Transcriptomic data sets for serovar Typhimurium 14028S that survived ingestion by , hydrogen peroxide treatment, or starvation.

is a pathogenic bacterium that can survive in hostile environments and inside heterotrophic protozoan cells. Here, we present transcriptomic data for grown in a rich medium, cultured under starvation conditions, treated with hydrogen peroxide, and extracted from cells after 8 and 15 h of infection.

Cappable-seq RNA-sequencing data sets for comparative studying of adaptation to intracellular environment, oxidative stress, and starvation.

is a foodborne pathogen that can survive various stresses and replicate inside protist cells. Here, we present high-resolution Cappable-seq transcriptomic data for 14028S under starvation and hydrogen peroxide treatment, as well as 8 and 15 h after uptake.

Transcriptome sequencing data sets of K-12 MG1655 treated with novobiocin, tetracycline, and rifampicin.

This report presents transcriptome datasets for MG1655 treated with novobiocin, rifampicin, and tetracycline. Clusters of genes that respond to inhibition of RNA synthesis, protein synthesis, and DNA gyrase activity have been identified. The data may help to understand the mechanisms of general and specific resistance in .

Polyp and tumor microenvironment reprogramming in colorectal cancer: insights from mucosal bacteriome and metabolite crosstalk.

Background: Highly frequent colorectal cancer (CRC) is predicted to have 3.2 million novel cases by 2040. Tumor microenvironment (TME) bacteriome and metabolites are proposed to be involved in CRC development.

The Cultivation of Halophilic Microalgae Shapes the Structure of Their Prokaryotic Assemblages.

The influence of microalgae on the formation of associated prokaryotic assemblages in halophilic microbial communities is currently underestimated. The aim of this study was to characterize shifts in prokaryotic assemblages of halophilic microalgae upon their transition to laboratory cultivation. Monoalgal cultures belonging to the classes Chlorodendrophyceae, Bacillariophyceae, Trebouxiophyceae, and Chlorophyceae were isolated from habitats with intermediate salinity, about 100 g/L, nearby Elton Lake (Russia).

Evaluating the phytotoxicological effects of bulk and nano forms of zinc oxide on cellular respiration-related indices and differential gene expression in Hordeum vulgare L.

The increasing use of nanoparticles is driving the growth of research on their effects on living organisms. However, studies on the effects of nanoparticles on cellular respiration are still limited. The remodeling of cellular-respiration-related indices in plants induced by zinc oxide nanoparticles (nnZnO) and its bulk form (blZnO) was investigated for the first time.

Unexpected ubiquity of heart-shaped scale morphotype in Centroplasthelida (Haptista): Ancestral trait or multiple acquisitions?

Centrohelids (Haptista: Centroplasthelida) are axopodial protists with a remarkable diversity of external siliceous scale morphologies. It is believed that the last common ancestor of centrohelids had a double layer of siliceous scales composed of plate scales closer to a cell surface and spine scales radiating outwards. The characteristic morphotype of spine scales with a heart-shaped base was once believed to be a unique feature of the genus Choanocystis, as it was defined by Siemensma and Roijackers (1988).

Physiological and Biochemical Responses of L. to Benzo[a]pyrene Contaminated Soils.

Benzo[a]pyrene (BaP) is noted as one of the main cancer-causing pollutants in human beings and may damage the development of crop plants. The present work was designed to explore more insights into the toxic effects of BaP on L. at various doses (20, 40, and 60 MPC) spiked in Haplic Chernozem.

Zinc Oxide Nanoparticles: Physiological and Biochemical Responses in Barley ( L.).

This work aimed to study the toxic implications of zinc oxide nanoparticles (ZnO NPs) on the physio-biochemical responses of spring barley ( L.). The experiments were designed in a hydroponic system, and was treated with two concentrations of ZnO NPs, namely 300 and 2000 mg/L.

Postbiotics versus probiotics in early-onset colorectal cancer.

Probiotics and postbiotics mechanisms of action and applications in early-onset colorectal cancer (EOCRC) prevention and treatment have significant importance but are a matter of debate and controversy. Therefore, in this review, we aimed to define the probiotics concept, advantages and limitations in comparison to postbiotics, and proposed mechanisms of anti-tumor action in EOCRC prevention and treatment of postbiotics. Biotics (probiotics, prebiotics, and postbiotics) could confer the health benefit by affecting the host gut microbiota directly and indirectly.

Macrophage Phenotype in Combination with Tumor Microbiome Composition Predicts RCC Patients' Survival: A Pilot Study.

