Isolation, characterization and molecular phylogeny of multiple metal tolerant and antibiotics resistant bacterial isolates from river Ganga, Varanasi, India

References

• American Public Health Association [APHA]. (1998). Standard methods for the examination of water and waste water. Washington, DC: Author.
   Google Scholar
• Anonymous. (2006). Jawaharlal Nehru National Urban Renewal Mission (JNNURM) (p. 69). Varanasi. Retrieved from http://jnnurm.nic.in/wpcontent/uploads/2011/01/PMSpeechOverviewE.pdf
   Google Scholar
• Arya, M., Joshi, G. K., Gupta, A. K., Kumar, A., & Raturi, A. (2015). Isolation and characterization of thermophilic bacterial strains from Soldhar (Tapovan) hot spring in Central Himalayan Region, India. Annals of Microbiology, 65, 1457–1464.10.1007/s13213-014-0984-y
   Web of Science ®Google Scholar
• Arzu, C. C., Nilgun, T., Birgul, O., & Cumhur, C. (2012). The genetic diversity of genus Bacillus and the related genera revealed by 16s rRNA gene sequences and ARDRA analyses isolated from geothermal regions of Turkey. Brazilian Journal of Microbiology, 43, 309–324.
   PubMed Web of Science ®Google Scholar
• Baik, K. S., Park, S. C., Kim, E. M., Bae, K. S., Ann, J. H., Ka, J. O., … Seong, C. N. (2008). Diversity of bacterial community in freshwater of Woopo wetland. The Journal of Microbiology, 46, 647–655.10.1007/s12275-008-0135-x
   PubMed Web of Science ®Google Scholar
• Baquero, F., Martínez, J. L., & Cantón, R. (2008). Antibiotics and antibiotic resistance in water environments. Current Opinion in Biotechnology, 19, 260–265.10.1016/j.copbio.2008.05.006
   PubMed Web of Science ®Google Scholar
• Bauer, A. W., Kirby, W. M. M., Sherris, J. C., & Turck, M. (1966). Antibiotic susceptibility testing by a standardized single disc method. American Journal of Clinical Pathology, 45, 493–591.
   PubMed Web of Science ®Google Scholar
• Bergey, D. H., & Breed, R. S. (1994). Biochemical identification of enterobacteriaceae. Bergey’s Manual of Determinative Bacteriology, 1, 416–417.
   Google Scholar
• Beveridge, T. J., & Doyle, R. (1989). Metal ions and bacteria. New York, NY: Wiley.
   Google Scholar
• Bolan, N., Kunhikrishnan, A., Thangarajan, R., Kumpiene, J., Park, J., Makino, T., … Scheckel, K. (2014). Remediation of heavy metal(loid)s contaminated soils – To mobilize or to immobilize? Journal of Hazardous Materials, 141–166.10.1016/j.jhazmat.2013.12.018
   PubMed Web of Science ®Google Scholar
• Claus, G. W. (1989). Understanding microbes: A laboratory textbook for microbiology. New York, NY: W.H. Freeman.
   Google Scholar
• Cole, J. R., Farris, R. J., Wang, Q., Kulam, S. A., McGarrell, D. M., Garrity, G. M., & Tiedje, J. M. (2005). The ribosomal database project (RDP-II): Sequences and tools for high-throughput rRNA analysis. Nucleic Acids Research, 33, 294–296.
   PubMed Web of Science ®Google Scholar
• Das, S., Patnaik, S. C., Sahu, H. K., Chakraborty, A., Sudarshan, M., & Thatoi, H. N. (2013). Heavy metal contamination, physico-chemical and microbial evaluation of water samples collected from chromite mine environment of Sukinda, India. Transactions of Nonferrous Metals Society of China, 23, 484–493.10.1016/S1003-6326(13)62489-9
   Web of Science ®Google Scholar
• Ehrlich, H. L., & Brierley, C. L. (1990). Microbial mineral recovery. New York, NY: McGraw-Hill.
   Google Scholar
• Facklam, R., & Elliott, J. A. (1995). Identification, classification, and clinical relevance of catalase-negative, gram-positive cocci, excluding the Streptococci and Enterococci. Clinical Microbiology Reviews, 8, 479–495.
