Dr.Md.Tanvir Rahman

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Mobile.  + 4917679254233

E.mail: tanvir.rahman@mpi-marburg.mpg.de

tanvirahman@gmail.com

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Dr.Md.Tanvir Rahman, DVM, MSc, PhD, Postdoc
Associate Professor
Department of Microbiology & Hygiene
Faculty of Veterinary Science
Bangladesh Agricultural University
Mymensingh-2202
Bangladesh.
E.mail: tanvir.rahman@mpi-marburg.mpg.de

Currently I am working as an Associate Professor in the Department of Microbiology and Hygiene at Bangladesh Agricultural University. My major responsibilities are teaching and supervision. In addition, I am also leading a research group working on microbial ecology, antibiotic resistance in bacteria and vaccine development.

Education
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Postdoc: Max Planck Institute for Terrestrial Microbiology, Germany.
PhD: University of Warwick, UK.
MSc: University of Guelph, Canada.
DVM: Bangladesh Agricultural University, Bangladesh.

Major Research Interest
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Microbial ecology, Virulence, Antibiotic resistance.

Research Experiences
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Worked on molecular ecology of methanogens as a postod at the Max Planck Institute for Terrestrial Microbiology at Marburg, Germany. During PhD at the University of Warwick, at UK, I worked on the development, validation and application of conventional and real-time (quantitative) PCR assays for the detection of Methylocella spp. which are facultative methane-utilizing bacteria from environmental samples. The global distribution, diversity and abundance of Methylocella in various environmental samples were determined using these assays. I also worked on the diagnostic DNA microarray for the detection of methanotrophs in various islands that are at different successional stages. In addition, I worked on the genomics and whole genome transcriptomics of Methylocella silvestris during growth on different substrates. Finally I worked on the effect of acetate on the ability of M. silvestris to utilize methane as carbon source in situ using DNA-Stable Isotope Probing (DNA-SIP) with 13C-labelled methane and/or acetate. At the University of Guelph, Canada during MSc I worked on the sequencing of the genome of Rhodococcus equi, which is an opportunistic intracellular pathogen of young foals. I developed a DNA microarray system and studied the gene expression patter of Rhodococcus equi during growth in vivo and in vitro. This study identified genes transcribed differentially in R. equi during growth in vivo (inside macrophages) that might be related with the virulence of these bacteria. During my DVM (Doctor of Veterinary Medicine) at Bangladesh Agricultural University, I worked on isolation, identification and characterization of microbial agents from animal, food and environments.

Publications
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1. Rahman, M.T., Crombie, A., Moussard, H., Chen, Y., and Murrell, J.C. (2011). Acetate repression of methane oxidation by supplemental Methylocella silvestris in a peat soil microcosm. Applied and Environmental Microbiology. 77: 4234-4236.

2. Rahman, M.T., Crombie, A., Chen, A., Stralis-Pavese, N., Bodrossy, L., McNamara, N.P., and Murrell, J.C. (2011). Distribution and abundance in the environment of the facultative methanotroph Methylocella. The ISME Journal. 5: 1061-1066.

3. Chen, Y., Crombie, A., Rahman, M.T., Dedysh, S.N., Liesack, W., Stott, M.B.,Alam, M., Theisen, A.R., Murrell, J.C., and Dunfield, P.F. (2010). Complete genome sequence of the aerobic facultative methanotroph Methylocella silvestris BL2. Journal of Bacteriology. 192: 3840-3841.

4. Chen, Y., Scanlan, J., Song, L., Crombie, A., Rahman, M.T., Schäfer, H., and Murrell, J.C. (2010). ?-glutamylmethylamide is an essential intermediate in the metabolism of methylamine by Methylocella silvestris. Applied and Environmental Microbiology. 76: 4530–4537.

5. Alam, M.J., Rahman, M.T., Siddique, M.P., Khan, M.F.R., and Rahman, M.B. (2010). Antibiogram and plasmid profile of E.coli isolates. International Journal of Bioresearch. 1:1-7.

6. Begum, H., Siddique, M.P., Shammi, S.J., Rahman, M.T., and Khan, M.S.R.(2009). Enteropathotypic. characterization of Escherichia coli isolated from diarrhoeic calves and their antibiogram study International Journal of Bioresearch. 2: 1-5.

