Steffimole Rose
A5034273635- Antibiotic Resistance in Bacteria
- Bacterial Identification and Susceptibility Testing
- Genomics and Phylogenetic Studies
- Antibiotics Pharmacokinetics and Efficacy
- SARS-CoV-2 detection and testing
- SARS-CoV-2 and COVID-19 Research
- Vibrio bacteria research studies
- COVID-19 Clinical Research Studies
- Pneumonia and Respiratory Infections
- Plant Pathogenic Bacteria Studies
- Health Systems, Economic Evaluations, Quality of Life
- Global Health and Surgery
- Respiratory viral infections research
- Mycobacterium research and diagnosis
- Bacterial biofilms and quorum sensing
- vaccines and immunoinformatics approaches
- Genetics, Bioinformatics, and Biomedical Research
- Bacteriophages and microbial interactions
- Bacterial Infections and Vaccines
- Healthcare Systems and Reforms
Kempegowda Institute of Medical Sciences
2021
Indian Institute of Science Bangalore
2020-2021
Abstract Background Klebsiella species, including the notable pathogen K. pneumoniae, are increasingly associated with antimicrobial resistance (AMR). Genome-based surveillance can inform interventions aimed at controlling AMR. However, its widespread implementation requires tools to streamline bioinformatic analyses and public health reporting. Methods We developed web application Pathogenwatch, which implements analytics tailored species for integration visualization of genomic...
Abstract Background Carbapenem-resistant Klebsiella pneumoniae (CRKP) is a threat to public health in India because of its high dissemination, mortality, and limited treatment options. Its genomic variability reflected the diversity sequence types, virulence factors, antimicrobial resistance (AMR) mechanisms. This study aims characterize clonal relationships genetic mechanisms CRKP isolates India. Materials Methods We characterized 344 retrospective K. clinical collected from 8 centers...
Abstract Background Klebsiella pneumoniae is a World Health Organization high-priority antibiotic-resistant pathogen. However, little known about lineages circulating in Nigeria. Methods We performed whole-genome sequencing (WGS) of 141 isolated between 2016 and 2018 from clinical specimens at 3 antimicrobial-resistance (AMR) sentinel surveillance tertiary hospitals southwestern conducted silico multilocus sequence typing; AMR gene, virulence plasmid, K O loci profiling; as well phylogenetic...
Abstract Background Carbapenem-resistant Klebsiella pneumoniae (CRKP) is an emerging public health problem. This study explores the specifics of CRKP epidemiology in Colombia based on whole genome sequencing (WGS) National Reference Laboratory at Instituto Nacional de Salud (INS)’s 2013–2017 sample collection. Methods A total 425 isolates from 21 departments were analyzed by HiSeq-X10®Illumina high-throughput sequencing. Bioinformatic analysis was performed, primarily using pipelines...
Abstract Antimicrobial resistance (AMR) is considered a global threat, and novel drug discovery needs to be complemented with systematic standardized epidemiological surveillance. Surveillance data are currently generated using phenotypic characterization. However, due poor scalability, this approach does little for true investigations. There strong case whole-genome sequencing (WGS) enhance the data. To establish AMR surveillance WGS, we developed laboratory implementation that applied...
Klebsiella pneumoniae is a critically important pathogen in the Philippines. Isolates are commonly resistant to at least 2 classes of antibiotics, yet mechanisms and spread its resistance not well studied.A retrospective sequencing survey was performed on carbapenem-, extended spectrum beta-lactam-, cephalosporin-resistant isolated 20 antimicrobial (AMR) surveillance sentinel sites from 2015 through 2017. We characterized 259 isolates using biochemical methods, susceptibility testing,...
A novel severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is the causative agent of disease 2019 (COVID-19) and continues to be a global health challenge. To understand viral biology, we have carried out proteo-genomic analysis using next-generation sequencing (NGS) mass spectrometry on nasopharyngeal swabs COVID-19 patients examine clinical genome proteome. Our study confirms mutability SARS-CoV-2 showing multiple single-nucleotide polymorphisms. NGS detected 27 mutations, which...
Abstract Performing whole genome sequencing (WGS) for the surveillance of antimicrobial resistance offers ability to determine not only antimicrobials which rates are increasing, but also evolutionary mechanisms and transmission routes responsible increase at local, national, global scales. To derive WGS-based outputs, a series processes required, beginning with sample metadata collection, followed by nucleic acid extraction, library preparation, sequencing, analysis. Throughout this pathway...
Abstract Advanced genomics and sequencing technologies are increasingly becoming critical for global health applications such as pathogen antimicrobial resistance (AMR) surveillance. Limited resources challenge capacity development in low- middle-income countries (LMICs), with few having facilities adequately trained staff. Training research public experts who directly involved the establishment of offers an effective, but limited, solution to a growing need. Instead, training them impart...
In this Supplement, we detail outputs of the National Institute for Health Research Global Unit on Genomic Surveillance Antimicrobial Resistance project, covering practical implementation whole-genome sequencing across our consortium, which consists laboratories in Colombia, India, Nigeria, and Philippines.
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ABSTRACT Objectives Carbapenem-resistant Acinetobacter baumannii (CRAB) has acquired worldwide recognition as a serious nosocomial infection. It poses concern to hospitalized patients because of the limited therapeutic options available. Thus, we investigated molecular epidemiology and antibiotic resistance profiles A. isolates in India. Materials Methods We characterized 306 retrospective clinical collected from 18 centers across 10 states 1 Union Territory India between 2015 2019....
ABSTRACT summary We report insights into genome sequences of Indian K. pneumoniae isolates, highlighting the presence high-risk international clones and genetic pools different from those predominating in other regions. Identification multidrug-resistant hypervirulent elicits public health concerns. Background Carbapenem-resistant Klebsiella (CRKP) is a threat to India due its high dissemination, mortality, limited treatment options. Its genomic variability reflected diversity sequence...
ABSTRACT A novel severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is the causative agent of COVID-19 and continues to be a global health challenge. To understand viral disease biology, we have carried out proteo-genomic analysis using next generation sequencing (NGS) mass-spectrometry on nasopharyngeal swabs patients examine clinical genome proteome. Our study confirms hyper mutability SARS-CoV-2 showing multiple SNPs. NGS detected 27 mutations which 14 are synonymous, 11...
Abstract Introduction Streptococcus pneumoniae is a common cause of meningitis and pneumonia. Various studies have explored the relationship between genome phenotypic characteristics like antibiotic resistance. Methods Four pneumococcal isolates from clinical specimens were included. DNA was extracted genomes sequenced in 2×101bp layout. Standard analysis tools pipelines employed to understand characteristics. Results There almost perfect agreement genome-based predictions methods for Novel...