Biology subjects

Harris, R. C.

Publications and source records attributed to Harris, R. C..

5 recordsLinked to original sources

bioRxiv2023

Electron transport inhibition increases cellular dependence on purine transport and salvage

Cancer cells reprogram their metabolism to support cell growth and proliferation in harsh environments. While many studies have documented the importance of mitochondrial oxidative phosphorylation (OXPHOS) in tumor growth, some cancer cells experience conditions of reduced OXPHOS in vivo and induce alternative metabolic pathways to compensate. To assess how human cells respond to mitochondrial dysfunction, we performed metabolomics in fibroblasts and plasma from patients with inborn errors of mitochondrial metabolism, and in cancer cells subjected to inhibition of the electron transport chain (ETC). All these analyses revealed extensive perturbations in purine-related metabolites; in non-small cell lung cancer (NSCLC) cells, ETC blockade led to purine metabolite accumulation arising from a reduced cytosolic NAD+/NADH ratio (NADH reductive stress). Stable isotope tracing demonstrated that ETC deficiency suppressed de novo purine nucleotide synthesis while enhancing purine salvage. Analysis of NSCLC patients infused with [U-13C]glucose revealed that tumors with markers of low oxidative mitochondrial metabolism exhibited high expression of the purine salvage enzyme HPRT1 and abundant levels of the HPRT1 product inosine monophosphate (IMP). ETC blockade also induced production of ribose-5 phosphate (R5P) by the pentose phosphate pathway (PPP) and import of purine nucleobases. Blocking either HPRT1 or nucleoside transporters sensitized cancer cells to ETC inhibition, and overexpressing nucleoside transporters was sufficient to drive growth of NSCLC xenografts. Collectively, this study mechanistically delineates how cells compensate for suppressed purine metabolism in response to ETC blockade, and uncovers a new metabolic vulnerability in tumors experiencing NADH excess.

biochemistry↗

bioRxiv2022

Kidney collecting duct cells make vasopressin in response to NaCl induced hypertonicity

Vasopressin has traditionally been thought to be produced by the neurohypophyseal system and then released into the circulation where it regulates water homeostasis. The syndrome of inappropriate secretion of anti-diuretic hormone (vasopressin) raised the question if vasopressin could be produced outside of the brain and whether the kidney could be a source of vasopressin. We found that mouse and human kidneys expressed vasopressin mRNA. Using an antibody that detects the pre-pro-vasopressin, we found that immunoreactive pre-pro-vasopressin protein is found in mouse and human kidneys. Moreover, we found that murine collecting duct cells make biologically active vasopressin which increases in response to NaCl mediated hypertonicity, and that water restriction increases the abundance of kidney-derived vasopressin mRNA and protein expression in mouse kidneys. Thus, we provide evidence of biologically active production of kidney-derived vasopressin in kidney tubular epithelial cells.

physiology↗

bioRxiv2022

A multiscale atlas of the molecular and cellular architecture of the human kidney

Tissue atlases provide foundational knowledge on the cellular organization and molecular distributions across molecular classes and spatial scales. Here, we construct a comprehensive spatio-molecular lipid atlas of the human kidney from 29 donor tissues using integrated multimodal molecular imaging. Our approach leverages high spatial resolution matrix-assisted laser desorption/ionization (MALDI) imaging mass spectrometry (IMS) for untargeted lipid mapping, stained microscopy for histopathological assessment, and tissue segmentation using autofluorescence microscopy. With a combination of unsupervised, supervised, and interpretive machine learning, the atlas provides multivariate lipid profiles of specific multicellular functional tissue units (FTUs) of the nephron, including the glomerulus, proximal tubules, thick ascending limb, distal tubules, and collecting ducts. In total, the atlas consists of tens of thousands of FTUs and millions of mass spectrometry measurements. Detailed patient, clinical, and histopathologic information allowed molecular data to be mined based on these features. As examples, we highlight the discovery of how lipid profiles are altered with sex and differences in body mass index.

biochemistry↗

bioRxiv2021

Autofluorescence microscopy as a label-free tool for renal histology and glomerular segmentation

Automated spatial segmentation models can enrich spatio-molecular omics analyses by providing a link to relevant biological structures. We developed segmentation models that use label-free autofluorescence (AF) microscopy to recognize multicellular functional tissue units (FTUs) (glomerulus, proximal tubule, descending thin limb, ascending thick limb, distal tubule, and collecting duct) and gross morphological structures (cortex, outer medulla, and inner medulla) in the human kidney. Annotations were curated using highly specific multiplex immunofluorescence and transferred to co-registered AF for model training. All FTUs (except the descending thin limb) and gross kidney morphology were segmented with high accuracy: >0.85 F1-score, and Dice-Sorensen coefficients >0.80, respectively. This workflow allowed lipids, profiled by imaging mass spectrometry, to be quantitatively associated with segmented FTUs. The segmentation masks were also used to acquire spatial transcriptomics data from collecting ducts. Consistent with previous literature, we demonstrated differing transcript expression of collecting ducts in the inner and outer medulla.

bioinformatics↗

bioRxiv2021

Skeletal Muscle Histidine Containing Dipeptide Contents are Increased in Freshwater Turtles (Chrysemys picta bellii) with Cold-Acclimation

Freshwater turtles found in higher latitudes can experience extreme challenges to acid-base homeostasis while overwintering, due to a combination of cold temperatures along with the potential for environmental hypoxia. Histidine containing dipeptides (HCDs; carnosine, anserine and balenine) may facilitate pH regulation in response to these challenges, through their role as pH buffers. We measured the HCDs content of three tissues (liver, cardiac muscle and skeletal muscle) from the anoxia-tolerant painted turtle (Chrysemys picta bellii) acclimated to either 3 or 20{degrees}C. HCDs were detected in all tissues, with the highest content shown in the skeletal muscle. Turtles acclimated to 3{degrees}C had more HCD in their skeletal muscle than those acclimated to 20{degrees}C (carnosine = 20.8{+/-}4.5 vs 12.5{+/-}5.9 mmol{middle dot}kg DM-1; ES = 1.59 (95%CI: 0.16 - 3.00), P = 0.013). The higher HCD content observed in the skeletal muscle of the cold-acclimated turtles suggests a role in acid-base regulation in response to physiological challenges associated with living in the cold, with the increase possibly related to the temperature sensitivity of carnosines dissociation constant and buffering power of the skeletal muscle during anoxic submergence. HighlightsO_LIpH regulation is a major challenge for overwintering freshwater turtles. C_LIO_LIHistidine containing dipeptides are important intracellular buffers. C_LIO_LITurtles acclimated to 3{degrees}C had higher HCD content than those at 20{degrees}C. C_LIO_LIHCDs may be important pH regulators in cold-acclimated turtles. C_LI

physiology↗