7. Shammi, S.J., Siddique, M.P. Begum, H., Rahman, M., Begum, N,. Rahman, M.T., Khan, M.S.R. and Choudhury, K.A. (2009). Effects of various medicinal plant products on the growth of bacterial flora isolated from guineapigs. International Journal of Bioresearch. 2:27-31.

8. Hossain, M.T., Siddique, M.P., Hossain, F.M.A., Zinnah, M.A., Hossain, M.M., Alam, M.K., Rahman. M.T., and Choudhury. K.A. (2008). Isolation, identification, toxin profile and antibiogram of Escherichia coli isolated from broilers and layers in Mymensingh district of Bangladesh. Bangladesh Journal of Veterinary Medicine. 6: 1-5

9. Sukul, M., Khan, M.S.R., Rahman, M.T., and Begum, K. (2008).Immunogenicity of capsular extract prepared from a local duck isolate of Pasteurella multocida. Bangladesh Journal of Veterinary Medicine. 6:19-22.

10. Ruma, R.P., Haque, M.H., Zinnah, M.A., Hossain, M.T., Islam, Rahman, M.T., and Islam, M.A. (2008). Treatment of water from different sources for safe drinking of rural poultry and livestock of Bangladesh. Bangladesh Journal of Veterinary Medicine. 6:37–43.

11. Zinnah, M.A., Haque, M.H., Islam, M.T., Hossain, M.T., Bari, M.R., Babu, S.A.M., Rahman, M.T., and Islam, M.A. (2008). Drug sensitivity pattern of Escherichia coli isolated from samples of different biological and environmental sources. Bangladesh Journal of Veterinary Medicine. 6: 13–18.

12. Islam, M. J., Uddin, M.S., Islam, Nasrin, M.S., Nazir, K.H.M.N.H.., Rahman, M.T., and Alam, M.M. (2007). Prevalence of enterotoxigenic and toxic shock syndrome toxin-1 producing coagulase-positive Staphylococcus aureus in human and their characterization. Bangladesh Journal of Veterinary Medicine. 5:115-119.

13. Islam, M. J., Uddin, M.S., Islam, Nasrin, M.S., Nazir, K.H.M.N.H.., Rahman, M.T., and Alam, M.M. (2007). Detection and characterization of coagulase-positive Staphylococcus aureus from bovine origin producing enterotoxins and toxic shock syndrome toxin-1. The Bangladesh Veterinarian. 24:27-31.

14. Nooruddin, G M., Rahman, M.T., Mohammad, M., Rahman, M.M., (2007). Identification and characterization of hemagglutinating viruses in native chickens in Bangladesh. International Journal of Poultry Science. 6: 912-915.

15. Zinnah, Z.A., Bari, M.R., Islam, M.T., Hossain, M.T., Rahman, M.T., Haque, M.H., Babu, S.A.M., Ruma, R.P., and Islam, M A., (2007). Characterization of Escherichia coli collected from samples of different biological and environmental sources. Bangladesh Journal of Veterinary Medicine. 5: 25–32.

16. Hossneara, A., Khan, M.S.R., Islam, M.J., Nazir, K.H.M.N.H., and Rahman, M.T. (2007). Detection of colicinogenic Escherichia coli isolates and interrelatedness with their enteropathogenicity and antibiotic resistant pattern. Journal of The Bangladesh Society for Agricultural Science and Technology. 4: 173-176.

17. Nasrin, M.S., Islam, M.J., Nzair, K.H.M.N.H., Choudhury, K.A. ,and Rahman, M.T. (2007). Isolation, identification and characterization of bacteria and determination of their load in adult layer and its environment. Journal of The Bangladesh Society for Agricultural Science and Technology. 4: 69-72.

18. Begum, H.A., Uddin, M.S., Islam, M.J., Nazir, K.H.M.N.H., Islam, M.A., and Rahman, M.T. (2007). Detection of biofilm producing coagulase positive Staphylococcus aureus from bovine mastitis, their pigment production, hemolytic activity and antibiotic sensitivity pattern. Journal of The Bangladesh Society for Agricultural Science and Technology. 4: 97-100.

