin G. Machine learning classification of plant genotypes grown under different light conditions through the integration of multi-scale time-series data. CSBJ. Jun 03. doi: 10.1016/j.csbj.2023.05.005.
Download
Rodriguez Gallo MC, Li Q, Talasila M, Uhrig RG. Quantitative Time-Course Analysis of Osmotic and Salt Stress in Arabidopsis thaliana using Short Gradient Multi-CV FAIMSpro BoxCar DIA. BioRxiv Feb 22. doi: https://doi.org/10.1101/2023.02.22.529555.
Download
Kilburn R, Fedosejevs ET, Mehta D, Soleimani F, Ghahremani M, Monaghan J, Thelen JJ, Uhrig RG, Snedden WA, Plaxton WC. Substrate profiling of the Arabidopsis Ca2+-dependent protein kinase AtCPK4 and its Ricinus communis ortholog RcCDPK1. Plant Sci. Mar 15. doi: 10.1016/j.plantsci.2023.111675
Download
Boyd A, Luu I, Mehta D, Myers SP, Stewart CB, Shivakumar KR, Snihur KN, Alessi DS, Rodriguez Gallo MC, Veilleux H, Wiltse ME, Borch T, Uhrig RG, Blewett TA. Persisting Effects in Daphnia magna Following an Acute Exposure to Flowback and Produced Waters from the Montney Formation. Environ Sci Technol. Feb 01. doi: 10.1021/acs.est.2c07441.
Download
2022
Mehta D, Ahkami AH, Walley J, Xu SL, Uhrig RG. The incongruity of validating quantitative proteomics using western blots. Nature Plants. Dec 01. doi: 10.1038/s41477-022-01314-8.
Download
Rodriguez MC, Li Q, Mehta D, Uhrig RG. Genome-scale analysis of Arabidopsis splicing-related protein kinase families reveals roles in abiotic stress adaptation. BMC Plant Biol. Oct 22. doi: 10.1186/s12870-022-03870-9.
Download
Adhikary D, Mehta D, Uhrig RG, Rahman H and Kav NV. A Proteome-level investigation into Plasmodiophora brassicae resistance in Brassica napus canola. Frontiers in Plant Science. Mar 24. doi: 10.3389/fpls.2022.860393
Download
Mehta D, Scandola S and Uhrig RG. BoxCar and library-free data-independent acquisition substantially improve the depth, range, and completeness of label-free quantitative proteomics. Analytical Chemistry. Jan 3. doi: 10.1021/acs.analchem.1c03338
Download
Mehta et al 2020 - Pre-Print. BioRxiv. https://doi.org/10.1101/2020.11.07.372276
Download
Scandola S, Mehta D, Rodriguez M, Li Q and Uhrig RG. Multi-omic analysis of the Arabidopsis clock activator mutant rve 4 6 8 reveals connections to carbohydrate metabolism and proteasome regulation. Plant Physiology. 07 June. doi.org/10.1093/plphys/kiac269
Download
Scandola et al 2021 - Pre-Print. BioRxiv. https://doi.org/10.1101/2021.10.25.465654
Download
2021
Rodriguez MC*, Mehta D*, Tan M and Uhrig RG. Quantitative proteome and PTMome analysis of Arabidopsis thaliana root responses to persistent osmotic and salinity stress. Plant and Cell Physiology. Jul 27. https://doi.org/10.1093/pcp/pcab076
Download
Rodriguez et al 2020 - Pre-Print. BioRxiv. https://doi.org/10.1101/2020.12.28.424236
Download
** PCP Research Highlight June 2021 - "Don’t sweat it – multifaceted omics networks help plants cope with stress" **
Download
Schläpfer, P* Mehta D*, Ridderikhoff, C and Uhrig RG. DomainViz: intuitive visualization of consensus domain distributions across groups of proteins. Nucleic Acids Research. May 22. https://doi.org/10.1093/nar/gkab391
Download
Mehta D, Krahmer J and Uhrig RG. Closing the protein gap in plant chronobiology. The Plant Journal. Mar 30. https://doi.org/10.1111/tpj.15254
Download
2020
Uhrig RG, Eschevarria-Zomeno S,Schlapfer P, Grossmann J, Roschitzki B, Koerber N, Fiorani F, Gruissem W. Diurnal Dynamics of the Arabidopsis Rosette Proteome and Phosphoproteome. Plant Cell Environment. Dec 5. doi: 10.1111/pce.13969
Download
Uhrig et al 2020 - Pre-Print. BioRxiv. doi: 10.1101/2020.09.11.293779
Download
Mehta D, Ghahremani M, Perez-Fernandez M, Tan M, Schlapfer P, Plaxton WC, Uhrig RG. Phosphate and phosphite differentially impact the proteome and phosphoproteome of Arabidopsis suspension cell cultures. The Plant Journal. Nov 13. doi: 10.1111/tpj.15078
Download
Mehta et al 2020 - Pre-Print. BioRxiv. doi: 10.1101/2020.05.29.124040
Download
2019
Uhrig RG, Schläpfer P, Roschitzki B, Hirsch-Hoffmann M, Gruissem W. Diurnal changes in concerted plant protein phosphorylation and acetylation in Arabidopsis organs and seedlings. The Plant Journal. Mar 28. doi: 10.1111/tpj.14315.
Download
2018
Labandera AM, Uhrig RG, Colville K, Moorhead GB, Ng KKS. Structural basis for the preference of the Arabidopsis thaliana phosphatase RLPH2 for tyrosine-phosphorylated substrates. Science Signalling. 11(524). doi: 10.1126/scisignal.aan8804.
Download
2017
Hartl M, Füßl M, Boersema PJ, Jost JO, Kramer K, Bakirbas A, Sindlinger J, Plöchinger M, Leister D, Uhrig G, Moorhead GB, Cox J, Salvucci ME, Schwarzer D, Mann M, Finkemeier I. Lysine acetylome profiling uncovers novel histone deacetylase substrate proteins in Arabidopsis. Molecular Systems Biology. 13(10):949. doi: 10.15252/msb.20177819.
Download
Uhrig RG, Schlapfer P, Mehta D, Hirsch-Hoffmann M and Gruissem W. Genome-scale analysis of regulatory protein acetylation enzymes from photosynthetic eukaryotes. BMC Genomics. 2017. 18(1):514. doi: 10.1186/s12864-017-3894-0.
Download
Graf A*, Coman D*, Uhrig RG*, Walsh S, Flis A, Stitt M and Gruissem W. Parallel analysis of Arabidopsis circadian clock mutants reveals different scales of transcriptome and proteome regulation. Open Biology. 7(3). doi: 10.1098/rsob.160333.
Download
Uhrig RG, Labandera A-M, Tang L-Y, Sieben NA, Goudreault M, Yeung ECT, Gingras A-C, Samuel M and Moorhead GB. Activation of mitochondrial protein phosphatase SLP2 by MIA40 regulates seed germination. Plant Physiology. 173(2):956-969. doi: 10.1104/pp.16.01641.
Download