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Gupta C, Das S, Rai G, Singh PK, Dar S, Ansari MA. 1731. Immune Dysregulation in Mucormycosis. Open Forum Infect Dis 2019. [PMCID: PMC6808671 DOI: 10.1093/ofid/ofz360.1594] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Abstract
Background
Mucormycosis is a fatal fungal infection with unique predisposition to infect diabetics. Dysregulated adaptive immunity contributes to the pathogenesis in all fungal diseases, but activated Th17 cells have laid a new dimension to chronic inflammatory response which was previously attributed to uncontrolled Th1 response. We attempted to study the Th17 and T regulatory (Treg) immune response in diabetic patients with mucormycosis and compared the data with a healthy control and a T2DM case without fungal infection. In addition we could follow-up one patient post 6-month treatment and performed immunological studies.
Methods
2 mL of blood samples were collected in EDTA vial from two patients who were suffering from diabetes with mucormycosis for immunological investigations. Samples were also taken from age-matched T2DM patient without fungal infection and a healthy volunteer as controls for T-cell parameters. Repeat blood sample was taken to study immune parameters in one patient who was followed up after 6 months. The expression of various T-cell markers was analyzed by immunostaining with the antibodies against CD3, CD4, CD25, CD161, IL-23R [Becton Dickinson (BD) PharMingen]. Fluorescence profiles were analyzed using Flow Jo software (BD Biosciences). The results are expressed as a percentage of positive cells.
Results
The percentages of CD4+ cells were low in both patients when compared with and healthy control but it is much higher in diabetes case when compared with others. CD161+ cell population was higher in both patients when compared with healthy control and diabetic patient without fungal infection. The percentage of IL23R+ cells was significantly high in patient before treatment when compared with, healthy control and diabetics. and decline after treatment. The percentage positivity of CD25+ cells was highest in healthy control when compared with others. The profile of CD25+ cells was comparatively similar in patient before treatment and diabetics but we found a higher percentage, in patients after treatment.
Conclusion
The findings in this study imminently indicate the mechanism of immune dysregulation involving Th17 and Treg pathways in mucormycosis and provide evidence that restoration of Th17/Treg may be considered as a therapeutic option for long-term benefit in diabetics.
Disclosures
All authors: No reported disclosures.
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Affiliation(s)
| | | | | | | | - Sajad Dar
- Jazan University, Jizan, Saudi Arabia
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52
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Gupta A, Singh PK, Sharma P, Kaur P, Sharma S, Singh TP. Structural and biochemical studies of phosphopantetheine adenylyltransferase from Acinetobacter baumannii with dephospho-coenzyme A and coenzyme A. Int J Biol Macromol 2019; 142:181-190. [PMID: 31525415 DOI: 10.1016/j.ijbiomac.2019.09.090] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2019] [Revised: 09/11/2019] [Accepted: 09/11/2019] [Indexed: 11/29/2022]
Abstract
Phosphopantetheine adenylyl transferase catalyzes a rate limiting penultimate step of the multistep reaction which produces coenzyme A (CoA) as a final product. CoA is required as an essential cofactor in a number of metabolic reactions. Therefore inhibiting the function of this enzyme will lead to cell death in bacteria. Acinetobacter baumannii is multi drug resistant pathogen and causes infections in immunocompromised patients. AbPPAT has been cloned, expressed, purified and crystallized and structures of two complexes of AbPPAT with dephospho coenzyme A (dPCoA) and coenzyme A (CoA) have been determined. Both dPCoA and CoA molecules are observed in the substrate binding site of AbPPAT. A comparison with the structures of the complexes of PPAT from other species shows that the orientations of dPCoA are identical in all the structures. On the other hand, as observed from the structures of the complexes of CoA with PPAT, the orientations of CoA are found to differ considerably. This shows that the substrates occupy identical positions in the substrate binding sites of enzymes whereas the positions of inhibitors may differ. The binding studies carried out using fluorescence method and surface plasmon resonance techniques showed that binding affinity of CoA towards AbPPAT is nearly three times higher than that of dPCoA.
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Affiliation(s)
- A Gupta
- Department of Biophysics, All India Institute of Medical Sciences, New Delhi, India
| | - P K Singh
- Department of Biophysics, All India Institute of Medical Sciences, New Delhi, India
| | - P Sharma
- Department of Biophysics, All India Institute of Medical Sciences, New Delhi, India
| | - P Kaur
- Department of Biophysics, All India Institute of Medical Sciences, New Delhi, India
| | - S Sharma
- Department of Biophysics, All India Institute of Medical Sciences, New Delhi, India
| | - T P Singh
- Department of Biophysics, All India Institute of Medical Sciences, New Delhi, India.
