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BioCluster:Tool for Identification and Clustering of Enterobacteriaceae Based on Biochemical Data

Genomics, Proteomics & Bioinformatics 2015年第3期13卷 192-199页

作者： Ahmed Abdullah S.M.Sabbir Alam munawar sultana M.Anwar Hossain Department of Microbiology University of Dhaka

Presumptive identifcation of different Enterobaeteriaeeae species is routinely achieved based on biochemical properties. Traditional practice includes manual comparison of each biochem- ical property of the unknown sample with known reference samples and inference of its identity based on the maximum similarity pattern with the known samples. This process is labor- intensive, time-consuming, error-prone, and subjective. Therefore, automation of sorting and sim- ilarity in calculation would be advantageous. Here we present a MATLAB-based graphical user interface （GUI） tool named BioCluster. This tool was designed for automated clustering and iden- tification of Enterobacteriaceae based on biochemical test results. In this tool, we used two types of algorithms, i.e., traditional hierarchical clustering （HC） and the Improved Hierarchical Clustering （IHC）, a modified algorithm that was developed specifically for the clustering and identification of within this species. IHC takes into account the variability in result of 1-47 biochemical tests family. This tool also provides different options to optimize the clus- tering in a user-friendly way. Using computer-generated synthetic data and some real data, we have demonstrated that BioCluster has high accuracy in clustering and identifying enterobacterial species based on biochemical test data. This tool can be freely downloaded at http：//***/ biocluster/.

关键词： Bacterial identification Enterobacteriaceae Biochemical properties Clustering tool Identification tool Hierarchy algorithm

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Characterization of Ciprofloxacin resistant Extended Spectrum <i>β</i>-Lactamase (ESBL) producing <i>Escherichia </i>spp. from clinical waste water in Bangladesh

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Advances in Bioscience and Biotechnology 2013年第7期4卷 15-23页

作者： Nihad Adnan munawar sultana Ovinu Kibria Islam Shuvro Prokash Nandi M. Anwar Hossain Department of Microbiology University of Dhaka Dhaka Bangladesh

Clinical Waste Water (CWW) possesses the risks of spreading antibiotic resistant bacteria in the environment. In Bangladesh, liquid discharge is directly released into the municipal sewage system and pollutes the surroundings water bodies/rivers. Liquid samples were collected from the three CWW discharge sites connected to DMCH (Dhaka Medical College Hospital) and from one control group non-connected to DMCH. About 32, 30 and 26 times higher ciprofloxacin, cefixime and multi-drug resistant bacterial count were found in CWW over control samples. Among the isolates, two Escherichia spp. isolates, denoted 26N and 28N, were found to be resistant against fluoroquinolone (MBC of Ciprofloxacin > 1024 μg/ml), cephalosporin, glycopeptide, monobactam, penicillin, tetracycline, rifampicin, macrolides, sulfonamide and nitrofuran classes of drugs and were also ESBL positive through phenotypic assay. Plasmid curing experiment detected possible plasmid mediated resistance of fluoroquinolone, cephalosporin, tetracycline, lincosamide and nitrofuran classes of antibiotics. Phylogenetically, isolate 26N and 28N were characterized as Escherichia coli and Escherichia fergusonii. These MDR and ESBL positive bacteria are potent to disseminate resistant determinants in the surrounding environments.

关键词： Clinical Waste Water Escherichia Multidrug Resistance ESBL Ciprofloxacin

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Prevalence of Antibiotic Resistant Bacteria on Tomato Surfaces and Effectiveness of Disinfectants in Reducing the Microbial Load

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Journal of Food Science and Engineering 2012年第5期2卷 293-300页

作者： Fauzia Ahmed Rupa munawar sultana Yasuhiro Inatsu Md. Latiful Bari Md. Anwar Hossain Department of Microbiology University of Dhaka Dhaka 1000 Bangladesh Food Hygiene Research Laboratory National Food Research Institute 2-1-12 KannondaL Tsukuba-shi Ibaraki 305-8642 Japan Food Analysis and Research Laboratory Center for Advanced Research in Sciences University of Dhaka Dhaka 1000Bangladesh

This study was conducted to isolate and identify antibiotic resistant bacteria in fresh tomato sold in three different local markets of Dhaka city. On an average 〉 5.0 log CFU/g of natural microbial populations and coliform bacteria was present in the samples. Prevalence of Salmonella spp., E. coli, Listeria spp., and Yersinia spp., were recorded through cultivation dependent assay of tomato samples of different markets. Almost all of the isolates were uniformly resistant to rifampicin, erythromycin, clindamycin and oxacillin （100%）, vancomycin （93%）, amoxicillin （87%）, whereas 60% of the isolates were found to be resistant to ampicillin and cephalexin. Antibiotic sensitivity test of the presumptive E. coli and Salmonella spp. and corresponding plasmid profiling indicated a correlation of plasmid mediated multidrug resistance （MDR） of these environmental bacteria. Washing with sanitizing agents such as acidified sodium chlorite （ASC） and 200 ppm chlorinated water was able to reduce _〈 2.0 log CFU/g of natural microflora and coliform bacteria. In contrast, ASC was able to reduce 〈 2.0 log CFU/g of other food borne pathogens and, chlorinated water was able to reduce up to undetectable level. Therefore, washing of tomato with 200 ppm chlorinated water could be useful in reducing the pathogen populations on tomatoes.

关键词： Antibiotic resistant bacteria acidified sodium chlorite chlorinated water E. coli O 157:H7 salmonella spp. tomato.

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