AIMC Topic: Arabidopsis

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CDCA7 facilitates MET1-mediated CG DNA methylation maintenance in centromeric heterochromatin via linker histone H1.

Proceedings of the National Academy of Sciences of the United States of America
DNA methylation is a conserved epigenetic modification essential for maintaining genome stability. However, how methyltransferases maintain CG methylation within compact chromatin, including centromeres, remains unclear. In humans, CDCA7 is necessary...

Impact of U2-type introns on splice site prediction in A. thaliana species using deep learning.

BMC bioinformatics
BACKGROUND: Splice site prediction in plant genomes poses substantial challenges that can be addressed using deep learning models. U2-type introns are especially useful for such studies given their ubiquity in plant genomes and the availability of ri...

Meltome Atlas of Arabidopsis thaliana proteome: a melting temperature-based identification of heat and cold resistant proteins using in-silico approach.

BMC genomics
BACKGROUND: Plants are always exposed to a variety of stressful environments, including heat and drought stress, which severely impact the growth, development, and productivity of the plants. To overcome such challenges, plants have evolved diverse a...

Advanced phenotyping features utilizing deep learning techniques for automated analysis of stomatal guard cell orientation.

Scientific reports
Stomata are vital for controlling gas exchange and water vapor release, which significantly affect photosynthesis and transpiration. Characterizing stomatal traits such as size, density, and distribution is essential for adaptation to the environment...

Structure-guided secretome analysis of gall-forming microbes offers insights into effector diversity and evolution.

eLife
Phytopathogens secrete effector molecules to manipulate host immunity and metabolism. Recent advances in structural genomics have identified fungal effector families whose members adopt similar folds despite sequence divergence, highlighting their im...

Combined effect of salt stress and high light in plants: from basic statistical approach to machine learning methods.

BMC plant biology
Infrared thermal imaging offers a rapid and sensitive approach to assessing temperature changes in plants caused by salt stress, even in the early stages of exposure. Given the increasing prevalence of salt contamination in the environment, it is ess...

Machine learning models highlight environmental and genetic factors associated with the Arabidopsis circadian clock.

Nature communications
The circadian clock of plants contributes to their survival and fitness. However, understanding clock function at the transcriptome level and its response to the environment requires assaying across high resolution time-course experiments. Generating...

Consensus structure prediction of A. thaliana's MCTP4 structure using prediction tools and coarse grained simulations of transmembrane domain dynamics.

PloS one
Multiple C2 Domains and Transmembrane region Proteins (MCTPs) in plants have been identified as important functional and structural components of plasmodesmata cytoplasmic bridges, which are vital for cell-cell communication. MCTPs are endoplasmic re...

A generalized platform for artificial intelligence-powered autonomous enzyme engineering.

Nature communications
Proteins are the molecular machines of life with numerous applications in energy, health, and sustainability. However, engineering proteins with desired functions for practical applications remains slow, expensive, and specialist-dependent. Here we r...

The Highly Conserved Cys95 Residue of Fructose-1,6-Bisphosphatase 1 Mediates the pH-Driven Structure and Activity of the Enzyme and Photosynthesis.

Plant, cell & environment
In Arabidopsis, exposure to microbial volatile compounds promotes thiol reduction of the Cys95 residue of the photosynthetic enzyme fructose-1,6-bisphosphatase (cFBP1). Although highly conserved in plants, the Cys95 function still remains unknown. We...