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53
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Mudawal A, Srivastava A, Singh A, Shankar J, Yadav S, Mishra M, Singh PK, Khanna VK, Parmar D. Corrigendum to 'Proteomic approaches to investigate age related vulnerability to lindane induced neurodegenerative effects in rats' [Food Chem. Toxicol.] 115 (2018) 499-510. Food Chem Toxicol 2019; 133:110752. [PMID: 31431304 DOI: 10.1016/j.fct.2019.110752] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Affiliation(s)
- A Mudawal
- Developmental Toxicology Laboratory, Systems Toxicology & Health Risk Assessment Group, CSIR-Indian Institute of Toxicology Research (IITR), Vishvigyan Bhavan, 31, M.G. Marg, Lucknow, 226 001, U.P., India; Academy of Scientific & Innovative Research (AcSIR), New Delhi, India
| | - A Srivastava
- Developmental Toxicology Laboratory, Systems Toxicology & Health Risk Assessment Group, CSIR-Indian Institute of Toxicology Research (IITR), Vishvigyan Bhavan, 31, M.G. Marg, Lucknow, 226 001, U.P., India
| | - A Singh
- Developmental Toxicology Laboratory, Systems Toxicology & Health Risk Assessment Group, CSIR-Indian Institute of Toxicology Research (IITR), Vishvigyan Bhavan, 31, M.G. Marg, Lucknow, 226 001, U.P., India
| | - J Shankar
- Microscopy Laboratory, CSIR-Indian Institute of Toxicology Research, Vishvigyan Bhavan, 31, M.G. Marg, Lucknow, 226 001, U.P., India
| | - S Yadav
- Developmental Toxicology Laboratory, Systems Toxicology & Health Risk Assessment Group, CSIR-Indian Institute of Toxicology Research (IITR), Vishvigyan Bhavan, 31, M.G. Marg, Lucknow, 226 001, U.P., India
| | - M Mishra
- Plant Molecular Biology Laboratory, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, 226 001, India
| | - P K Singh
- Plant Molecular Biology Laboratory, CSIR-National Botanical Research Institute, Rana Pratap Marg, Lucknow, 226 001, India
| | - V K Khanna
- Developmental Toxicology Laboratory, Systems Toxicology & Health Risk Assessment Group, CSIR-Indian Institute of Toxicology Research (IITR), Vishvigyan Bhavan, 31, M.G. Marg, Lucknow, 226 001, U.P., India
| | - D Parmar
- Developmental Toxicology Laboratory, Systems Toxicology & Health Risk Assessment Group, CSIR-Indian Institute of Toxicology Research (IITR), Vishvigyan Bhavan, 31, M.G. Marg, Lucknow, 226 001, U.P., India.
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Dreisigacker S, Sharma RK, Huttner E, Karimov A, Obaidi MQ, Singh PK, Sansaloni C, Shrestha R, Sonder K, Braun HJ. Tracking the adoption of bread wheat varieties in Afghanistan using DNA fingerprinting. BMC Genomics 2019; 20:660. [PMID: 31426740 PMCID: PMC6699131 DOI: 10.1186/s12864-019-6015-4] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2019] [Accepted: 08/05/2019] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Wheat is the most important staple crop in Afghanistan and accounts for the main part of cereal production. However, wheat production has been unstable during the last decades and the country depends on seed imports. Wheat research in Afghanistan has emphasized releases of new, high-yielding and disease resistant varieties but rates of adoption of improved varieties are uncertain. We applied DNA fingerprinting to assess wheat varieties grown in farmers' fields in four Afghan provinces. RESULTS Of 560 samples collected from farmers' fields during the 2015-16 cropping season, 74% were identified as varieties released after 2000, which was more than the number reported by farmers and indicates the general prevalence of use of improved varieties, albeit unknowingly. At the same time, we found that local varieties and landraces have been replaced and were grown by 4% fewer farmers than previously reported. In 309 cases (58.5%), farmers correctly identified the variety they were growing, while in 219 cases (41.5%) farmers did not. We also established a reference library of released varieties, elite breeding lines, and Afghan landraces, which confirms the greater genetic diversity of the landraces and their potential importance as a genetic resource. CONCLUSIONS Our study is the first in wheat to apply DNA fingerprinting at scale for an accurate assessment of wheat varietal adoption and our findings point up the importance of DNA fingerprinting for accuracy in varietal adoption studies.
