Molecular evolution of pathogenic bacteria based on rrsA gene
Journal Title: Journal of Medical and Allied Sciences - Year 2012, Vol 2, Issue 1
Abstract
Evolution of pathogens in prokaryotic bacteria was studied by 16srRNA genes. In this study rrsA genes of 45 bacteria were considered, which includes pathogens, non-pathogens and out- group bacteria. We considered non-pathogenic bacteria, for each class in bacterial classification, to support the pathogenic evolution. In this investigation, aligned nucleotide sequences of rrsA genes were used for Phylogenetic analysis and they have been clustered precisely. Maximum Likelihood (ML) and Maximum Parsimony (MP) methods were employed for the molecular evolution of pathogenic bacteria. The best-fit substitution model with the lowest Bayesian Information Criterion scores is considered to describe the substitution pattern the best, and non-uniformity of evolutionary rates among sites were modeled by using a discrete Gamma distribution. Nearest Neighbor Interchange (NNI) heuristic method was used to generate the tree for ML and Close Neighbor Interchange (CNI) on random trees search methods for MP. Further both the phylogenetic trees were statistically evaluated for accuracy by bootstrap value. Transition and transversion ratio of the rrsA genes have been estimated for the mutation frequency over the evolution by Maximum Composite Likelihood (MCL) bias and ML bias. Combined pathogenic and non pathogenic bacteria analysis reflected the clear diversity of bacteria over time and agrees with morphological and cytological data. These molecular evolution results should be useful to study the evolution pattern of pathogenic bacteria.
Authors and Affiliations
Aravind Setti| Department of Genetics & Biotechnology, Osmania University, Hyderabad 500 007, Andhra Pradesh, India, T A Phazna Devi| Department of Bioinformatics, VAC Biotechnologies, Hyderabad 500029, Andhra Pradesh, India, Smita C Pawar| Department of Genetics & Biotechnology, Osmania University, Hyderabad 500 007, Andhra Pradesh, India, G Rajesh| Department of Bioinformatics, VAC Biotechnologies, Hyderabad 500029, Andhra Pradesh, India, S Srikanth| Department of Genetics & Biotechnology, Osmania University, Hyderabad 500 007, Andhra Pradesh, India, S Kalyan| Department of Bioinformatics, VAC Biotechnologies, Hyderabad 500029, Andhra Pradesh, India
Keywords
Related Articles
- EP ID EP12661
- DOI -
- Views 409
- Downloads 25
Rifampicin-induced interstitial nephritis: A case report and a short review of the literature
Rifampicin induced acute interstitial nephritis (AIN) is a relatively rare entity, but in a setting of high tuberculosis (TB) prevalence, may be met with on occasion. TB is rife. If diagnosed and treated in time, the...
Lipid profile of patients having non-alcoholic fatty liver disease as per ultrasound findings in north Indian population: A retrospective observational study
A hospital-based cross-sectional study was conducted to assess the lipid profile and body mass index (BMI) of the patients suffering from non-alcoholic fatty liver disease (NAFLD) in north Indian population. A total of...
Vaccinology: Reflections and the way forward
In recent times vaccine development exploration accelerates the new strategies based on genomics, proteomics, functional genomics and glycochemistry (synthetic chemistry). The evolving Advanced technologies have the pot...
Panton-Valentine Leukocidin gene positive methicillin resistant Staphylococcus aureus, the community strains causing infections in intensive care unit - High risk of outbreak and preventing strategies
Methicillin resistant Staphylococcus aureus (MRSA) is an important pathogen that causes hospital acquired infections recorded in the intensive care unit (ICU). Most of the MRSA isolates carry mecA gene which is a molec...
Falciparum malaria associated changes in biochemical indices in children
Metabolic disturbances associated with fluid and electrolyte imbalance, and changes in the synthetic functions of the liver are common complications of malaria and are dependent on the degree of parasitemia. Packed cel...