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Items: 1 to 50 of 159

1.

Development of mCherry tagged UdgX as a highly sensitive molecular probe for specific detection of uracils in DNA.

Datta M, Aroli S, Karmakar K, Dutta S, Chakravortty D, Varshney U.

Biochem Biophys Res Commun. 2019 Aug 9. pii: S0006-291X(19)31507-4. doi: 10.1016/j.bbrc.2019.08.005. [Epub ahead of print]

PMID:
31402116
2.

SIRT6 transcriptionally regulates global protein synthesis through transcription factor Sp1 independent of its deacetylase activity.

Ravi V, Jain A, Khan D, Ahamed F, Mishra S, Giri M, Inbaraj M, Krishna S, Sarikhani M, Maity S, Kumar S, Shah RA, Dave P, Pandit AS, Rajendran R, Desingu PA, Varshney U, Das S, Kolthur-Seetharam U, Rajakumari S, Singh M, Sundaresan NR.

Nucleic Acids Res. 2019 Aug 2. pii: gkz648. doi: 10.1093/nar/gkz648. [Epub ahead of print]

PMID:
31372634
3.

Correction for Kapoor et al., "Functional Significance of an Evolutionarily Conserved Alanine (GCA) Resume Codon in tmRNA in Escherichia coli".

Kapoor S, Samhita L, Varshney U.

J Bacteriol. 2019 Jul 10;201(15). pii: e00325-19. doi: 10.1128/JB.00325-19. Print 2019 Aug 1. No abstract available.

4.

Covalent binding of uracil DNA glycosylase UdgX to abasic DNA upon uracil excision.

Ahn WC, Aroli S, Kim JH, Moon JH, Lee GS, Lee MH, Sang PB, Oh BH, Varshney U, Woo EJ.

Nat Chem Biol. 2019 Jun;15(6):607-614. doi: 10.1038/s41589-019-0289-3. Epub 2019 May 17.

PMID:
31101917
5.

Rapid formylation of the cellular initiator tRNA population makes a crucial contribution to its exclusive participation at the step of initiation.

Shah RA, Varada R, Sah S, Shetty S, Lahry K, Singh S, Varshney U.

Nucleic Acids Res. 2019 Feb 28;47(4):1908-1919. doi: 10.1093/nar/gky1310.

6.

Rewiring of one carbon metabolism in Salmonella serves as an excellent live vaccine against systemic salmonellosis.

Datey A, Shreenivas M, Chandrasekharan G, Joseph J, Sah S, Aluri S, Saha S, Varshney U, Chakravortty D.

Vaccine. 2018 Nov 29;36(50):7715-7727. doi: 10.1016/j.vaccine.2018.10.079. Epub 2018 Oct 29.

PMID:
30385055
7.

Structural insights into the specificity and catalytic mechanism of mycobacterial nucleotide pool sanitizing enzyme MutT2.

Singh A, Mohammad Arif S, Biak Sang P, Varshney U, Vijayan M.

J Struct Biol. 2018 Dec;204(3):449-456. doi: 10.1016/j.jsb.2018.10.002. Epub 2018 Oct 9.

PMID:
30312643
8.

Diagnostic validation of IgM and IgG ELISA and real-time PCR in detecting scrub typhus infection in endemic regions.

Rawat V, Singh RK, Kumar A, Singh Y, Chaturvedi P, Saxena SR, Varshney U.

J Vector Borne Dis. 2018 Apr-Jun;55(2):165-167. doi: 10.4103/0972-9062.242565. No abstract available.

9.

Sustenance of Escherichia coli on a single tRNAMet.

Govindan A, Ayyub SA, Varshney U.

Nucleic Acids Res. 2018 Nov 30;46(21):11566-11574. doi: 10.1093/nar/gky859.

10.

Development of Assay Systems for Amber Codon Decoding at the Steps of Initiation and Elongation in Mycobacteria.

Govindan A, Miryala S, Mondal S, Varshney U.

J Bacteriol. 2018 Oct 23;200(22). pii: e00372-18. doi: 10.1128/JB.00372-18. Print 2018 Nov 15.

11.

Antimicrobial activity of fusidic acid in Escherichia coli is dependent on the relative levels of ribosome recycling factor and elongation factor G.