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Affiliation(s)
- S Dreisigacker
- International Maize and Wheat Improvement Center (CIMMYT), Km45 Carretera Mexico-Veracruz, 56237, Texcoco, Mexico.
| | - R K Sharma
- CIMMYT, #118, Lane-3, West of Bahristan Park, Kabul, Afghanistan.
| | - E Huttner
- Australian Center for International Agricultural Research (ACIAR), 38 Thynne Street, Bruce, ACT 2617, Australia
| | - A Karimov
- CIMMYT-Turkey P.K. 39 Emek, 06511, Ankara, Turkey
| | - M Q Obaidi
- Agricultural Research Institute of Afghanistan (ARIA), Badam Bagh Agriculture Research Farm, Kabul, Afghanistan
| | - P K Singh
- International Maize and Wheat Improvement Center (CIMMYT), Km45 Carretera Mexico-Veracruz, 56237, Texcoco, Mexico
| | - C Sansaloni
- International Maize and Wheat Improvement Center (CIMMYT), Km45 Carretera Mexico-Veracruz, 56237, Texcoco, Mexico
| | - R Shrestha
- International Maize and Wheat Improvement Center (CIMMYT), Km45 Carretera Mexico-Veracruz, 56237, Texcoco, Mexico
| | - K Sonder
- International Maize and Wheat Improvement Center (CIMMYT), Km45 Carretera Mexico-Veracruz, 56237, Texcoco, Mexico
| | - H-J Braun
- International Maize and Wheat Improvement Center (CIMMYT), Km45 Carretera Mexico-Veracruz, 56237, Texcoco, Mexico
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Singh L, Dubey R, Singh S, Goel R, Nair S, Singh PK. Measuring quality of antenatal care: a secondary analysis of national survey data from India. BJOG 2019; 126 Suppl 4:7-13. [DOI: 10.1111/1471-0528.15825] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 05/15/2019] [Indexed: 11/27/2022]
Affiliation(s)
- L Singh
- ICMR – National Institute of Medical StatisticsNew Delhi India
| | - R Dubey
- ICMR – National Institute of Medical StatisticsNew Delhi India
| | - S Singh
- Division of Reproductive Biology, Maternal and Child Health Indian Council of Medical Research (ICMR) New Delhi India
| | - R Goel
- Division of Reproductive Biology, Maternal and Child Health Indian Council of Medical Research (ICMR) New Delhi India
| | - S Nair
- ICMR – National Institute of Medical StatisticsNew Delhi India
| | - PK Singh
- Division of Preventive Oncology, ICMR – National Institute of Cancer Prevention and ResearchNoida India
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Gago-Córdoba C, Val-Calvo J, Miguel-Arribas A, Serrano E, Singh PK, Abia D, Wu LJ, Meijer WJJ. Surface Exclusion Revisited: Function Related to Differential Expression of the Surface Exclusion System of Bacillus subtilis Plasmid pLS20. Front Microbiol 2019; 10:1502. [PMID: 31354647 PMCID: PMC6635565 DOI: 10.3389/fmicb.2019.01502] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2019] [Accepted: 06/14/2019] [Indexed: 11/17/2022] Open
Abstract
During conjugation a genetic element is transferred from a bacterial donor to a recipient cell via a connecting channel. It is the major route responsible for the spread of antibiotic resistance. Conjugative elements can contain exclusion system(s) that inhibit its transfer to a cell already harboring the element. Our limited knowledge on exclusion systems is mainly based on plasmids of Gram-negative bacteria. Here we studied the conjugative plasmid pLS20 of the Gram-positive Bacillus subtilis. We demonstrate that pLS20 contains an exclusion system and identified the single gene responsible for exclusion, named sespLS20 , which is embedded in the conjugation operon. SespLS20 is the founding member of a novel family of surface exclusion proteins encoded by conjugative elements of Gram-positive origin. We show that the extent of surface exclusion correlates with the level of sespLS20 expression, and that sespLS20 is expressed at basal low-levels in all donor cells but becomes highly expressed in conjugating cells. Accordingly, the transfer of pLS20 from a conjugation-primed donor cell to an un-primed or conjugation-primed donor is inhibited moderately and very efficiently, respectively. The consequences of this differential regulation, which appears to be a conserved feature of surface exclusion systems of Gram-positive and Gram-negative origin, are discussed.