   PubMed Web of Science ®Google Scholar
• Felsenstein, J. (1985). Phylogenies and the comparative method. The American Naturalist, 125, 1–15.10.1086/284325
   Web of Science ®Google Scholar
• Heyndrickx, M., Vauterin, L., Vandamme, P., Kersters, K., & De Vos, P. (1996). Applicability of combined amplified ribosomal DNA restriction analysis (ARDRA) patterns in bacterial phylogeny and taxonomy. Journal of Microbiological Methods, 26, 247–259.10.1016/0167-7012(96)00916-5
   Web of Science ®Google Scholar
• Indian Standard Drinking Water Specification (Second Revision) IS 10500. (2012). Retrieved from http://www.cgwb.gov.in/Documents/WQ-standards.pdf
   Google Scholar
• Industrial Directory (1981). Government of India ministry of micro, small & medium enterprises, brief industrial profile of Varanasi District (updated) 1981. Retrieved from http://dcmsme.gov.in/dips/DIP,%20Varanasi.pdf
   Google Scholar
• Isenberg, H. D., & Sundheim, L. H. (1958). Indole reactions in bacteria. Journal of Bacteriology Bacteriology, 75, 682–690.
   PubMed Web of Science ®Google Scholar
• Jawetz, E. (1989). Medical microbiology (18th ed.). San Mateo, CA: Appleton and Lange.
   Google Scholar
• Jukes, T. H., & Cantor, C. R. (1969). Evolution of protein molecules. In H. N. Munro (Ed.), Mammalian protein metabolism (pp. 21–132). New York, NY: Academic press.10.1016/B978-1-4832-3211-9.50009-7
   Google Scholar
• Konopka, A., Zakharova, T., Bischoff, M., Oliver, L., Nakatsu, C., & Turco, R. F. (1999). Microbial biomass and activity in lead-contaminated soil. Applied and Environmental Microbiology, 65, 2256–2259.
   PubMed Web of Science ®Google Scholar
• Kovacs, N. (1956). Identification of pseudomonas pyocyanea by the oxidase reaction. Nature, 178, 703.10.1038/178703a0
   PubMed Web of Science ®Google Scholar
• Kumarasamy, K. K., Toleman, M. A., Walsh, T. R., Bagaria, J., Butt, F., Balakrishnan, R., Chaudhary, U., … Woodford, N. (2010). Emergence of a new antibiotic resistance mechanism in India, Pakistan, and the UK: A molecular, biological, and epidemiological study. The Lancet Infectious Diseases, 10, 597–602.10.1016/S1473-3099(10)70143-2
   PubMed Web of Science ®Google Scholar
• Levy, S. B. (1997). Antibiotic resistance: An ecological imbalance. In D. J. Chadwick & J. Goode (Eds.), Antibiotic resistance: Origins, Evolution, Selection and Spread (pp. 1–9). Chichester: Wiley and Sons.
   Google Scholar
• Martínez-Murcia, A. J., Acinas, S. G., & Rodriguez-Valera, F. (1995). Evaluation of prokaryotic diversity by restrictase digestion of 16S rDNA directly amplified from hypersaline environments. FEMS Microbiology Ecology, 17, 247–255.10.1016/0168-6496(95)00029-A
   Web of Science ®Google Scholar
• Mishra, A., & Tripathi, B. D. (2007). Heavy metal contamination of soil and bioaccumulation in vegetables irrigated with treated waste water in the tropical city of Varanasi, India. Toxicological and Environmental Chemistry, 5, 861–871.
   Google Scholar
• Moyer, C. L., Tiedje, J. M., Dobbs, F. C., & Karl, D. M. (1996). A computer- simulated restriction fragment length polymorphism analysis of bacterial small-subunit rRNA genes: Efficacy of selected tetrameric restriction enzymes for studies of microbial diversity in nature. Applied and Environmental Microbiology, 62, 2501–2507.
   PubMed Web of Science ®Google Scholar
• Mukherjee, S., Kumar, D., Kumar, A. K., & Chakraborthy, R. (2013). 16S rRNA gene sequence analysis of the metagenome derived from water of river Mahananda at Siliguri. Indian Journal of Biotechnology, 12, 80–88.
   Web of Science ®Google Scholar
• Narasimhulu, K., Rao, S., & Venu Vinod, A. (2010). Isolation and Identifi cation of Bacterial Strains and Study of their Resistance to Heavy Metals and Antibiotics. Journal of Microbial and Biochemical Technology, 02, 074–076.10.4172/1948-5948
   Google Scholar
• Pandey, J., Shubhashish, K., & Pandey, R. (2010). Heavy metal contamination of Ganga River at Varanasi in relation to atmospheric deposition. Journal of Tropical Ecology, 51, 365–373.