Ayyub SA, Lahry K, Dobriyal D, Mondal S, Varshney U.

FEMS Microbiol Lett. 2018 Jul 1;365(13). doi: 10.1093/femsle/fny133.

PMID:
29846570
12.

Utilisation of 10-formyldihydrofolate as substrate by dihydrofolate reductase (DHFR) and 5-aminoimidazole-4-carboxamide ribonucleotide (AICAR) tranformylase/IMP cyclohydrolase (PurH) in Escherichia coli.

Sah S, Shah RA, Govindan A, Varada R, Rex K, Varshney U.

Microbiology. 2018 May 25. doi: 10.1099/mic.0.000671. [Epub ahead of print]

PMID:
29799386
13.

AlzhaTV: A nonpharmacological intervention to manage behavioral and psychological symptoms in nursing home dementia patients.

Varshney SU, Varshney JU, Tampi RR, McCall WV, Varshney U.

Ann Clin Psychiatry. 2018 May;30(2):122-132.

PMID:
29697713
14.

Distinct properties of a hypoxia specific paralog of single stranded DNA binding (SSB) protein in mycobacteria.

Singh A, Vijayan M, Varshney U.

Tuberculosis (Edinb). 2018 Jan;108:16-25. doi: 10.1016/j.tube.2017.10.002. Epub 2017 Oct 3.

PMID:
29523318
15.

Species-Specific Interactions of Arr with RplK Mediate Stringent Response in Bacteria.

Agrawal P, Varada R, Sah S, Bhattacharyya S, Varshney U.

J Bacteriol. 2018 Feb 23;200(6). pii: e00722-17. doi: 10.1128/JB.00722-17. Print 2018 Mar 15.

16.

Epidemiological, clinical and laboratory profile of scrub typhus cases detected by serology and RT-PCR in Kumaon, Uttarakhand: a hospital-based study.

Rawat V, Singh RK, Kumar A, Saxena SR, Varshney U, Kumar M.

Trop Doct. 2018 Apr;48(2):103-106. doi: 10.1177/0049475517743891. Epub 2017 Nov 24.

PMID:
29173047
17.

Coevolution of the translational machinery optimizes initiation with unusual initiator tRNAs and initiation codons in mycoplasmas.

Ayyub SA, Dobriyal D, Shah RA, Lahry K, Bhattacharyya M, Bhattacharyya S, Chakrabarti S, Varshney U.

RNA Biol. 2018 Jan 2;15(1):70-80. doi: 10.1080/15476286.2017.1377879. Epub 2017 Sep 29.

18.

Fidelity of translation in the presence of mammalian mitochondrial initiation factor 3.

Ayyub SA, S L A, Dobriyal D, Aluri S, Spremulli LL, Varshney U.

Mitochondrion. 2018 Mar;39:1-8. doi: 10.1016/j.mito.2017.08.006. Epub 2017 Aug 10.

PMID:
28804013
19.

Hydrolysis of diadenosine polyphosphates. Exploration of an additional role of Mycobacterium smegmatis MutT1.

Arif SM, Varshney U, Vijayan M.

J Struct Biol. 2017 Sep;199(3):165-176. doi: 10.1016/j.jsb.2017.07.002. Epub 2017 Jul 10.

PMID:
28705712
20.

Biochemical and structural studies of Mycobacterium smegmatis MutT1, a sanitization enzyme with unusual modes of association.

Arif SM, Patil AG, Varshney U, Vijayan M.

Acta Crystallogr D Struct Biol. 2017 Apr 1;73(Pt 4):349-364. doi: 10.1107/S2059798317002534. Epub 2017 Mar 31.

PMID:
28375146
21.

Uracil DNA glycosylase (UDG) activities in Bradyrhizobium diazoefficiens: characterization of a new class of UDG with broad substrate specificity.

Chembazhi UV, Patil VV, Sah S, Reeve W, Tiwari RP, Woo E, Varshney U.

Nucleic Acids Res. 2017 Jun 2;45(10):5863-5876. doi: 10.1093/nar/gkx209.

22.

Contributions of the N- and C-Terminal Domains of Initiation Factor 3 to Its Functions in the Fidelity of Initiation and Antiassociation of the Ribosomal Subunits.

Ayyub SA, Dobriyal D, Varshney U.