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Affiliation(s)
- César Gago-Córdoba
- Laboratory 402, Centro de Biología Molecular “Severo Ochoa” (CSIC-UAM), Department of Virology and Microbiology, Autonomous University of Madrid, Madrid, Spain
| | - Jorge Val-Calvo
- Laboratory 402, Centro de Biología Molecular “Severo Ochoa” (CSIC-UAM), Department of Virology and Microbiology, Autonomous University of Madrid, Madrid, Spain
| | - Andrés Miguel-Arribas
- Laboratory 402, Centro de Biología Molecular “Severo Ochoa” (CSIC-UAM), Department of Virology and Microbiology, Autonomous University of Madrid, Madrid, Spain
| | - Ester Serrano
- Laboratory 402, Centro de Biología Molecular “Severo Ochoa” (CSIC-UAM), Department of Virology and Microbiology, Autonomous University of Madrid, Madrid, Spain
| | - Praveen K. Singh
- Laboratory 402, Centro de Biología Molecular “Severo Ochoa” (CSIC-UAM), Department of Virology and Microbiology, Autonomous University of Madrid, Madrid, Spain
| | - David Abia
- Laboratory 402, Centro de Biología Molecular “Severo Ochoa” (CSIC-UAM), Department of Virology and Microbiology, Autonomous University of Madrid, Madrid, Spain
| | - Ling Juan Wu
- Centre for Bacterial Cell Biology, Institute for Cell and Molecular Biosciences, Newcastle University, Newcastle upon Tyne, United Kingdom
| | - Wilfried J. J. Meijer
- Laboratory 402, Centro de Biología Molecular “Severo Ochoa” (CSIC-UAM), Department of Virology and Microbiology, Autonomous University of Madrid, Madrid, Spain
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Hartmann R, Singh PK, Pearce P, Mok R, Song B, Díaz-Pascual F, Dunkel J, Drescher K. Emergence of three-dimensional order and structure in growing biofilms. Nat Phys 2019; 15:251-256. [PMID: 31156716 PMCID: PMC6544526 DOI: 10.1038/s41567-018-0356-9] [Citation(s) in RCA: 152] [Impact Index Per Article: 30.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/12/2018] [Accepted: 10/19/2018] [Indexed: 05/22/2023]
Abstract
Surface-attached bacterial biofilms are self-replicating active liquid crystals and the dominant form of bacterial life on earth (1-4). In conventional liquid crystals and solid-state materials, the interaction potentials between the molecules that comprise the system determine the material properties. However, for growth-active biofilms it is unclear whether potential-based descriptions can account for the experimentally observed morphologies, and which potentials would be relevant. Here, we overcame previous limitations of single-cell imaging techniques (5,6) to reconstruct and track all individual cells inside growing three-dimensional (3D) biofilms with up to 10,000 individuals. Based on these data, we identify, constrain, and provide a microscopic basis for an effective cell-cell interaction potential, which captures and predicts the growth dynamics, emergent architecture, and local liquid crystalline order of Vibrio cholerae biofilms. Furthermore, we show how external fluid flows control the microscopic structure and 3D morphology of biofilms. Our analysis implies that local cellular order and global biofilm architecture in these active bacterial communities can arise from mechanical cell-cell interactions, which cells can modulate by regulating the production of particular matrix components. These results establish an experimentally validated foundation for improved continuum theories of active matter and thereby contribute to solving the important problem of controlling biofilm growth.
