A5079902178- Mycobacterium research and diagnosis
- Genomics and Phylogenetic Studies
- Tuberculosis Research and Epidemiology
- RNA and protein synthesis mechanisms
- Bacteriophages and microbial interactions
- Infectious Diseases and Mycology
- Cardiomyopathy and Myosin Studies
- Cardiovascular Function and Risk Factors
- Enzyme-mediated dye degradation
- Cardiovascular Effects of Exercise
- Plant-Microbe Interactions and Immunity
- Plant Pathogens and Fungal Diseases
- Cardiac Fibrosis and Remodeling
- Microbial Natural Products and Biosynthesis
- Chromosomal and Genetic Variations
- Cancer-related molecular mechanisms research
- RNA Research and Splicing
- Health Systems, Economic Evaluations, Quality of Life
- Pneumonia and Respiratory Infections
- Bacterial Genetics and Biotechnology
- Politics and Conflicts in Afghanistan, Pakistan, and Middle East
- RNA modifications and cancer
- Amoebic Infections and Treatments
Uppsala University
2015-2024
Science for Life Laboratory
2019-2024
Jawaharlal Nehru University
2009-2014
New or mild heart failure (HF) is mainly caused by left ventricular dysfunction. We hypothesised that gene expression differ between the (LV) and right ventricle (RV) secondly type of LV compared through myocardial biopsies from RV patients undergoing elective coronary bypass surgery (CABG). Patients were categorised based on ejection fraction (EF), diastolic function NT-proBNP into pEF (preserved; LVEF ≥ 45%), rEF (reduced; < 45%) normal function. Principal component analysis displayed two...
Alternative splicing and polyadenylation were observed pervasively in eukaryotic messenger RNAs. These alternative isoforms could either be consequences of physiological regulation or stochastic noise RNA processing. To quantify the extent polyadenylation, we analyzed usage sites Entamoeba histolytica using RNA-Seq. First, identified a large number rarely spliced junctions then showed that occurrence these events is correlated with site sequence, constitutive abundance. Our results implied...
Abstract Heart failure affects 2–3% of adult Western population. Prevalence heart with preserved left ventricular (LV) ejection fraction (HFpEF) increases. Studies suggest HFpEF patients to have altered myocardial structure and functional changes such as incomplete relaxation increased cardiac stiffness. We hypothesised that undergoing elective coronary bypass surgery (CABG) characteristics would show distinctive gene expression compared normal LV physiology. Myocardial biopsies for mRNA...
Abstract Mycobacterium marinum is the causative agent for tuberculosis-like disease mycobacteriosis in fish and skin lesions humans. Ubiquitous its geographical distribution, M . known to occupy diverse as hosts. However, information about genomic diversity limited. Here, we provide genome sequences 15 strains isolated from infected humans fish. Comparative analysis of these four available genomes M, E11, MB2 Europe reveal high among strains, leading conclusion that should be divided into...
We provide the genome sequences of type strains polychlorophenol-degrading Mycobacterium chlorophenolicum (DSM43826), degrader chlorinated aliphatics chubuense (DSM44219) and obuense (DSM44075) that has been tested for use in cancer immunotherapy.The sizes M. chlorophenolicum, chubuense, are 6.93, 5.95, 5.58 Mb with GC-contents 68.4%, 69.2%, 67.9%, respectively.Comparative genomic analysis revealed 3,254 genes common we predicted approximately 250 acquired through horizontal gene transfer...
We have used RNASeq and qRT-PCR to study mRNA levels for all σ-factors in different Mycobacterium marinum strains under various growth stress conditions. also studied their M. from infected fish mosquito larvae. The annotated were expressed transcripts varied relation Some highly abundant such as sigA, sigB, sigC, sigD, sigE sigH while others not. σ-factor profiles similar after heat stress, during infection of similarity applies some the known shock genes α-crystallin gene. Therefore, it...
