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Phylogenetic analysis and biological characteristic tests of marine bacteria isolated from Southern Ocean(Indian sector)water

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Acta Oceanologica Sinica 2015年第8期34卷 73-82页

作者： GUPTA Pratibha BALAJI Raju PARANI M CHANDRA T S SHUKLA P KUMAR Anil bandopadhyay rajib Department of Bio-Engineering Birla Institute of Technology Department of Genetic Engineering Kattankulathur Campus SRM University Microbiology and Genetics Laboratory Department of Biotechnology Indian Institute of Technology Madras Department of Microbiology Maharshi Dayanand University OSSG Department National Centre for Antarctic and Ocean Research Ministry of Earth Sciences Government of India UGC Centre of Advanced Study Department of Botany the University of Burdwan

Fifty-seven bacteria were isolated from Southern Ocean （Indian sector） water samples which were collected from different latitude and longitude of the ocean. All the isolates were able to grow at 4℃, 20℃, 37℃ and tolerable NaCI concentration up to 13.5% （w/v）. 29 out of 57 isolates were identified using 16S rDNA amplification and the sequences were submitted to National Center for Biotechnology Information （NCBI）. All the isolates were classified by using Ribosomal Database Project （RDP） and found that isolates belongs to Proteobacteria and Bacteriodes. The average G＋C content was 56.4%. The isolates were screened for the presence of extracellular enzymes, viz. amylase, catalase, urease, esterase, lipase and protease. The disc diffusion method is used to screen antibiotic production by the isolates against four pathogenic bacteria, viz. Salmonella typhimurium （NCIM 2501）, Staphylococcus aureus （NCIM 2122）, Bacillus subtilis （NCIM 2193）, and Pseudomonas aeruginosa （NCIM 2036）. Nine out of 29 were found to be antibiotic producer.

关键词： Southern Ocean marine bacteria 16S rDNA phylogenetic tree antibacterial

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Use of methylation filtration and Cot fractionation for analysis of genome composition and comparative genomics in bread wheat

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Journal of Genetics and Genomics 2011年第7期38卷 315-325页

作者： rajib bandopadhyay Sachin Rustgi Rajat Kanti Chaudhuri Paramjit Khuran Jitendra Paul Khurana Akhilesh Kumar Tyagi Harindra Singh Balyan Andreas Houben Pushpendra Kumar Gupta Department of Genetics & Plant Breeding Ch. Charan Singh University Meerut 250004 India Department of Biotechnology Birla Institute of Technology Mesra 835215 Ranchi India Department of Crop & Soil Sciences Washington State University Pullman 99163 USA Department of Botany University of Calcutta Kolkata 700019 India Department of Plant Molecular Biology University of Delhi South Campus New Delhi 110021 India Leibniz Institute of Plant Genetics and Crop Plant Research Corrensstrasse-03 Gatersleben 06466 Germany

We investigated the compositional and structural differences in sequences derived from different fractions of wheat genomic DNA obtained using methylation filtration and Cot fractionation. Comparative analysis of these sequences revealed large compositional and structural variations in terms of GC content, different structural elements including repeat sequences （e.g., transposable elements and simple sequence repeats）, protein coding genes, and non-coding RNA genes. A correlation between methylation status [determined on the basis of selective inclusion/ exclusion in methylation-filtered （MF） library] of different repeat elements and expression level was observed. The expression levels were determined by comparing MF sequences with expressed sequence tags （ESTs） available in the public domain. Only a limited overlap among ME high Cot （HC）, and ESTs was observed, suggesting that these sequences may largely either represent the low-copy non-transcribed sequences or include genes with low expression levels. Thus, these results indicated a need to study MF and HC sequences along with ESTs to fully appreciate complexity of wheat gene space.

关键词： Methylation--filtration Cot fractionation Transposable elements Gene-rich regions

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