K. Mechtler

Challenging the Astral mass analyzer - up to 5300 proteins per single-cell at unseen quantitative accuracy to study cellular heterogeneity.

This paper introduces a high-throughput single-cell proteomics workflow achieving 5300 protein groups per cell with high accuracy, enabling the study of cellular heterogeneity and lineage differentiation.

A method for deep and quantitative protein profiling of urine sediment, soluble and exosome fractions for biomarker research

This paper introduces a method for deep quantitative proteomics profiling of urine sediment, soluble, and exosome fractions to identify potential biomarkers for kidney disease.

A high-sensitivity low-nanoflow LC-MS configuration for high-throughput sample-limited proteomics

This paper introduces a high-sensitivity LC-MS setup for sample-limited proteomics, achieving 100 runs/day with 70% MS utilization and identifying ~3,000 protein groups from 250 pg of HeLa protein digest.

Robust and easy-to-use one pot workflow for label free single cell proteomics

This paper introduces a one-pot workflow for label-free single-cell proteomics, achieving high sensitivity and reproducibility with a dynamic range of four orders of magnitude.

Wide Window Acquisition and AI-based data analysis to reach deep proteome coverage for a wide sample range, including single cell proteomic inputs

The paper introduces a workflow combining micro pillar array columns, wide window acquisition, and AI-based search engine to enhance proteome coverage and throughput, particularly for single-cell samples.

Deep proteome profiling with reduced carry over using superficially porous microfabricated nanoLC columns

This paper evaluates prototype nanoLC columns for improved proteome profiling, finding increased protein group and peptide identification with reduced carry over and methionine oxidation.

A molecular network of conserved factors keeps ribosomes dormant in the egg

The paper identifies conserved factors that maintain ribosome dormancy in zebrafish and Xenopus eggs and embryos, transitioning to an active state during early development.

Quantitative accuracy and precision in multiplexed single-cell proteomics.

This study evaluates the impact of carrier spikes on quantitative accuracy in multiplexed single-cell proteomics and proposes optimized experimental designs.

An automated workflow for multiplexed single-cell proteomics sample preparation at unprecedented sensitivity.

This paper introduces an automated workflow for single-cell proteomics with high sensitivity and throughput, demonstrating its ability to distinguish cell types and reveal biological insights.

Bacterial-type plant ferroxidases tune local phosphate sensing in root development

The paper shows that bacterial-type ferroxidases in Arabidopsis thaliana modulate phosphate sensing in roots by regulating iron homeostasis and growth under phosphate limitation.

Differentially accessible Cdc4 phospho-degrons regulate Ctf19CCAN kinetochore subunit stability in mitosis

The paper shows that phosphorylation of Cdc4 phospho-degrons on Ame1CENP-U regulates its stability during mitosis by targeting it for degradation, with the Mtw1 complex protecting it from degradation.

Comparative proteome signatures of trace samples by multiplexed Data-Independent Acquisition

The paper develops a method to quantitatively compare proteome signatures from ultra-low input samples using DIA-TMT multiplexing and a novel analysis pipeline.

Ultra-sensitive nanoLC-MS of sub nanogram protein samples using second generation micro pillar array LC technology with Orbitrap Exploris 480 and FAIMS PRO

This paper benchmarks ultra-sensitive proteomics methods using micro pillar array LC and FAIMS PRO, achieving detection of 1486 protein groups from 250 pg of HeLa tryptic digest.

A cross-kingdom conserved ER-phagy receptor maintains endoplasmic reticulum homeostasis during stress

The paper identifies C53 as a conserved ER-phagy receptor that links autophagy with ribosome-associated quality control during ER stress in plants and mammals.

The linear ubiquitin chain assembly complex generates heterotypic ubiquitin chains

This study shows LUBAC generates heterotypic ubiquitin chains with linear and oxyester-linked branches through coordinated action of HOIP and HOIL-1L.

PHF3 regulates neuronal gene expression through the new Pol II CTD reader domain SPOC

This study identifies PHF3 as a CTD-binding factor that regulates neuronal gene expression by inhibiting Pol II elongation and mRNA stability.

Fast and highly efficient affinity enrichment of Azide-A-DSBSO cross-linked peptides.

The paper introduces a fast and efficient method to enrich azide-tagged cross-linked peptides, significantly increasing detectable cross-links and sensitivity.

ESCO1 and CTCF enable formation of long chromatin loops by protecting cohesinSTAG1 from WAPL

The paper shows that ESCO1 and CTCF protect cohesinSTAG1 from WAPL, enabling long chromatin loops that persist during G1-phase.

Autophagy mediates temporary reprogramming and dedifferentiation in plant somatic cells

This study shows autophagy is essential for temporary reprogramming and dedifferentiation in plant somatic cells, enabling adaptation to environmental changes and cellular reprogramming.

Site-specific ubiquitination of the E3 ligase HOIP regulates cell death and immune signaling

This study identifies that site-specific ubiquitination of HOIP at K784 regulates TNF-induced inflammatory signaling and cell fate by modulating TNFR complex formation and LUBAC activity.

Improved Sensitivity in Low-Input Proteomics using Micro-Pillar Array-based Chromatography

The paper benchmarks a micro-pillar array column against a conventional nano-flow HPLC column, showing improved sensitivity and peptide/protein identification in low-input proteomics.

Absolute quantification of cohesin, CTCF and their regulators in human cells

The paper measures absolute copy numbers and dynamics of cohesin, CTCF, and related proteins in human cells, revealing that some genomic enrichment sites are unoccupied in single cells.

Optimized fragmentation improves the identification of peptides cross-linked using MS-cleavable reagents

The paper optimizes fragmentation strategies for improved identification of DSSO-based cross-links using HCD on mass spectrometers.

N-terminal β-strand underpins biochemical specialization of an ATG8 isoform

The paper identifies the N-terminal β-strand and a single amino acid polymorphism as key determinants of binding specificity for the ATG8 isoform in potato, shaping interactions with PexRD54 and other plant proteins.

MTHFD1 is a genetic interactor of BRD4 and links folate metabolism to transcriptional regulation

This study identifies MTHFD1 as a genetic and physical interactor of BRD4, linking folate metabolism to transcriptional regulation and showing synergistic effects on cancer cell viability.

Cross-linking/Mass Spectrometry: A Community-Wide, Comparative Study Towards Establishing Best Practice Guidelines

This paper summarizes current XL-MS practices, compares strategies, and proposes common protocols to establish best practice guidelines for accurate and reproducible results.