19. Rahman, M.T., Kobayashi, N., and Alam, M.M. (2005). Genetic analysis of mecA homologues in Staphylococcus sciuri strains derived from mastitis in dairy cattle. Microbial Drug Resistance. 11: 205-214.

20. Rahman, M.T., Parreira, V.P., and Prescott, J.F. (2005). In vitro and intra-macrophage gene expression by Rhodococcus equi strain 103. Veterinary Microbiology. 110: 131-140.

21. Rahman, M.T., Herron L.L., Kapur, V., Meijer. W.G., Byrne, B.A., Ren, J., Nicholson, V.M., and Prescott, J.F.(2003). Partial genome sequencing of Rhodococcus equi ATCC 33701. Veterinary Microbiology. 94: 143-58.

22. Talukder, M.H., Karim, M.J., Rahman, M.T., and Hossain, M.M. (2000). Effects of concurrent infections of Eimeria tenella with some bacteria and viruses in broiler chicks. The Bangladesh Veterinarian. 17: 21-26.

23. Rahman, M.T., Rahman, M.M., and Islam, M.A. (1999). Distribution and prevalence of chloramphenicol resistant Staphylococcus aureus in bakery food and environment. The Bangladesh Veterinarian. 16: 12-14.

24. Rahman, M.T., Saha, S., and Islam, M.A. (1999). Prevalence of Salmonella in poultry feed of Mymensingh, Bangladesh. The Bangladesh Veterinarian. 16: 45-46.

25. Hossain, S., Saha, S., Rahman, M.T., Choudhury K.A., and Das. P.M. (1999). Clinico-pathological findings of experimentally induced Pasteurella multocida infection in White Leghorn Chickens. Bangladesh Veterinary Journal. 33: 41-47.

26. Rahman, M.T., Rahman, M.M., and Islam, M.A. (1998). Prevalence of enterotoxigenic food borne pathogens traced to bakery foods. Progressive Agriculture. 9: 135-137.

27. Rahman, M.T., Rahman, M.M., and Islam, M.A., (1998). Bacteriological monitoring of bakery foods and its environment. Bangladesh Veterinary Journal. 32: 27-32.

28. Sorker, A.S., Rahman, M.T., Hasim, M.A., and Rahman, A. (1998). Clinico-therapeutic study of abscess. Progressive Agriculture. 9: 201-203.

29. Ali, M.Y., Rahman, M.T., Chaudhory, K.A., and Rahman, M.A. (1998). Characteristics of E. coli isolate of human and animal origin. Progressive Agriculture. 9: 221-224.

30. Hossain, S., Rahman, M.T., Saha, S., Choudhury, K.A., and Das, P.M. (1998). Affinity pattern of Pasteurella multocida infection in different organs and tissues in White Leghorn Chickens. Bangladesh Veterinary Journal. 32: 118-123.

Manuscripts in Preparation

1. Rahman, M.T., Gregge, R., McNamara, N.P., and Murrell, J.C. (2012). Diversity of methanotrophs in Swedish island forest soil that are at different successional stages.

2. Rahman, M.T., Crombie, A., Chen, Y., and Murrell, J.C. (2012). Whole genome transcriptomics of Methylocella silvestris BL2.