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Affiliation(s)
- Raimo Hartmann
- Max Planck Institute for Terrestrial Microbiology, 35043 Marburg,
DE
- Department of Physics, Philipps-Universität Marburg, 35032
Marburg, DE
| | - Praveen K. Singh
- Max Planck Institute for Terrestrial Microbiology, 35043 Marburg,
DE
| | - Philip Pearce
- Department of Mathematics, Massachusetts Institute of Technology,
Cambridge, MA 02139, USA
| | - Rachel Mok
- Department of Mathematics, Massachusetts Institute of Technology,
Cambridge, MA 02139, USA
- Department of Mechanical Engineering, Massachusetts Institute of
Technology, Cambridge, MA 02139, USA
| | - Boya Song
- Department of Mathematics, Massachusetts Institute of Technology,
Cambridge, MA 02139, USA
| | | | - Jörn Dunkel
- Department of Mathematics, Massachusetts Institute of Technology,
Cambridge, MA 02139, USA
- Correspondence to: ;
| | - Knut Drescher
- Max Planck Institute for Terrestrial Microbiology, 35043 Marburg,
DE
- Department of Physics, Philipps-Universität Marburg, 35032
Marburg, DE
- Correspondence to: ;
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58
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Shekhar S, Singh PK, Vikram S, Jha CK. How important is the 4-ICG score for a thyroid surgeon? Am J Surg 2019; 219:209. [PMID: 30894252 DOI: 10.1016/j.amjsurg.2019.03.004] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2019] [Accepted: 03/06/2019] [Indexed: 10/27/2022]
Affiliation(s)
| | - P K Singh
- Department of General Surgery, AIIMS, Patna, 801507, India
| | - S Vikram
- Department of General Surgery, AIIMS, Patna, 801507, India
| | - C K Jha
- Department of General Surgery, AIIMS, Patna, 801507, India.
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59
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Agarwal A, Dhiraaj S, Raza M, Singhal V, Gupta D, Ranjan R, Singh PK, Singh U. Pain during Injection of Propofol: The Effect of Prior Administration of Ephedrine. Anaesth Intensive Care 2019; 32:657-60. [PMID: 15535489 DOI: 10.1177/0310057x0403200508] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Propofol causes pain on intravenous injection in 28 to 90% of patients. A number of techniques have been tried to minimize propofol-induced pain, with variable results. In a randomized, double-blind, placebo-controlled trial, we compared the efficacy of ephedrine 30 μg/kg pretreatment to lignocaine 40 mg for prevention of propofol-induced pain. Ninety-three adult patients, ASA 1 and 2, undergoing elective laparoscopic cholecystectomy were randomly assigned to three groups of 31 each. Group 1 received normal saline, group 2 received lignocaine 2% (40 mg) and group 3 received 30 μg/kg ephedrine. All pretreatment drugs were made up to 2 ml. Pain at the time of propofol injection was assessed on a four-point scale: 0=no pain, 1=mild pain, 2=moderate pain, and 3=severe pain. Twenty-seven patients (87%) of ephedrine pretreatment patients had pain during intravenous injection of propofol as compared to 24 (77%) in the normal saline group. In the lignocaine group, propofol-induced pain was observed in only 13 (42%) when compared with other study groups (P<0.05). Pretreatment with ephedrine 30 μg/kg did not attenuate pain associated with intravenous injection of propofol, nor did it improve haemodynamic stability during induction. However, pretreatment with 2% lignocaine (40 mg) was effective in attenuating propofol-associated pain.
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Affiliation(s)
- A Agarwal
- Department of Anesthesia, Sanjay Gandhi Post Graduate Institute of Medical Sciences, Lucknow, India
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60
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Ma WJ, Kim IJ, Yu JQ, Choi IW, Singh PK, Lee HW, Sung JH, Lee SK, Lin C, Liao Q, Zhu JG, Lu HY, Liu B, Wang HY, Xu RF, He XT, Chen JE, Zepf M, Schreiber J, Yan XQ, Nam CH. Laser Acceleration of Highly Energetic Carbon Ions Using a Double-Layer Target Composed of Slightly Underdense Plasma and Ultrathin Foil. Phys Rev Lett 2019; 122:014803. [PMID: 31012707 DOI: 10.1103/physrevlett.122.014803] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/20/2017] [Indexed: 06/09/2023]
Abstract
We report the experimental generation of highly energetic carbon ions up to 48 MeV per nucleon by shooting double-layer targets composed of well-controlled slightly underdense plasma and ultrathin foils with ultraintense femtosecond laser pulses. Particle-in-cell simulations reveal that carbon ions are ejected from the ultrathin foils due to radiation pressure and then accelerated in an enhanced sheath field established by the superponderomotive electron flow. Such a cascaded acceleration is especially suited for heavy ion acceleration with femtosecond laser pulses. The breakthrough of heavy ion energy up to many tens of MeV/u at a high repetition rate would be able to trigger significant advances in nuclear physics, high energy density physics, and medical physics.