Abstract Members of the Mycobacterium chelonae - abscessus complex (MCAC) are close to mycobacterial ancestor and includes both human, animal fish pathogens. We present genomes 14 members this complex: complete salmoniphilum type strains, seven M. isolates, five -like strains including isolated during an outbreak in facility at Uppsala University. Average nucleotide identity (ANI) analysis core gene phylogeny revealed that variants human pathogen franklinii phylogenetically . Our data...
Abstract Background The Mycobacterium genus encompasses at least 192 named species, many of which cause severe diseases such as tuberculosis. Non-tuberculosis mycobacteria (NTM) can also infect humans and animals. Some are emerging concern because they show high resistance to commonly used antibiotics while others evaluated in bioremediation or included anticancer vaccines. Results We provide the genome sequences for 114 mycobacterial type strains together with 130 available genomes we...
Abstract Background Tuberculosis remains a major public health problem. Clinical tuberculosis manifests often as pulmonary and occasionally extra-pulmonary tuberculosis. The emergence of drug resistant tubercle bacilli its association with HIV is formidable challenge to curb the spread There have been concerted efforts by whole genome sequencing bioinformatics analysis identify genomic patterns establish relationship between genotype organism clinical manifestation Extra-pulmonary TB...
Mycobacteria occupy various ecological niches and can be isolated from soil, tap water ground water. Several cause diseases in humans animals. To get deeper insight into our understanding of mycobacterial evolution focusing on tRNA non-coding (nc)RNA, we conducted a comparative genome analysis Mycobacterium mucogenicum (Mmuc) neoaurum (Mneo) clade members. Genome sizes for Mmuc- Mneo-clade members vary between 5.4 6.5 Mbps with the complete MmucT (type strain) encompassing 6.1 Mbp. The...
The organization of genomic sequences is dynamic and undergoes change during the process evolution. Many variations arise spontaneously observed changes can either be distributed uniformly throughout genome or preferentially localized to some regions (hot spots) compared others. Conversely cold spots may tend accumulate very few none at all. In order identify such statistically, we have developed a method based on Shewhart Control Chart. was used for identification hot single-nucleotide...
Mycobacterium phlei , a nontuberculosis mycobacterial species, was first described in 1898–1899. We present the complete genome sequence for M. CCUG21000 T type strain and draft genomes four additional strains. The size all fiveis 5.3 Mb with 69.4% Guanine-Cytosine content. This is ≈0.35 Mbp smaller than previously reported RIVM genome. difference attributed partly to large bacteriophage fragments Comparative analysis revealed following: 1) A CRISPR system similar Type 1E ( cas 3) RIVM; 2)...
ABSTRACT We have sequenced the genome of Saccharopolyspora rectivirgula , causative agent farmer's lung disease. The draft consists 182 contigs totaling 3,977,051 bp, with a GC content 68.9%.
Like other bacteria, Mycobacterium spp. have developed different strategies in response to environmental changes such as nutrient limitations and stress situations. We identified candidate genes (rsb genes) from marinum involved the regulation of activity alternative sigma factor, σF. This is a homolog master regulator general response, σB, sporulation-specific σF, Bacillus subtilis. The organization these M. B. subtilis similar. Transcriptome qRT-PCR data show that are indeed expressed...
Abstract Summary: Large numbers of genomes are being sequenced regularly and the rate will go up in future due to availability new genome sequencing techniques. In order understand genotype phenotype relationships, it is necessary identify sequence variations at genomic level. Alignment a pair parsing alignment data an accepted approach for identification variations. Though there number tools available whole-genome alignment, none these allows automatic different kinds variants with high...
Abstract Mycobacterium marinum is the causative agent for tuberculosis-like disease mycobacteriosis in fish and skin lesions humans. Ubiquitous its geographical distribution, M. known to occupy diverse as hosts. However, information about genomic diversity limited. Here, we provide genome sequences 15 strains isolated from infected humans fish. Comparative analysis of these four available genomes M, E11, MB2 Europe reveal high among strains, leading conclusion that should be divided into two...