J Bacteriol. 2017 May 9;199(11). pii: e00051-17. doi: 10.1128/JB.00051-17. Print 2017 Jun 1.

23.

Two highly conserved features of bacterial initiator tRNAs license them to pass through distinct checkpoints in translation initiation.

Shetty S, Shah RA, Chembazhi UV, Sah S, Varshney U.

Nucleic Acids Res. 2017 Feb 28;45(4):2040-2050. doi: 10.1093/nar/gkw854.

24.

The IDL of E. coli SSB links ssDNA and protein binding by mediating protein-protein interactions.

Bianco PR, Pottinger S, Tan HY, Nguyenduc T, Rex K, Varshney U.

Protein Sci. 2017 Feb;26(2):227-241. doi: 10.1002/pro.3072. Epub 2017 Jan 26.

25.

An evolutionarily conserved element in initiator tRNAs prompts ultimate steps in ribosome maturation.

Shetty S, Varshney U.

Proc Natl Acad Sci U S A. 2016 Oct 11;113(41):E6126-E6134. Epub 2016 Oct 3.

26.

Structure of the second Single Stranded DNA Binding protein (SSBb) from Mycobacterium smegmatis.

Singh A, Varshney U, Vijayan M.

J Struct Biol. 2016 Dec;196(3):448-454. doi: 10.1016/j.jsb.2016.09.012. Epub 2016 Sep 19.

PMID:
27659385
27.

Evolution of initiator tRNAs and selection of methionine as the initiating amino acid.

Bhattacharyya S, Varshney U.

RNA Biol. 2016 Sep;13(9):810-9. doi: 10.1080/15476286.2016.1195943. Epub 2016 Jun 20.

28.

The Termination Phase in Protein Synthesis is not Obligatorily Followed by the RRF/EF-G-Dependent Recycling Phase.

Qin B, Yamamoto H, Ueda T, Varshney U, Nierhaus KH.

J Mol Biol. 2016 Sep 11;428(18):3577-87. doi: 10.1016/j.jmb.2016.05.019. Epub 2016 May 31.

PMID:
27261258
30.

A unique uracil-DNA binding protein of the uracil DNA glycosylase superfamily.

Sang PB, Srinath T, Patil AG, Woo EJ, Varshney U.

Nucleic Acids Res. 2015 Sep 30;43(17):8452-63. doi: 10.1093/nar/gkv854. Epub 2015 Aug 24.

31.

Structural plasticity in Mycobacterium tuberculosis uracil-DNA glycosylase (MtUng) and its functional implications.

Arif SM, Geethanandan K, Mishra P, Surolia A, Varshney U, Vijayan M.

Acta Crystallogr D Biol Crystallogr. 2015 Jul;71(Pt 7):1514-27. doi: 10.1107/S1399004715009311. Epub 2015 Jun 30.

PMID:
26143923
32.

Simultaneous presence of fhs and purT genes is disadvantageous for the fitness of Escherichia coli growth.

Aluri S, Rex K, Varshney U.

FEMS Microbiol Lett. 2015 Jul;362(14). pii: fnv101. doi: 10.1093/femsle/fnv101. Epub 2015 Jun 22.

PMID:
26100103
33.

Is the cellular initiation of translation an exclusive property of the initiator tRNAs?

Shetty S, Bhattacharyya S, Varshney U.

RNA Biol. 2015;12(7):675-80. doi: 10.1080/15476286.2015.1043507.

34.

Impact of Mutating the Key Residues of a Bifunctional 5,10-Methylenetetrahydrofolate Dehydrogenase-Cyclohydrolase from Escherichia coli on Its Activities.

Sah S, Varshney U.

Biochemistry. 2015 Jun 9;54(22):3504-13. doi: 10.1021/acs.biochem.5b00400. Epub 2015 May 28.

PMID:
25988590
35.

Use of Mycobacterium smegmatis deficient in ADP-ribosyltransferase as surrogate for Mycobacterium tuberculosis in drug testing and mutation analysis.

Agrawal P, Miryala S, Varshney U.

PLoS One. 2015 Apr 13;10(4):e0122076. doi: 10.1371/journal.pone.0122076. eCollection 2015.

36.

