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Number of items: 75.

Journal Article

Samhita, Laasya and Virumaee, Kai and Remme, Jaanus and Varshney, Umesh (2013) Initiation with Elongator tRNAs. In: Journal of Bacteriology, 195 (18). pp. 4202-4209.

Arora, Smriti and Bhamidimarri, Satya Prathyusha and Bhattacharyya, Moitrayee and Govindan, Ashwin and Weber, Michael HW and Vishveshwara, Saraswathi and Varshney, Umesh (2013) Distinctive contributions of the ribosomal P-site elements m(2)G966, m(5)C967 and the C-terminal tail of the S9 protein in the fidelity of initiation of translation in Escherichia coli. In: Nucleic Acids Research, 41 (9). pp. 4963-4975.

Patil, Aravind Goud G and Sang, Pau Biak and Govindan, Ashwin and Varshney, Umesh (2013) Mycobacterium tuberculosis mutT1 (Rv2985) and ADPRase (Rv1700) proteins constitute a two-stage mechanism of 8-Oxo-dGTP and 8-Oxo-GTP detoxification and adenosine to cytidine mutation avoidance. In: Journal of Biological Chemistry, 288 (16). pp. 11252-11262.

Sang, Pau Biak and Varshney, Umesh (2013) Biochemical Properties of MutT2 Proteins from Mycobacterium tuberculosis and M. smegmatis and Their Contrasting Antimutator Roles in Escherichia coli. In: JOURNAL OF BACTERIOLOGY, 195 (7). pp. 1552-1560.

Parikh, Amit and Kumar, Devanand and Chawla, Yogesh and Kurthkoti, Krishna and Khan, Shazia and Varshney, Umesh and Nandicoori, Vinay K (2013) Development of a New Generation of Vectors for Gene Expression, Gene Replacement, and Protein-Protein Interaction Studies in Mycobacteria. In: APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 79 (5). pp. 1718-1729.

Rex, Kervin and Kurthkoti, Krishna and Varshney, Umesh (2013) Hypersensitivity of hypoxia grown Mycobacterium smegmatis to DNA damaging agents: Implications of the DNA repair deficiencies in attenuation of mycobacteria. In: MECHANISMS OF AGEING AND DEVELOPMENT, 134 (10, SI). pp. 516-522.

Arora, Smriti and Bhamidimarri, Satya Prathyusha and Weber, Michael HW and Varshney, Umesh (2013) Role of the Ribosomal P-Site Elements of m(2)G966, m(5)C967, and the S9 C-Terminal Tail in Maintenance of the Reading Frame during Translational Elongation in Escherichia coli. In: JOURNAL OF BACTERIOLOGY, 195 (16). pp. 3524-3530.

Samhita, Laasya and Shetty, Sunil and Varshney, Umesh (2012) Unconventional initiator tRNAs sustain Escherichia coli. In: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 109 (32). pp. 13058-13063.

Kurthkoti, Krishna and Varshney, Umesh (2012) Distinct mechanisms of DNA repair in mycobacteria and their implications in attenuation of the pathogen growth. In: MECHANISMS OF AGEING AND DEVELOPMENT, 133 (4, SI). pp. 138-146.

Selvaraj, M and Ahmad, Rais and Varshney, Umesh and Vijayan, M (2012) Structures of new crystal forms of Mycobacterium tuberculosis peptidyl-tRNA hydrolase and functionally important plasticity of the molecule. In: Acta Crystallographica Section F, 68 (Part 2). pp. 124-128.

Selvaraj, M and Ahmad, Rais and Varshney, Umesh and Vijayan, M (2012) Crowding, molecular volume and plasticity: An assessment involving crystallography, NMR and simulations. In: JOURNAL OF BIOSCIENCES, 37 (6). pp. 953-963.

Bharti, Sanjay Kumar and Rex, Kervin and Sreedhar, Pujari and Krishnan, Neeraja and Varshney, Umesh (2011) Chimeras of Escherichia coli and Mycobacterium tuberculosis Single-Stranded DNA Binding Proteins: Characterization and Function in Escherichia coli. In: PLoS One, 6 (12).