Journal articles

2011	DOI PMID M Tanvir Rahman, Andrew Crombie, Hélène Moussard, Yin Chen, J Colin Murrell (2011) Acetate represses methane oxidation by Methylocella silvestris in a peat soil microcosm. Appl Environ Microbiol 77: 2. 4234-4236 Apr Abstract: Methylocella are facultative methanotrophs that grow on methane and multi-carbon substrates such as acetate. Acetate represses transcription of methane monooxygenase of M. silvestris in laboratory culture. DNA-SIP using (13)C- methane and (12)C-acetate, carried out with Methylocella-spiked peat soil, showed that acetate also repressed methane oxidation by Methylocella in environmental samples. Notes:
	DOI PMID Md Tanvir Rahman, Andrew Crombie, Yin Chen, Nancy Stralis-Pavese, Levente Bodrossy, Patrick Meir, Niall P McNamara, J Colin Murrell (2011) Environmental distribution and abundance of the facultative methanotroph Methylocella. ISME J 5: 6. 1061-1066 Jun Abstract: Methylocella spp. are facultative methanotrophs, which are able to grow not only on methane but also on multicarbon substrates such as acetate, pyruvate or malate. Methylocella spp. were previously thought to be restricted to acidic soils such as peatlands, in which they may have a key role in methane oxidation. There is little information on the abundance and distribution of Methylocella spp. in the environment. New primers were designed, and a real-time quantitative PCR method was developed and validated targeting Methylocella mmoX (encoding the Î±-subunit of the soluble methane monooxygenase) that allowed the quantification of Methylocella spp. in environmental samples. We also developed and validated specific PCR assays, which target 16S rRNA genes of known Methylocella spp. These were used to investigate the distribution of Methylocella spp. in a variety of environmental samples. It was revealed that Methylocella species are widely distributed in nature and not restricted to acidic environments. Notes:
2010	DOI PMID Yin Chen, Andrew Crombie, M Tanvir Rahman, Svetlana N Dedysh, Werner Liesack, Matthew B Stott, Maqsudul Alam, Andreas R Theisen, J Colin Murrell, Peter F Dunfield (2010) Complete genome sequence of the aerobic facultative methanotroph Methylocella silvestris BL2. J Bacteriol 192: 14. 3840-3841 Jul Abstract: Methylocella silvestris BL2 is an aerobic methanotroph originally isolated from an acidic forest soil in Germany. It is the first fully authenticated facultative methanotroph. It grows not only on methane and other one-carbon (C(1)) substrates, but also on some compounds containing carbon-carbon bonds, such as acetate, pyruvate, propane, and succinate. Here we report the full genome sequence of this bacterium. Notes:
	DOI PMID Yin Chen, Julie Scanlan, Lijiang Song, Andrew Crombie, M Tanvir Rahman, Hendrik Schäfer, J Colin Murrell (2010) {gamma}-Glutamylmethylamide is an essential intermediate in the metabolism of methylamine by Methylocella silvestris. Appl Environ Microbiol 76: 13. 4530-4537 Jul Abstract: Methylocella silvestris BL2, a facultative methane utilizer, can grow on monomethylamine (MMA) as a sole carbon and nitrogen source. No activity of MMA dehydrogenase was detectable. Instead, this bacterium utilizes a methylated amino acid pathway (gamma-glutamylmethylamide [GMA] and N-methylglutamate [NMG]) for MMA metabolism. The activities of the two key enzymes in this pathway, GMA synthetase and NMG dehydrogenase, were found when the bacterium was grown on MMA. GMA was detected by high-performance liquid chromatography-mass spectrometry only when the bacterium was grown on MMA but not when it was grown on methanol. Proteomic analysis of soluble and membrane fractions of the proteome from MMA- and methanol-grown cultures revealed that an eight-gene cluster (Msil2632 to Msil2639) was induced by MMA and cotranscribed as an operon, as shown by reverse transcription-PCR. GMA-dissimilating enzyme activity was also detected when it was grown on MMA. Formaldehyde and ammonium production from GMA was dependent on glutamate but not on alpha-ketoglutarate. Marker exchange mutagenesis of a putative GMAS gene homologue (gmas, Msil2635) within this eight-gene cluster, with a kanamycin gene cassette, abolished growth of M. silvestris on MMA as either a sole carbon or a sole nitrogen source. Overall, our results suggest that gmas is essential in MMA metabolism by M. silvestris. Notes:
