A series of Escherichia coli strains with varied genomic sequences were subjected to high-density microarray analyses to elucidate the fitness-correlated transcriptomes. Fitness, which is commonly evaluated by the growth rate during the exponential phase, is not only determined by the genome but is also linked to growth conditions, e.g., temperature. We previously reported genetic and environmental contributions to E. coli transcriptomes and evolutionary transcriptome changes in thermal adaptation. Here, we describe experimental details on how to prepare microarray samples that truly represent the growth fitness of the E. coli cells. A step-by-step record of sample preparation procedures that correspond to growing cells and transcriptome data sets that are deposited at the GEO database (GSE33212, GSE52770, GSE61739) are also provided for reference.
Download full-text PDF |
Source |
|---|---|
| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4778597 | PMC |
| http://dx.doi.org/10.1016/j.gdata.2015.11.011 | DOI Listing |
Publication Analysis
Top Keywords
Similar Publications
IS-flanked composite transposon harboring in multidrug-resistant Typhimurium.
iScience
February 2025
Department of Clinical Laboratory, Lishui People's Hospital, The Sixth Affiliated Hospital of Wenzhou Medical University, Lishui, Zhejiang, China.
Multidrug-resistant Typhimurium has emerged as a global public health concern. Asymptomatic gastrointestinal carriage is a key factor in the spread of antibiotic-resistant bacteria. However, it is challenging to obtain direct evidence of transfer of mobile genetic elements (MGEs).
View Article and Find Full Text PDFBerberine alleviates enterotoxigenic -induced intestinal mucosal barrier function damage in a piglet model by modulation of the intestinal microbiome.
Front Nutr
January 2025
College of Animal Science, Anhui Science and Technology University, Chuzhou, China.
Introduction: Enterotoxic (ETEC) is the main pathogen that causes diarrhea, especially in young children. This disease can lead to substantial morbidity and mortality and is a major global health concern. Managing ETEC infections is challenging owing to the increasing prevalence of antibiotic resistance.
View Article and Find Full Text PDFA c-type lectin with dual function of immunology and mineralization from the freshwater oyster ( Lea).
Front Immunol
January 2025
Key Laboratory of Freshwater Aquatic Genetic Resources, Ministry of Agriculture and Rural Affairs, Shanghai Ocean University, Shanghai, China.
Background: Shell and pearl formation in bivalves is a sophisticated biomineralization process that encompasses immunological and mineralization aspects, particularly during shell repair and the initial stages of pearl cultivation when a nucleus is inserted. Here, we describe a novel C-type lectin, HcLec1, isolated and characterized from the freshwater pearl mussel Lea.
Methods: Immune challenge, RNA interference (RNAi) experiments, ELISA, and antibacterial assays were employed to investigate the role of HcLec1 in innate immunity.
Microbial Safety of Sachet Water in Ghana: A Systematic Review.
Environ Health Insights
January 2025
Department of Medical Microbiology, University of Ghana Medical School, Korle Bu, Accra, Ghana.
Introduction: Access to safe drinking water is crucial for health and survival, yet many developing countries face significant challenges in this regard. In West Africa, rapid urbanisation has outpaced efforts to improve access to potable water, compelling households to rely on private vendors for solutions, particularly through the growing market for sachet water. Widely consumed in Ghana, sachet water has become a convenient and affordable option, with over 37% of the population depending on it.
View Article and Find Full Text PDFSurveillance of antimicrobial resistance in hospitalized companion animals in China in 2022-23.
JAC Antimicrob Resist
February 2025
Zoetis Reference Laboratory, Shanghai, China.
Objectives: In this study, bacteria isolated from companion animals in China were taxonomically identified and assessed for antimicrobial susceptibility to evaluate the prevalence of antimicrobial resistance (AMR) in pets.
Methods: From October 2022 to October 2023, 5468 samples were collected from pets, predominantly from cats and dogs, in China, of which 5253 bacterial strains were identified (>98%). Antimicrobial susceptibility was assessed using the VITEK 2 COMPACT system and the Kirby-Bauer disc diffusion method.
Want AI Summaries of new PubMed Abstracts delivered to your In-box?
Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!