Kurthkoti, Krishna and Varshney, Umesh (2011) Base excision and nucleotide excision repair pathways in mycobacteria. In: Tuberculosis, 91 (6). pp. 533-543.

Kumar, Pradeep and Bharti, Sanjay Kumar and Varshney, Umesh (2011) Uracil excision repair in Mycobacterium tuberculosis cell-free extracts. In: Tuberculosis, 91 (3). pp. 212-218.

Kapoor, Suman and Das, Gautam and Varshney, Umesh (2011) Crucial contribution of the multiple copies of the initiator tRNA genes in the fidelity of tRNA(fMet) selection on the ribosomal P-site in Escherichia coli. In: Nucleic Acids Research, 39 (1). pp. 202-212.

Kapoor, Suman and Samhita, Laasya and Varshney, Umesh (2011) Functional Significance of an Evolutionarily Conserved Alanine (GCA) Resume Codon in tmRNA in Escherichia coli. In: Journal of Bacteriology, 193 (14). pp. 3569-3576.

Kurthkoti, Krishna and Varshney, Umesh (2010) Detrimental Effects of Hypoxia-Specific Expression of Uracil DNA Glycosylase (Ung) in Mycobacterium smegmatis. In: Journal of Bacteriology, 192 (24). pp. 6439-6446.

Seshadri, Anuradha and Singh, Sadananda N and Varshney, Umesh (2010) Recycling of the Posttermination Complexes of Mycobacterium smegmatis and Escherichia coli Ribosomes Using Heterologous Factors. In: Journal of Molecular Biology, 401 (5). pp. 854-865. (In Press)

Kaushal, Prem Singh and Talawar, Ramappa K and Varshney, Umesh and Vijayan, M (2010) Structure of uracil-DNA glycosylase from Mycobacterium tuberculosis: insights into interactions with ligands. In: Acta Crystallographica Section F, 66 (Part 8). pp. 887-892.

Malshetty, Vidyasagar and Kurthkoti, Krishna and China, Arnab and Mallick, Bratati and Yamunadevi, Subburaj and Sang, Pau Biak and Srinivasan, Narayanaswamy and Nagaraja, Valakunja and Varshney, Umesh (2010) Novel insertion and deletion mutants of RpoB that render Mycobacterium smegmatis RNA polymerase resistant to rifampicin-mediated inhibition of transcription. In: Microbiology, 156 (Part 5). pp. 1565-1573.

Bharti, Sanjay Kumar and Varshney, Umesh (2010) Analysis of the impact of a uracil DNA glycosylase attenuated in AP-DNA binding in maintenance of the genomic integrity in Escherichia coli. In: Nucleic Acids Research, 38 (7). pp. 2291-2301.

Malshetty, Vidyasagar S and Jain, Ruchi and Srinath, Thiruneelakantan and Kurthkoti, Krishna and Varshney, Umesh (2010) Synergistic effects of UdgB and Ung in mutation prevention and protection against commonly encountered DNA damaging agents in Mycobacterium smegmatis. In: Microbiology, 156 (Part 3). pp. 940-949.

Kurthkoti, Krishna and Srinath, Thiruneelakantan and Kumar, Pradeep and Malshetty, Vidyasagar S and Sang, Pau Biak and Jain, Ruchi and Manjunath, Ramanathapuram and Varshney, Umesh (2010) A distinct physiological role of MutY in mutation prevention in mycobacteria. In: Microbiology, 156 (Part 1). pp. 88-98.

Seshadri, Anuradha and Samhita, Laasya and Gaur, Rahul and Malshetty, Vidyasagar and Varshney, Umesh (2009) Analysis of the fusA2 locus encoding EFG2 in Mycobacterium smegmatis. In: Tuberculosis, 89 (6). pp. 453-464.

Kurthkoti, Krishna and Kumar, Pradeep and Jain, Ruchi and Varshney, Umesh (2008) Important role of the nucleotide excision repair pathway in Mycobacterium smegmatis in conferring protection against commonly encountered DNA-damaging agents. In: MICROBIOLOGY-SGM, 154 (Part 9). pp. 2776-2785.