The identification of new prognostic markers of renal cell carcinoma (RCC) is an urgent problem in oncourology. To investigate the potential prognostic significance of tumor microbiome and stromal inflammatory markers, we studied a cohort of 66 patients with RCC (23 clear cell RCC, 19 papillary RCC and 24 chromophobe RCC). The microbiome was analyzed in tumor and normal tissue by 16S rRNA amplicon sequencing.

subsp. subsp. nov., a psychrotolerant facultative anaerobe isolated from a cold spring.

A psychrotolerant facultative anaerobe, strain SKBG, was isolated from the bottom sediments of the cold mineral spring Buxichen (Buryatia, Russia). Gram-positive non-motile cocci with a diameter of 1.75-2.

Effects of ZnO nanoparticles and its bulk form on growth, antioxidant defense system and expression of oxidative stress related genes in Hordeum vulgare L.

A comparative analysis of physio-biochemical indices and transcriptional activity of oxidative stress genes in barley (Hordeum vulgare L.) seedlings after 7-days exposure to bulk- and nano-ZnO (300 and 2000 mg/L) was carried out. A dose-dependent reduction in the length and weight of roots and shoots, as well as a significant accumulation of Zn in plant parts, was shown.

Cappable-Seq Reveals Specific Patterns of Metabolism and Virulence for Typhimurium Intracellular Survival within .

The bacterial pathogen , which causes enteritis, has a broad host range and extensive environmental longevity. In water and soil, Salmonella interacts with protozoa and multiplies inside their phagosomes. Although this relationship resembles that between and mammalian phagocytes, the interaction mechanisms and bacterial genes involved are unclear.

Prognostic Significance of the Microbiome and Stromal Cells Phenotype in Esophagus Squamous Cell Carcinoma.

Esophageal cancer is one of the most aggressive malignant neoplasms, with low survival rates and limited treatment options. In this study we analyzed the microbiome composition and the phenotype of inflammatory tumor infiltrate in squamous cell carcinoma of esophagus (ESCC) and examined possible relationships between them and their prognostic significance. We found that the predominant phyla of microorganisms found in both tumors and adjacent normal tissues were and .

Data on rumen and faeces microbiota profiles of Yakutian and Kalmyk cattle revealed by high-throughput sequencing of 16S rRNA gene amplicons.

It is known that the rumen microbiome directly or indirectly contributes to animal production, and may be a prospective target for mitigation of greenhouse gas emissions [1]. At the same time, feed types and components of diet can influence the composition of the rumen microbiome [2,3]. Fluctuations in the composition of the digestive tract microbiota can alter the development, health, and productivity of cattle [4].

Data on draft genome sequence of sp. SAM-B isolated from a mineral cold spring located in Tyva, southern Siberia.

sp. SAM-B was isolated from Uzharlyg Mineral Cold Spring, Samagaltay Settlement, Republic of Tyva (Southern Siberia), Russian Federation. A whole genome sequencing of sp.

Lung Microbiome Differentially Impacts Survival of Patients with Non-Small Cell Lung Cancer Depending on Tumor Stroma Phenotype.

The link between a lung tumor and the lung microbiome is a largely unexplored issue. To investigate the relationship between a lung microbiome and the phenotype of an inflammatory stromal infiltrate, we studied a cohort of 89 patients with non-small cell lung cancer. The microbiome was analyzed in tumor and adjacent normal tissue by 16S rRNA amplicon sequencing.

Dataset for transcriptome analysis of subsp. serovar Typhimurium strain 14028S response to starvation.

is an ubiquitous pathogen throughout the world causing gastroenteritis in humans and animals. Survival of pathogenic bacteria in the external environment may be associated with the ability to overcome the stress caused by starvation. The bacterial response to starvation is well understood in laboratory cultures with a sufficiently high cell density.

Transcriptomic data of subsp. serovar Typhimurium str. 14028S treated with novobiocin.

In enteric bacteria, DNA supercoiling is highly responsive to environmental conditions. Host specific features of environment serve as cues for the expression of genes required for colonization of host niches via changing supercoiling [1]. It has been shown that substitution at position 87 of GyrA of str.

Multiple Euryhaline Lineages of Centrohelids (Haptista: Centroplasthelida) in Inland Saline Waters Revealed with Metabarcoding.

The diversity of centrohelids in inland saline waters was studied with metabarcoding for the first time. The fragment of V6-V7 regions of 18S rDNA was sequenced with newly designed primers. Obtained OTUs were identified with molecular phylogenetic analysis and comparison of the signatures in 39es9 hairpin of V7.

Metagenomic analysis of mycobacterial transrenal DNA in patients with HIV and tuberculosis coinfection.

The existence of "transrenal" DNA (tr-DNA), i.e. cell-free DNA that has distributed through the renal barrier to the urine, was first shown from a pathogen in 2000 (Botezatu et al.