CIMB MDPI’s Post

'-- Next, a comparison of gene expression patterns between CR responding and non-responding strains revealed unique sets of genes and pathways and regulators of CR response. We found that responding wild strains uniquely adapted to increase mitochondrial translation coupled with oxidative phosphorylation and ATP biosynthesis under high glucose conditions. -- This data suggests that under high glucose conditions (2%), negatively responding strains might have decreased mitochondrial capacity for energy derivation by oxidative phosphorylation ... ...' Excellent - combine with ... ... https://lnkd.in/eberRK4V Excellent - combine with - '3-Hydroxybutyric acid exists in all living species, ranging from bacteria through yeast into humans' https://lnkd.in/eberRK4V

I am thrilled to share that our recent article, "Genomic Identification, Characterization, and Stress-Induced Expression Profiling of Glyoxalase and D-Lactate Dehydrogenase Gene Families in Capsicum annuum" has been published in BMC Plant Biology! 🌱✨ This research provides critical insights into how plants respond to stress, contributing to the growing body of knowledge aimed at improving stress tolerance in crops. I would like to express my heartfelt gratitude to my supervisor, Dr. Ajit Ghosh, for his unwavering guidance and support throughout this journey. 🙏 🔗 You can read the full article here: https://lnkd.in/gPqEabKj #PlantBiology #StressTolerance #CapsicumAnnuum #GenomicResearch #BMCPlantBiology #ScientificPublication

You have a strain culture and want to know its gene pool? We use whole genome sequencing to map the full genome of organisms in culture and can help you understand the specific genes encoded by your organism.   Such information can help you understand its functions and possible value. Does it possess key nitrogen fixation genes, phosphorus solubilization genes, antibiotic resistance?   The analyses can also help understand the specific strain you have grown if you are unsure.   Send us an email or give us a call to discuss the options.

📍High-throughput single-cell sequencing of activated sludge microbiome    Zhang et al. conducted single-cell sequencing for activated sludge samples to uncover the microbial profile and mobile genetic element carriers (plasmids and phages) for horizontal gene transfer.    Key findings  📍1,137 antibiotic resistance genes, 10,450 plasmid fragments, and 1,343 phage contigs.  📍A high frequency of horizontal gene transfer.  📍Classification of 98 previously unclassified single-amplified genome bins. ➡️ More details: https://lnkd.in/e4QzAQA9 #TheUniversityofHongKong #spatialomics #spatialbiology #singlecellanalysis #singlecell

Carbapenem resistance in enterobacteria (CRE) and other Gram-negative bacteria is causing a global epidemic that continues to grow. In this study Colistin heteroresistance in K. pneumoniae isolates was attributed mainly to insertions in the mgrB gene and point mutations in colistin resistance proteins.: t.ly/akA_m #RBCBioscience #Research #diagnostics #DNA #heteroresistance #PCR #bacteria #NGS

The authors have created the workflow ARGprofiler to process large amounts of raw sequencing reads for studying the composition, distribution, and function of antibiotic resistance gene (ARGs). ARGprofiler tackles the challenge of deciding which reference database to use by providing the PanRes database of 14 078 unique ARGs that combines several existing collections into one. Our pipeline is designed to not only produce abundance tables of genes and microbes but also to reconstruct the flanking regions of ARGs with ARGextender. https://lnkd.in/evsTd-DH

A cryptic #plasmid is among the most numerous genetic elements in the #human gut:- •#Plasmids are extrachromosomal genetic elements that often encode fitness-enhancing features. However, many bacteria carry “cryptic” plasmids that do not confer clear beneficial functions. •We identified one such cryptic plasmid, #pBI143, which is ubiquitous across industrialized #gut microbiomes and is 14 times as numerous as #crAssphage, currently established as the most abundant extrachromosomal genetic element in the human gut. •The majority of mutations in #pBI143 accumulate in specific positions across thousands of #metagenomes, indicating strong purifying selection. •#pBI143 is monoclonal in most individuals, likely due to the priority effect of the version first acquired, often from one’s mother. •#pBI143 can transfer between #Bacteroidales, and although it does not appear to impact bacterial host fitness in vivo, it can transiently acquire additional genetic content. •We identified important practical applications of #pBI143, including its use in identifying human fecal contamination and its potential as an alternative approach to track human #colonic inflammatory states. #Highlights:- •#pBI143 is a cryptic plasmid that is prevalent in industrialized human populations. •#pBI143 is only ∼2.7 kb, yet it regularly makes up over 0.1% of gut #metagenomic reads. •The naive 2-gene form appears #parasitic, but pBI143 can carry additional genes. •The relative copy number of #pBI143 increases during #stress, including in #IBD. #cell #metagenomics #plasmid #gutmicrobiome #genetics

