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13 results for “Cell wall biosynthesis”
The weaken-fill-repair model for cell budding: Linking cell wall biosynthesis with mechanics
<p>The interplay between cellular mechanics and other biochemical processes leading to the cell cycle is poorly understood. Here, we propose a quantitative model of the mechanism of cell budding, particularly for Saccharomyces cerevisiae, as a ''weaken-fill-repair'' process. This model links Newtonian mechanics over the cell wall with biochemical processes that change the mechanical properties of the wall. Our model shows that: (1) The oscillatory behavior in the size of the mother compartment during cell division, as observed experimentally, is an inevitable consequence of the budding mechanism; (2) The asymmetry of cell division is necessary for the daughter cell to maintain mechanical stiffness; (3) Although different aspects of a cell are strictly constrained and intricately interconnected, the budding process is governed by a single reduced parameter that, when at an appropriate value, can automatically achieve homeostasis. Our quantitative model of the evolution of cell walls and their impact on cell division could provide valuable insights into cell morphology from a system perspective. This knowledge could be instrumental in developing effective antimicrobial treatments against microorganisms with cell walls and even in building synthetic cells.</p>
The weaken-fill-repair model for cell budding: Linking cell wall biosynthesis with mechanics
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Data for "Coordination of bacterial cell wall and outer membrane biosynthesis"
<p>Raw data used in the paper "Coordination of bacterial cell wall and outer membrane biosynthesis" by Katherine R. Hummels, Samuel P. Berry, Zhaoqi Li, Atsushi Taguchi, Joseph K. Min, Suzanne Walker, Debora S. Marks, and Thomas G. Bernhardt. These data were collected with the aim of understanding how the lipopolysaccharide biosynthetic enzyme LpxC is regulated in diverse gram-negative bacteria, particularly Pseudomonas aeruginosa. The dataset contains the following tarred directories:</p> <p><em><strong>Experimental data</strong></em></p> <ul> <li>Microscopy (microscopy.tar.gz)</li> <li>LC-MS/MS (lc-ms_ms.tar.gz)</li> </ul> <p><strong><em>Covariation analysis</em></strong></p> <ul> <li>Multiple sequence alignments (alignments.tar.gz)</li> <li>AlphaFold structures (alphafold.tar.gz)</li> <li>EVcomplex models and couplings (evcomplex.tar.gz)</li> <li>Phylogenetic trees (trees.tar.gz)</li> </ul> <p>For more detailed methods and file descriptions, please see README.md. Associated code for analysis can be found at https://github.com/samberry19/evcomplex-interaction-scoring.</p>
Illumina miRNA profiles with anatomical study revealed involvement of miR397a in Citrus adaptation to long-term B-toxicity via modulating secondary cell wall biosynthesis
GEO Series GSE74434. Citrus sinensis; Citrus maxima. 4 samples. Type: Non-coding RNA profiling by high throughput sequencing.
An antibiotic that inhibits a late step in wall teichoic acid biosynthesis induces the cell wall stress stimulon in Staphylococcus aureus
GEO Series GSE34441. Staphylococcus aureus. 6 samples. Type: Expression profiling by array.
A natural mutation of the NST1 gene arrests secondary cell wall biosynthesis in the seed coat of hull-less pumpkins
GEO Series GSE205063. Cucurbita pepo. 18 samples. Type: Expression profiling by high throughput sequencing.
Iron deprivation affects aboveground cell wall biosynthesis in Populus and the role of PtrbHLH011 [RNA-seq]
GEO Series GSE265825. Populus tremula x Populus alba; Populus trichocarpa. 22 samples. Type: Expression profiling by high throughput sequencing.
Iron deprivation affects aboveground cell wall biosynthesis in Populus and the role of PtrbHLH011 [ChIP-seq]
GEO Series GSE265823. Populus tremula x Populus alba. 6 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
The transcriptional repressor TupA in Aspergillus niger is involved in controlling gene expression related to cell wall biosynthesis, development, and nitrogen source availability
GEO Series GSE50523. Aspergillus niger; Aspergillus niger CBS 513.88. 4 samples. Type: Expression profiling by array.
Class II KNOX and BELL TALE-class HD genes give insights into the evolution of secondary cell wall development and pectin biosynthesis during land plant evolution
GEO Series GSE242822. Marchantia polymorpha. 2 samples. Type: Expression profiling by high throughput sequencing.
Evaluation the effects of ectopic expression of TaF5H1 in Arabidopsis driven by its native promoter on the the cell wall biosynthesis and salt tolerance by RNA-seq
GEO Series GSE199116. Arabidopsis thaliana. 12 samples. Type: Expression profiling by high throughput sequencing.
The Rv2166c Transcriptional Regulator's On/Off Switch Modulates Mycobacteria Cell Wall Biosynthesis and Cell Division, Enhancing Environmental Stress Resistance
GEO Series GSE250112. Mycolicibacterium smegmatis MC2 155. 4 samples. Type: Expression profiling by high throughput sequencing.
Induction of secondary cell wall biosynthesis genes and their regulators by melatonin in Glycine max
GEO Series GSE234038. Glycine max. 27 samples. Type: Expression profiling by high throughput sequencing.
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
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DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.