Singh, Nongmaithem Sadananda and Ahmad, Rais and Sangeetha, Ramachandran and Varshney, Umesh (2008) Recycling of Ribosomal Complexes Stalled at the Step of Elongation in Escherichia coli. In: Journal of Molecular Biology, 380 (3). pp. 451-464.

Das, Gautam and Thotala, Dinesh Kumar and Kapoor, Suman and Karunanithi, Sheelarani and Thakur, Suman S and Singh, N Sadananda and Varshney, Umesh (2008) Role of 16S ribosomal RNA methylations in translation initiation in Escherichia coli. In: EMBO Journal, 27 (6). pp. 840-851.

Gaur, Rahul and Grasso, Domenick and Datta, Partha P and Krishna, PDV and Das, Gautam and Spencer, Angela and Agrawal, Rajendra K and Spremulli, Linda and Varshney, Umesh (2008) A Single Mammalian Mitochondrial Translation Initiation Factor Functionally Replaces Two Bacterial Factors. In: Molecular Cell, 29 (2). pp. 180-190.

Kaushal, Prem S and Talawar, Ramappa K and Krishna, PDV and Varshney, Umesh and Vijayan, M (2008) Unique features of the structure and interactions of mycobacterial uracil-DNA glycosylase: structure of a complex of the Mycobacterium tuberculosis enzyme in comparison with those from other sources. In: Acta Crystallographica Section D: Biological Crystallography, 41 (4). pp. 551-560.

Jain, Ruchi and Kumar, Pradeep and Varshney, Umesh (2007) A distinct role of formamidopyrimidine DNA glycosylase (MutM) in down-regulation of accumulation of G, C mutations and protection against oxidative stress in mycobacteria. In: DNA Repair, 6 (12). pp. 1774-1785.

Kachroo, Aashiq H and Kancherla, Aswani K and Singh, Nongmaithem S and Varshney, Umesh and Mahadevan, Subramony (2007) Mutations that alter the regulation of the chb operon of Escherichia coli allow utilization of cellobiose. In: Molecular Microbiology, 66 (6). pp. 1382-1395.

Srinath, Thiruneelakantan and Bharti, Sanjay Kumar and Varshney, Umesh (2007) Substrate specificities and functional characterization of a thermo-tolerant uracil DNA glycosylase (UdgB) from Mycobacterium tuberculosis. In: DNA Repair, 6 (10). pp. 1517-1528.

Selvaraj, M and Roy, S and Sangeetha, R and Varshney, Umesh and Vijayan, M (2007) Structural plasticity and enzyme action: Crystal structures of Mycobacterium tuberculosis peptidyl-tRNA hydrolase. In: Journal of Molecular Biology, 372 (1). pp. 186-193.

Gaur, Rahul and Bjork, Glenn R and Tuck, Simon and Varshney, Umesh (2007) Diet-dependent depletion of queuosine in tRNAs in Caenorhabditis elegans does not lead to a developmental block. In: Journal of Biosciences, 32 (4). pp. 747-754.

Grasso, Domenick Gabriel and Gaur, Rahul and Varshney, Umesh and Spremulli, Linda L (2007) Role of the insertion region in mammalian mitochondrial initiation factor 2 in translational initiation. In: FASEB Journal, 21 (5). 514.3.

Singh, Prem and Talawar, Ramappa K and Krishna, PDV and Varshney, Umesh and Vijayan, M (2006) Overexpression, purification, crystallization and preliminary X-ray analysis of uracil N-glycosylase from Mycobacterium tuberculosis in complex with a proteinaceous inhibitor. In: Acta Crystallographica Section F: Structural Biology and Crystallization Communications, 62 (12). pp. 1231-1234.

Selvaraj, M and Singh, NS and Roy, Siddhartha and Sangeetha, R and Varshney, Umesh and Vijayan, M (2006) Cloning, expression, purification, crystallization and preliminary X-ray analysis of peptidyl-tRNA hydrolase from Mycobacterium tuberculosis. In: Acta Crystallographica Section F, 62 (9). pp. 913-915.