One-carbon metabolic pathway rewiring in Escherichia coli reveals an evolutionary advantage of 10-formyltetrahydrofolate synthetase (Fhs) in survival under hypoxia.

Sah S, Aluri S, Rex K, Varshney U.

J Bacteriol. 2015 Feb 15;197(4):717-26. doi: 10.1128/JB.02365-14. Epub 2014 Dec 1.

37.

Paralogous cAMP receptor proteins in Mycobacterium smegmatis show biochemical and functional divergence.

Sharma R, Zaveri A, Gopalakrishnapai J, Srinath T, Varshney U, Visweswariah SS.

Biochemistry. 2014 Dec 16;53(49):7765-76. doi: 10.1021/bi500924v. Epub 2014 Dec 1. Erratum in: Biochemistry. 2015 Jan 20;54(2):630. Thiruneelakantan, Srinath [corrected to Srinath, Thiruneelakantan].

PMID:
25434596
38.

An extended Shine-Dalgarno sequence in mRNA functionally bypasses a vital defect in initiator tRNA.

Shetty S, Nadimpalli H, Shah RA, Arora S, Das G, Varshney U.

Proc Natl Acad Sci U S A. 2014 Oct 7;111(40):E4224-33. doi: 10.1073/pnas.1411637111. Epub 2014 Sep 22.

40.

How many initiator tRNA genes does Escherichia coli need?

Samhita L, Nanjundiah V, Varshney U.

J Bacteriol. 2014 Jul;196(14):2607-15. doi: 10.1128/JB.01620-14. Epub 2014 May 9.

41.

A genetic analysis of the functional interactions within Mycobacterium tuberculosis single-stranded DNA binding protein.

Rex K, Bharti SK, Sah S, Varshney U.

PLoS One. 2014 Apr 10;9(4):e94669. doi: 10.1371/journal.pone.0094669. eCollection 2014.

42.

Crystallization and preliminary X-ray characterization of MutT2, MSMEG_5148 from Mycobacterium smegmatis.

Arif SM, Sang PB, Varshney U, Vijayan M.

Acta Crystallogr F Struct Biol Commun. 2014 Feb;70(Pt 2):190-2. doi: 10.1107/S2053230X13033906. Epub 2014 Jan 21.

43.

Molecular flexibility of Mycobacterium tuberculosis ribosome recycling factor and its functional consequences: an exploration involving mutants.

Selvaraj M, Govindan A, Seshadri A, Dubey B, Varshney U, Vijayan M.

J Biosci. 2013 Dec;38(5):845-55.

PMID:
24296887
44.

Hypersensitivity of hypoxia grown Mycobacterium smegmatis to DNA damaging agents: implications of the DNA repair deficiencies in attenuation of mycobacteria.

Rex K, Kurthkoti K, Varshney U.

Mech Ageing Dev. 2013 Oct;134(10):516-22. doi: 10.1016/j.mad.2013.08.006. Epub 2013 Sep 4.

PMID:
24012630
45.

Initiation with elongator tRNAs.

Samhita L, Virumäe K, Remme J, Varshney U.

J Bacteriol. 2013 Sep;195(18):4202-9. doi: 10.1128/JB.00637-13. Epub 2013 Jul 12.

46.

Role of the ribosomal P-site elements of m²G966, m⁵C967, and the S9 C-terminal tail in maintenance of the reading frame during translational elongation in Escherichia coli.

Arora S, Bhamidimarri SP, Weber MH, Varshney U.

J Bacteriol. 2013 Aug;195(16):3524-30. doi: 10.1128/JB.00455-13. Epub 2013 May 31.

47.

Distinctive contributions of the ribosomal P-site elements m2G966, m5C967 and the C-terminal tail of the S9 protein in the fidelity of initiation of translation in Escherichia coli.

Arora S, Bhamidimarri SP, Bhattacharyya M, Govindan A, Weber MH, Vishveshwara S, Varshney U.

Nucleic Acids Res. 2013 May;41(9):4963-75. doi: 10.1093/nar/gkt175. Epub 2013 Mar 25.

48.
49.

Medication adherence for patients with mental illness.

Varshney U, Vetter R.

Conf Proc IEEE Eng Med Biol Soc. 2012;2012:2182-5. doi: 10.1109/EMBC.2012.6346394.

PMID:
23366355
50.

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