AIMC Topic: Bacterial Proteins

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Identification of novel Xanthomonas euvesicatoria type III effector proteins by a machine-learning approach.

Molecular plant pathology
The Gram-negative bacterium Xanthomonas euvesicatoria (Xcv) is the causal agent of bacterial spot disease in pepper and tomato. Xcv pathogenicity depends on a type III secretion (T3S) system that delivers effector proteins into host cells to suppress...

Application of the multifactor dimensionality reduction method in evaluation of the roles of multiple genes/enzymes in multidrug-resistant acquisition in Pseudomonas aeruginosa strains.

Epidemiology and infection
Multidrug-resistant Pseudomonas aeruginosa (MDRPA) infections are major threats to healthcare-associated infection control and the intrinsic molecular mechanisms of MDRPA are also unclear. We examined 348 isolates of P. aeruginosa, including 188 MDRP...

Prediction and analysis of quorum sensing peptides based on sequence features.

PloS one
Quorum sensing peptides (QSPs) are the signaling molecules used by the Gram-positive bacteria in orchestrating cell-to-cell communication. In spite of their enormous importance in signaling process, their detailed bioinformatics analysis is lacking. ...

Understanding the stability landscape of LbCas12a by deep analysis of stabilizing mutations and mutation combinations.

Protein science : a publication of the Protein Society
Cas12a is one of the most widely used Cas nucleases for genome editing and in vitro diagnosis. A number of engineered Cas12a mutants have been identified with improved activity and stability. However, it remains largely unaddressed how these mutation...

Generative deep learning model assisted multi-objective optimization for wastewater nitrogen to protein conversion by photosynthetic bacteria.

Bioresource technology
For decades, the photosynthetic bacteria (PSB)-based nitrogen treatment and valorization from wastewater have been explored. However, balancing nitrogen removal performance and resource recovery potential in PSB has remained a key unresolved issue fo...

Genomic and machine learning approaches to predict antimicrobial resistance in .

Microbiology spectrum
UNLABELLED: is a multidrug-resistant pathogen, which poses a major challenge to clinical management due to its increasing resistance to common antibiotics, such as levofloxacin (LEV) and trimethoprim-sulfamethoxazole (SXT), and poor clinical respons...

Transfer Learning for Designing Efficient Signal Peptides to Improve the Secretion Level of Recombinant Protein in .

Journal of agricultural and food chemistry
Signal peptides (SPs) play an essential role in determining the secretion efficiency of proteins of interest (POIs). However, the manual identification of SPs with a high secretion potential is both time-consuming and labor-intensive. Recently, many ...

Machine learning and statistical classification in CRISPR-Cas12a diagnostic assays.

Biosensors & bioelectronics
CRISPR-based diagnostics have gained increasing attention as biosensing tools able to address limitations in contemporary molecular diagnostic tests. To maximize the performance of CRISPR-based assays, much effort has focused on optimizing the chemis...