Das, Gautam and Varshney, Umesh (2006) Peptidyl-tRNA hydrolase and its critical role in protein biosynthesis. In: Microbiology, 152 (8). pp. 2191-2195.

Seshadri, Anuradha and Varshney, Umesh (2006) Mechanism of recycling of post-termination ribosomal complexes in eubacteria: a new role of initiation factor 3. In: Journal Of Biosciences, 31 (2). pp. 281-289.

Gaur, Rahul and Varshney, Umesh (2005) Genetic Analysis Identifies a Function for the queC(ybax)Gene Product at an Initial Step in the Queuosine Biosynthetic Pathway in Escherichia coli. In: Journal of Bacteriology, 187 (20). pp. 6893-6901.

Das, Gautam and Dineshkumar, TK and Thanedar, Swapan and Varshney, Umesh (2005) Acquisition of a Stable Mutation in Mety Allows Efficient Initiation from an Amber Codon in Escherichia Coli. In: Microbiology, 151 . pp. 1741-1750.

Kumar, Pradeep and Krishna, Kurthkoti and Srinivasan, Ramanujam and Ajitkumar, Parthasarathi and Varshney, Umesh (2004) Mycobacterium tuberculosis and Escherichia coli nucleoside diphosphate kinases lack multifunctional activities to process uracil containing DNA. In: DNA Repair, 3 (11). pp. 1483-1492.

Kumar, Pradeep and Krishna, Kurthkoti and Srinivasan, Ramanujam and kumar, Parthasarathi Ajit and Varshney, Umesh (2004) Uracil excision repair pathway activities are not intrinsic to nucleoside diphosphate kinases from Mycobacterium tuberculosis and Escherichia coli. In: DNA Repair, 3 (11). pp. 1483-1492.

Singh, Nongmaithem Sadananda and Varshney, Umesh (2004) A physiological connection between tmRNA and peptidyl-tRNA hydrolasefunctions in Escherichia coli. In: Nucleic Acids Research, 32 (20). pp. 6028-6037.

Acharya, Narottam and Talawar, Ramappa K and Purnapatre, Kedar and Varshney, Umesh (2004) Use of sequence microdivergence in mycobacterial ortholog to analyze contributions of the water-activating loop histidine of Escherichia coli uracil–DNA glycosylase in reactant binding and catalysis. In: Biochemical and Biophysical Research Communications, 320 (3). pp. 893-899.

Acharya, Narottam and Kumar, Pradeep and Varshney, Umesh (2003) Complexes of the uracil-DNA glycosylase inhibitor protein, Ugi, with Mycobacterium smegmatis and Mycobacterium tuberculosis uracil-DNA glycosylases. In: Microbiology- SGM, 149 (7). pp. 1647-1658.

Venkatesh, Jeganathan and Kumar, Pradeep and Sai Murali Krishna, Pulukuri and Manjunath, Ramanathapuram and Varshney, Umesh (2003) Importance of Uracil DNA Glycosylase in Pseudomonas aeruginosa and Mycobacterium smegmatis, G+C-rich Bacteria, in Mutation Prevention, Tolerance to Acidified Nitrite, and Endurance in Mouse Macrophages. In: Journal of Biological Chemistry, 278 (27). pp. 24350-24358.

Acharya, Narottam and Talawar, Ramappa K and Saikrishnan, K and Vijayan, M and Varshney, Umesh (2003) Substitutions at tyrosine 66 of Escherichia coli uracil DNA glycosylase lead to characterization of an efficient enzyme that is recalcitrant to product inhibition. In: Nucleic Acids Research, 31 (24). pp. 7216-7226.

Rao, Arasada R and Varshney, Umesh (2002) Characterization of Mycobacterium tuberculosis ribosome recycling factor (RRF) and a mutant lacking six amino acids from the C-terminal end reveals that the C-terminal residues are important for its occupancy on the ribosome. In: Microbiology, 148 (12). pp. 3913-3920.