2005	DOI PMID Md Tanvir Rahman, Valeria Parreira, John F Prescott (2005) In vitro and intra-macrophage gene expression by Rhodococcus equi strain 103. Vet Microbiol 110: 1-2. 131-140 Sep Abstract: Rhodococcus equi is a facultative intracellular respiratory pathogen of foals that persists and multiplies within macrophages. In foals, virulence is associated with 80-90 kb plasmids, which include a pathogenicity island (PI) containing the virulence-associated protein (vap) gene family, but detailed understanding of the basis of virulence is still poor. A 60 spot-based DNA microarray was developed containing eight PI genes and 42 chromosomal putative virulence or virulence-associated genes selected from a recent partial genome sequence in order to study transcription of these genes by R. equi grown inside macrophages and under in vitro conditions thought to simulate those of macrophages. In addition to seven PI genes, nine chromosomal genes involved in fatty acid and lipid metabolism (choD, fadD13, fbpB), heme biosynthesis (hemE), iron utilization (mbtF), heat shock resistance and genes encoding chaperones (clpB, groEL), a sigma factor (sigK), and a transcriptional regulator (moxR) were significantly induced in R. equi growing inside macrophages. The pattern of R. equi chromosomal genes significantly transcribed inside macrophages largely differed from those transcribed under in vitro conditions (37 degrees C, pH 5.0 or 50mM H2O2 for 30 min). This study has identified genes, other than those of the virulence plasmid, the transcription of which is enhanced within equine macrophages. These genes should be investigated further to improve understanding of how this organism survives intracellularly. Notes:
	DOI PMID Mohammed Tanvir Rahman, Nobumichi Kobayashi, Mohammed Mahbub Alam, Masaho Ishino (2005) Genetic analysis of mec A homologues in Staphylococcus sciuri strains derived from mastitis in dairy cattle. Microb Drug Resist 11: 3. 205-214 Abstract: Methicillin-resistant Staphylococcus aureus (MRSA) is defined by the presence of the mec A gene, which is considered to have been transferred horizontally from unknown bacterial species to S. aureus. As a candidate of evolutionary precursor of the mec A, the mec A-like gene (mec A homologue), which is ubiquitously present in Staphylococcus sciuri has been proposed. In this study, sequences of the mec A homologue in four S. sciuri strains (SCBM 1-SCBM 4) derived from dairy cows were determined to analyze their genetic characteristics and relatedness to mec A and the mec A homologue reported so far. The mec A-like gene sequences of the four S. sciuri strains were identical with each other and were considered to encode a product comprising 665 amino acids that is one amino acid smaller in size than products of mec A-like gene reported previously for S. sciuri strains K1, K1 1, and K3 (mec A1). The mec A homologue of a representative strain SCBM 1 showed 79.3--79.8% sequence identity to MRSA mec A and 93.4--94.4% identity to mec A homologues reported for the three S. sciuri strains. Between S. sciuri strain SCBM 1 and strains K1, K1 1, or K3, amino acid sequence identities in transpeptidase domain of the mec A-like gene product (98.2--98.5%) were higher than those in the transglycosylase domain (92.1--94.3%). In addition, SCBM 1 showed extremely high sequence identities of hsp 60, sodA, and rpoB genes (more than 98.7%) to S. sciuri strains, while showing 70.3--94.2% identity of these genes to other staphylococcal species. These findings indicated that mec A homologues in S. sciuri may be genetically more divergent than mec A in MRSA and methicillin-resistant coagulase-negative staphylococci. Notes:
2003	PMID M T Rahman, L L Herron, V Kapur, W G Meijer, B A Byrne, J Ren, V M Nicholson, J F Prescott (2003) Partial genome sequencing of Rhodococcus equi ATCC 33701. Vet Microbiol 94: 2. 143-158 Jul Abstract: Preliminary analysis of a partial (30% coverage) genome sequence of Rhodococcus equi has revealed a number of important features. The most notable was the extent of the homology of genes identified with those of Mycobacterium tuberculosis. The similarities in the proportion of genes devoted to fatty acid degradation and to lipid biosynthesis was a striking but not surprising finding given the relatedness of these organisms and their success as intracellular pathogens. The rapid recent improvement in understanding of virulence in M. tuberculosis and other pathogenic mycobacteria has identified a large number of genes of putative or proven importance in virulence, homologs of many of which were also identified in R. equi. Although R. equi appears to have currently unique genes, and has important differences, its similarity to M. tuberculosis supports the need to understand the basis of virulence in this organism. The partial genome sequence will be a resource for workers interested in R. equi until such time as a full genome sequence has been characterized. Notes:
PhD theses

	Md Tanvir Rahman Molecular ecology of facultative methanotrophs. University of Warwick, UK Abstract: Notes:
Masters theses

	Md Tanvir Rahman Genes transcribed by Rhodococcus equi inside macrophages and under selected environmental conditions University of Guelph, Canada Abstract: Notes:

Journal articles

PhD theses

Masters theses