📌 The central dogma of biology and the omic cascade. 📍 The genes and proteins are subject to regulatory epigenetic processes and post-translational modifications, respectively. 📍 Metabolites represent downstream biochemical end products that are closer to the phenotype. 📍 Accordingly, it is easier to correlate metabolomic profiles with phenotypes compared to genomic, transcriptomic, and proteomic profiles. Happy reading! Let me know in the comments below if you find this post insightful! Thank you for your time! #bioinformatics #gene #mrna #protein #metabolites #biochemical #phenotype #genetics #genomics #transcription #transcriptomics #profiles #metabolomics #posttranslation #mutations #epigenetics

🔬 New Research article Alert! published in #DrugDevIndPharm 🌟 Pyroligneous extract, a biomaterial derived from pyrolytic palm kernel shell wood vinegar, as a novel diabetic wound healing aid: an animal study 🌟 This study investigates the potential of pyroligneous extract (PE), derived from palm kernel shell wood vinegar, as a novel diabetic wound healing aid. Researchers incorporated PE into a chitosan-based hydrogel and tested its efficacy on streptozotocin-induced diabetic mice. The results showed that PE accelerated wound healing in a dose-dependent manner, with the highest concentration (150 μg/g-gel) performing as effectively as a commercial gel. PE treatment increased gene expression of cytokines and proteins in the TGF-β/SMAD signaling pathway, potentially restoring TGF-β levels downregulated by diabetes. The extract also enhanced expressions of Akt, FAK, RhoA, and Rac-1, and activated phosphorylation of Akt and FAK. Histological assessments revealed improved wound healing features in PE-treated groups. This research demonstrates the potential of PE as a promising biomaterial for treating chronic inflammatory wounds in diabetes 📖 Read the full article here: https://lnkd.in/gVcmMjYs #DiabeticWoundHealing #PyroligneousExtract #BiomaterialInnovation #RegenerativeMedicine #SustainableHealthcare

➡️🔬**Understanding Horizontal Gene Transfer in Bacteria**🔬 Bacteria have evolved remarkable mechanisms to share genetic material, enhancing their adaptability and survival. Here’s a closer look at three key processes: 1️⃣. **Bacterial Transformation (Panel a)**: - This process involves the uptake of naked DNA from the environment by a competent recipient cell. - In the depicted scenario, a donor cell releases DNA containing an antibiotic-resistance gene, which is then incorporated into the recipient cell’s genome, potentially conferring resistance to antibiotics. 2️⃣. **Bacterial Transduction (Panel b)**: - Transduction occurs when bacteriophages (viruses that infect bacteria) facilitate gene transfer between bacterial cells. - Here, a phage-infected donor cell releases phage particles, which can introduce new genetic material into a recipient cell, thereby transferring traits such as antibiotic resistance. 3️⃣. **Bacterial Conjugation (Panel c)**: - This is a direct transfer of genetic material between bacterial cells through a physical connection known as a pilus. - In this example, a donor cell transfers a transposon (a mobile genetic element) to the recipient cell, which can integrate it into its own genome, allowing for rapid genetic variation and adaptation. These mechanisms not only promote genetic diversity but also play critical roles in the spread of antibiotic resistance, a growing concern in public health. Understanding these processes is crucial for developing strategies to combat bacterial infections and resistance. #MicroBiology #GeneticEngineering #MolecularBiology #Bacteria