Dineshkumar, TK and Thanedar, Swapna and Subbulakshmi, C and Varshney, Umesh (2002) An unexpected absence of queuosine modification in the tRNAs of an Escherichia coli B strain. In: Microbiology, 148 (12). pp. 3779-3787.

Dastur, Anahita and Kumar, Pradeep and Ramesh, Sneha and Vasanthakrishna, Mundodi and Varshney, Umesh (2002) Analysis of the initiator tRNA genes from a slow- and a fast-growing mycobacterium. In: Archives of Microbiology, 178 (4). pp. 288-296.

Handa, Priya and Acharya, Narottam and Talawar, Ramappa K and Roy, Sudipta and Varshney, Umesh (2002) Contrasting effects of mutating active site residues, Aspartic acid 64 and Histidine 187 of Escherichia coli uracil-DNA glycosylase on uracil excision and interaction with an inhibitor protein. In: Indian Journal of Biochemistry & Biophysics, 39 (5). pp. 312-317.

Acharya, Narottam and Roy, Sudipta and Varshney, Umesh (2002) Mutational Analysis of the Uracil DNA Glycosylase Inhibitor Protein and Its Interaction with Escherichia coli Uracil DNA Glycosylase. In: Journal of Molecular Biology, 321 (4). pp. 579-590.

Acharya, Narottam and Varshney, Umesh (2002) Biochemical Properties of Single-Stranded DNA-Binding Protein from Mycobacterium smegmatis, a Fast-growing Mycobacterium and Its Physical and Functional Interaction with Uracil DNA Glycosylases. In: Journal of Molecular Biology, 318 (5). pp. 1251-1264.

Handa, Priya and Acharya, Narottam and Varshney, Umesh (2002) Effects of mutations at tyrosine 66 and asparagine 123 in the active site pocket of Escherichia coli uracil DNA glycosylase on uracil excision from synthetic DNA oligomers: evidence for the occurrence of long-range interactions between the enzyme and substrate. In: Nucleic-Acids-Research, 30 (14). pp. 3086-3095.

Ghosh, Mahua and Rumpal, Nidhi and Varshney, Umesh and Chary, Kandala VR (2002) Structural basis for poor uracil excision from hairpin DNA. In: European Journal of Biochemistry, 269 (7). pp. 1886-1894.

Thomas, Mini and Varshney, Umesh and Bhattacharya, Santanu (2002) Distamycin Analogues without Leading Amide at Their N-Termini-Comparative Binding Properties to AT- and GC-Rich DNA Sequences. In: European Journal of Organic Chemistry, 2002 (21). pp. 3604-3615.

Thanedar, Swapna and Dineshkumar, TK and Varshney, Umesh (2001) The mere lack of rT modification in initiator tRNA does not facilitate formylation-independent initiation in Escherichia coli. In: Journal of Bacteriology, 183 (24). pp. 7397-7402.

Gupta, Amrita and Kumar, Hari P and Dineshkumar, TK and Varshney, Umesh and Subramanya, Hosahalli S (2001) Crystal structure of Rv2118c: an AdoMet-dependent methyltransferase from Mycobacterium tuberculosis H37Rv. In: Journal of Molecular Biology, 312 (2). pp. 381-391.

Rao, Arasada Rajeswara and Varshney, Umesh (2001) Specific interaction between the ribosome recycling factor and the elongation factor G from Mycobacterium tuberculosis mediates peptidyl-tRNA release and ribosome recycling in Escherichia coli. In: The EMBO Journal, 20 (11). pp. 2977-2986.

Thomas, Mini and Rao, Arasada Rajeswara and Varshney, Umesh and Bhattacharya, Santanu (2001) Unusual DNA binding exhibited by synthetic distamycin analogues lacking the N-terminal amide unit under high salt conditions. In: Journal Of Biomolecular Structure & Dynamics, 18 (6). pp. 858-871.

