Profiling microbial community function from metagenomic sequencing data remains a computationally challenging problem. Mapping millions of DNA reads from such samples to reference protein databases requires long run-times, and short read lengths can result in spurious hits to unrelated proteins (loss of specificity). We developed ShortBRED (Short, Better Representative Extract Dataset) to addre...

Background: Infection is one of the most serious complications and leading cause of morbidity and mortality in patients with hematological-oncological disorders. We aimed to assess distribution of pathogens and their antibiotic resistance pattern in patients admitted to hematology-oncology department of Namazi Hospital, Shiraz from April 2016 to March 2017.  Methods: The current cross-sectiona...

Streptococcus mutans is one of the major cariogenic microbial flora. In an attempt to determine mutagenic effect diode laser on viability and antibiotic sensitivity this bacteria; A total 30 samples were collected from dental caries. The isolates identified using by conventional identification methods confirmed VITEK2 system. Twenty-one recorded as spp ten them mutans. Antibiotic susceptibility...

The study aimed to assess the bacterial profile and antibiotic resistance pattern among cancer patients attending B.P Koirala Memorial Cancer Hospital, Bharatpur, Chitwan. Hospital-based cross-sectional studies were carried out on 384 samples collected from processed.  After growth of organism different media, Grams staining was done for primary identification later identified by biochemic...

BACKGROUND Otitis media with effusion is one of the leading causes of hearing loss in children. Effective treatment of effusion in the middle ear requires appropriate empirical treatment and characterization of responsible pathogens. Objective of the present study was to detect pathogens in clinical samples from patients with otitis media with effusion in our area and to determine the sensitivi...

Introduction: Chronic Suppurative Otitis Media (CSOM) takes a lot of time in the hospital outdoors and operation theatres. It is a chronic disease which is associated with irreversible sequelae and serious intracranial and extracranial complications. Henceforth early & effective treatment needs to be instituted to avoid such complications. Materials & Methods: This study was planned at a tertia...

We have defined a sensitivity profile for 22 antibiotics by extending previous work testing the entire KEIO collection of close to 4,000 single-gene knockouts in Escherichia coli for increased susceptibility to 1 of 14 different antibiotics (ciprofloxacin, rifampin [rifampicin], vancomycin, ampicillin, sulfamethoxazole, gentamicin, metronidazole, streptomycin, fusidic acid, tetracycline, chlora...

BACKGROUND The increase in the incidence of methicillin-resistant Staphylococcus aureus (MRSA) infections lacking risk factors for exposure to the health care system has been associated with the recognition of new MRSA clones known as community-associated MRSA (CA-MRSA). These strains have been distinguished from health care-associated MRSA (HA-MRSA) strains by epidemiological, molecular and ge...

Plasmids, which are currently used in interleukin 12 (IL-12) gene electrotransfer (GET) clinical trials in the USA, contain antibiotic resistance genes and are thus, according to the safety recommendation of the European Medicines Agency (EMA), not suitable for clinical trials in the EU. In the current study, our aim was to prepare an IL-12 plasmid without an antibiotic resistance gene and test...

This study was to investigate the antibiotic resistance profile of H. pylori and the distribution of CYP2C19 gene polymorphism in rural population of Chongqing, China. 214 and 111 strains of H. pylori were isolated from rural and urban patients, respectively. 99.53%, 20.09%, and 23.36% of the isolates in rural patients were found to be resistant to metronidazole, clarithromycin, and levofloxaci...