Biology subjects

Yeh, C.-T.

Publications and source records attributed to Yeh, C.-T..

4 recordsLinked to original sources

bioRxiv2026

HSPB8 regulates CTP synthase filaments to couple nucleotide metabolism and autophagy in tumors

Metabolic adaptation and proteostasis are essential for tumor survival under nutrient stress, yet how these processes are mechanistically integrated remains unclear. Here, we identify CTP synthase (CTPS) filament dynamics as a regulatory nexus linking nucleotide metabolism to autophagic flux. Under glutamine deprivation--a hallmark of poorly vascularized solid tumors--CTPS undergoes polymerization into filamentous assemblies that exhibit reduced enzymatic activity. We demonstrate that filament formation is driven by intracellular asparagine availability and stabilized by the accumulation of misfolded proteins. Using APEX2-based proximity labeling and proteomics, we identify the small heat shock protein HSPB8 as a filament-associated regulator. HSPB8, acting within the chaperone-assisted selective autophagy (CASA) pathway, antagonizes CTPS polymerization by promoting clearance of misfolded proteins, thereby restoring soluble, catalytically active CTPS. Filament disassembly increases CTP production and enhances synthesis of autophagy-related phospholipids, including phosphatidylinositol and phosphatidylethanolamine, resulting in accelerated autophagic flux. Cells expressing filament-deficient CTPS mutants display elevated autophagosome formation and increased LC3-II accumulation upon lysosomal blockade, confirming enhanced flux. In vivo, disruption of CTPS filament assembly impairs xenograft tumor growth and is associated with excessive autophagy. Analysis of TCGA datasets further reveals that high CTPS and low HSPB8 expression correlate with poor patient survival across multiple cancers. Collectively, our findings establish CTPS filament dynamics as a proteostasis-sensitive metabolic switch that coordinates nucleotide biosynthesis with autophagy, revealing a previously unrecognized vulnerability in tumors adapting to nutrient limitation.

cell biology↗

bioRxiv2023

Can motional dynamics account for the cytotoxicity of beta amyloid oligomers?

The underlying biophysical principle governing the cytotoxicity of the oligomeric aggregates of {beta}-amyloid (A{beta}) peptides has long been an enigma. Here we show that the size of A{beta}40 oligomers can be actively controlled by incubating the peptides in reverse micelles. Our approach allowed for the first time a detailed comparison of the structures and dynamics of two A{beta}40 oligomers of different size, viz., 10 and 23 nm, by solid-state NMR. From the chemical shift data, we infer that the conformation of the residues from K16 to K28 are different between the 10-nm and 23-nm oligomers. We find that the 10-nm oligomers are more cytotoxic, and the molecular motions of their charged residues are more dynamic. Interestingly, the residue A21 exhibits an unusually high structural rigidity. Our data raise the interesting possibility that the cytotoxicity of A{beta}40 oligomers could also be correlated to the motional dynamics of the charged residues.

biophysics↗

bioRxiv2020

Automatic Traits Extraction and Fitting for Field High-throughput Phenotyping Systems

High-throughput phenotyping is a modern technology to measure plant traits efficiently and in large scale by imaging systems over the whole growth season. Those images provide rich data for statistical analysis of plant phenotypes. We propose a pipeline to extract and analyze the plant traits for field phenotyping systems. The proposed pipeline include the following main steps: plant segmentation from field images, automatic calculation of plant traits from the segmented images, and functional curve fitting for the extracted traits. To deal with the challenging problem of plant segmentation for field images, we propose a novel approach on image pixel classification by transform domain neural network models, which utilizes plant pixels from greenhouse images to train a segmentation model for field images. Our results show the proposed procedure is able to accurately extract plant heights and is more stable than results from Amazon Turks, who manually measure plant heights from original images.

plant biology↗

bioRxiv2017

Tunable Genotyping-By-Sequencing (tGBS(R)) Enables Reliable Genotyping of Heterozygous Loci

Most Genotyping-by-Sequencing (GBS) strategies suffer from high rates of missing data and high error rates, particularly at heterozygous sites. Tunable genotyping-by-sequencing (tGBS(R)), a novel genome reduction method, consists of the ligation of single-strand oligos to restriction enzyme fragments. DNA barcodes are added during PCR amplification; additional (selective) nucleotides included at the 3-end of the PCR primers result in more genome reduction as compared to conventional GBS methods. By adjusting the number of selective bases different numbers of genomic sites can be targeted for sequencing. Because this genome reduction strategy concentrates sequencing reads on fewer sites, SNP calls are based on more reads than conventional GBS, resulting in higher SNP calling accuracy (>97-99%) even for heterozygous sites and less missing data per marker. tGBS genotyping is expected to be particularly useful for genomic selection, which requires the ability to genotype populations of individuals that are heterozygous at many loci.

genomics↗