Handa, Priya and Roy, Sudipta and Varshney, Umesh (2001) The role of leucine 191 of Escherichia coli uracil DNA glycosylase in the formation of a highly stable complex with the substrate mimic, Ugi, and in uracil excision from the synthetic substrates. In: Journal of Biological Chemistry, 276 (20). pp. 17324-17331.

Handa, Priya and Acharya, Narottam and Thanedar, Swapna and Purnapatre, Kedar and Varshney, Umesh (2000) Distinct properties of Mycobacterium tuberculosis single stranded DNA binding protein and its functional characterization in Escherichia coli. In: Nuclic Acids Research, 28 (19). pp. 3823-3829.

Thanedar, Swapna and Kumar, Vinay N and Varshney, Umesh (2000) The fate of the initiator tRNAs is sensitive to the critical balance between interacting proteins. In: Journal of Biological Chemistry, 275 (27). pp. 20361-20367.

Ghosh, Mahua and Kumar, Vinay N and Varshney, Umesh and Chary, KVR (2000) Structural basis for uracil DNA glycosylase interaction with uracil: NMR study. In: Nucleic Acids Research, 28 (9). pp. 1906-1912.

Ghosh, Mahua and Kumar, NV and Kumar, Vinay N and Varshney, Umesh (1999) Structural characterisation of a uracil containing hairpin DNA by NMR and molecular dynamics. In: Nucleic Acids Research, 27 (19). pp. 3938-3944.

Purnapatre, Kedar and Varshney, Umesh (1999) Cloning, over-expression and biochemical characterization of the single-stranded dna binding protein from Mycobacterium tuberculosis. In: European Journal of Biochemistry, 264 (2). pp. 591-598.

Purnapatre, Kedar and Handa, Priya and Venkatesh, Jeganathan and Varshney, Umesh (1999) Differential effects of single-stranded DNA binding proteins (SSBs) on uracil DNA glycosylases (UDGs) from Escherichia coli and mycobacteria. In: Nucleic Acids Research, 27 (17). pp. 3487-3492.

Reddy, Bhanuprakash G and Purnapatre, Kedar and Lawrence, Rajendran and Roy, Sudipta and Varshney, Umesh and Surolia, Avadhesha (1999) Linear free-energy model description of the conformational stability of uracil-DNA glycosylase inhibitor. In: European Journal of Biochemistry, 261 (3). pp. 610-617.

Purnapatre, Kedar and Varshney, Umesh (1998) Uracil DNA glycosylase from Mycobacterium smegmatis and its distinct biochemical properties. In: European Journal of Biochemistry, 256 (3). pp. 580-588.

Roy, Sudipta and Purnapatre, Kedar and Handa, Priya and Boyanapalli, Madanamohan and Varshney, Umesh (1998) Use of a coupled transcriptional system for consistent overexpression and purification of UDG-Ugi complex and Ugi from Escherichia coli. In: Protein Expression and Purification, 13 (2). pp. 155-162.

Mandal, Subhrangsu S and Varshney, Umesh and Bhattacharya, Santanu (1997) Role of the Central Metal Ion and Ligand Charge in the DNA Binding and Modification by Metallosalen Complexes. In: Bioconjugate Chemistry, 8 (6). pp. 798-812.

Mandal, Subhrangsu S and Vinay Kumar, N and Varshney, Umesh and Bhattacharya, Santanu (1996) Metal-Ion-Dependent Oxidative DNA Cleavage by Transition Metal Complexes of a New Water-Soluble Salen Derivative. In: Journal of Inorganic Biochemistry, 63 (04). pp. 265-272.

Li, Shihong and Kumar, Vinay N and Varshney, Umesh and RajBhandary, Uttam L (1996) Important role of the amino acid attached to tRNA in formylation and in initiation of protein synthesis in Escherichia coli. In: Journal of Biological Chemistry, 271 (2). pp. 1022-1028. (In Press)

Editorials/Short Communications

Varshney, Umesh (2006) Foreword - The history that brought it all alive. In: Journal Of Biosciences, 31 (4, Sp.). pp. 437-438.

This list was generated on Thu Apr 17 18:52:10 2014 IST.