   Google Scholar
• Rai, P. K., & Tripathi, B. D. (2008). Heavy metals in industrial wastewater, soil and vegetables in Lohta village, India. Toxicological and Environmental Chemistry, 90, 247–257.10.1080/02772240701458584
   Google Scholar
• Rai, P. K., Mishra, A., & Tripathi, B. D. (2010). Heavy metal and microbial pollution of the River Ganga: A case study of water quality at Varanasi. Aquatic Ecosystem and Health Management, 13, 352–361.10.1080/14634988.2010.528739
   Web of Science ®Google Scholar
• Saitou, N., & Nei, M. (1987). The neighbor-joining method: A new method for reconstructing phylogenetic trees. Molecular Biology and Evolution, 4, 406–425.
   PubMed Web of Science ®Google Scholar
• Sangu, R. P. S., & Sharma, S. K. (1987). An assessment of water quality of River Ganga at Garmukeshwar. Indian Journal of Ecology, 14, 278–281.
   Google Scholar
• Seeliger, H. P. R. (1955). Use of a urease test for the screening and identification of cryptococci. Journal of Bacteriology, 72, 127–131.
   Web of Science ®Google Scholar
• Stoppel, R. D., & Schlegel, H. G. (1995). Nickel-resistant bacteria from anthropogenically nickel-polluted and naturally nickel-percolated ecosystems. Applied and Environmental Microbiology, 61, 2276–2285.
   PubMed Web of Science ®Google Scholar
• Sun, L., Qiu, F., Zhang, X., Dai, X., Dong, X., & Song, W. (2008). Endophytic bacterial diversity in rice (Oryza sativa L.) roots estimated by 16S rDNA sequence analysis. Microbial Ecology, 55, 415–424.10.1007/s00248-007-9287-1
   PubMed Web of Science ®Google Scholar
• Tamura, K., Stecher, G., Peterson, D., Filipski, A., & Kumar, S. (2013). MEGA6: Molecular evolutionary genetics analysis version 6.0. Molecular Biology and Evolution, 30, 2725–2729.10.1093/molbev/mst197
   PubMed Web of Science ®Google Scholar
• Tenover, F. C., & McGowan, J. E. (1996). Reasons for the emergence of antibiotic resistance. The American Journal of the Medical Sciences, 311, 9–16.10.1016/S0002-9629(15)41625-8
   PubMed Web of Science ®Google Scholar
• Vaneechoutte, M., & Heyndrickx, M. (2001). Application and analysis of ARDRA patterns in bacterial identification, taxonomy and phylogeny. In L. Dijkshoorn, K. J. Towner, & M. Struelens (Eds.), New approaches for the generation and analysis of microbial typing data (pp. 211–247). Amsterdam: Elsevier.10.1016/B978-044450740-2/50010-1
   Google Scholar
• Vogel, A. I. (1978). A text book of quantitative inorganic analysis including elementary instrumental analysis (4th ed.., pp. 837, 328–329, 504–506). Londin: The English Language Book Society and Langman.
   Google Scholar
• Willems, A., Pot, B., Falsen, E., Vandamme, P., Gillis, M., Kersters, K., & De Ley, J. (1991). Polyphasic taxonomic study of the emended genus comamonas: Relationship to aquaspirillum aquaticum, E. Falsen group 10, and other clinical isolates. International Journal of Systematic Bacteriology, 41, 427–444.10.1099/00207713-41-3-427
   Google Scholar
• Woese, C. R. (1987). Bacterial evolution. Microbiological Reviews, 51, 221–271.
   PubMedGoogle Scholar
• World Health Organization [WHO]. (2002). The world health report. Geneva: Author.
   Google Scholar
• Yong, D., Lee, K., Yum, J. H., Shin, H. B., Rossolini, G. M., & Chong, Y. (2002). Imipenem-EDTA disk method for differentiation of metallo-beta-lactamase-producing clinical isolates of pseudomonas spp. and acinetobacter spp. Journal of Clinical Microbiology, 40, 3798–3801.10.1128/JCM.40.10.3798-3801.2002
   PubMed Web of Science ®Google Scholar
• Zeng, Y., Liu, W., Li, H., Yu, Y., & Chen, B. (2007). Effect of restriction endonucleases on assessment of biodiversity of cultivable polar marine planktonic bacteria by amplified ribosomal DNA restriction analysis. Extremophiles, 11, 685–692.10.1007/s00792-007-0086-x
   PubMed Web of Science ®Google Scholar