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Affiliation(s)
- W J Ma
- State Key Laboratory of Nuclear Physics and Technology, and Key Laboratory of HEDP of the Ministry of Education, CAPT, Peking University, Beijing 100871, China
- Fakultät für Physik, Ludwig-Maximilians-Universität München, D-85748 Garching, Germany
| | - I Jong Kim
- Center for Relativistic Laser Science, Institute for Basic Science, Gwangju 61005, Korea
- Advanced Photonics Research Institute, Gwangju Institute of Science and Technology (GIST), Gwangju 61005, Korea
| | - J Q Yu
- State Key Laboratory of Nuclear Physics and Technology, and Key Laboratory of HEDP of the Ministry of Education, CAPT, Peking University, Beijing 100871, China
| | - Il Woo Choi
- Center for Relativistic Laser Science, Institute for Basic Science, Gwangju 61005, Korea
- Advanced Photonics Research Institute, Gwangju Institute of Science and Technology (GIST), Gwangju 61005, Korea
| | - P K Singh
- Center for Relativistic Laser Science, Institute for Basic Science, Gwangju 61005, Korea
| | - Hwang Woon Lee
- Center for Relativistic Laser Science, Institute for Basic Science, Gwangju 61005, Korea
| | - Jae Hee Sung
- Center for Relativistic Laser Science, Institute for Basic Science, Gwangju 61005, Korea
- Advanced Photonics Research Institute, Gwangju Institute of Science and Technology (GIST), Gwangju 61005, Korea
| | - Seong Ku Lee
- Center for Relativistic Laser Science, Institute for Basic Science, Gwangju 61005, Korea
- Advanced Photonics Research Institute, Gwangju Institute of Science and Technology (GIST), Gwangju 61005, Korea
| | - C Lin
- State Key Laboratory of Nuclear Physics and Technology, and Key Laboratory of HEDP of the Ministry of Education, CAPT, Peking University, Beijing 100871, China
| | - Q Liao
- State Key Laboratory of Nuclear Physics and Technology, and Key Laboratory of HEDP of the Ministry of Education, CAPT, Peking University, Beijing 100871, China
| | - J G Zhu
- State Key Laboratory of Nuclear Physics and Technology, and Key Laboratory of HEDP of the Ministry of Education, CAPT, Peking University, Beijing 100871, China
| | - H Y Lu
- State Key Laboratory of Nuclear Physics and Technology, and Key Laboratory of HEDP of the Ministry of Education, CAPT, Peking University, Beijing 100871, China
| | - B Liu
- Max-Planck-Institute für Quantenoptik, D-85748 Garching, Germany
| | - H Y Wang
- School of Environment and Chemical Engineering, Shanghai University, Shanghai 200444, China
| | - R F Xu
- State Key Laboratory of Nuclear Physics and Technology, and Key Laboratory of HEDP of the Ministry of Education, CAPT, Peking University, Beijing 100871, China
| | - X T He
- State Key Laboratory of Nuclear Physics and Technology, and Key Laboratory of HEDP of the Ministry of Education, CAPT, Peking University, Beijing 100871, China
| | - J E Chen
- State Key Laboratory of Nuclear Physics and Technology, and Key Laboratory of HEDP of the Ministry of Education, CAPT, Peking University, Beijing 100871, China
| | - M Zepf
- Helmholtz-Institut-Jena, Fröbelstieg 3, 07743 Jena, Germany
- Department of Physics and Astronomy, Centre for Plasma Physics, Queens University, Belfast BT7 1NN, United Kingdom
| | - J Schreiber
- Fakultät für Physik, Ludwig-Maximilians-Universität München, D-85748 Garching, Germany
- Max-Planck-Institute für Quantenoptik, D-85748 Garching, Germany
| | - X Q Yan
- State Key Laboratory of Nuclear Physics and Technology, and Key Laboratory of HEDP of the Ministry of Education, CAPT, Peking University, Beijing 100871, China
- Collaborative Innovation Center of Extreme Optics, Shanxi University, Taiyuan, Shanxi 030006, China
| | - Chang Hee Nam
- Center for Relativistic Laser Science, Institute for Basic Science, Gwangju 61005, Korea
- Department of Physics and Photon Science, GIST, Gwangju 61005, Korea
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61
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Srivastava A, Singh V, Haque S, Pandey S, Mishra M, Jawed A, Shukla PK, Singh PK, Tripathi CKM. Response Surface Methodology-Genetic Algorithm Based Medium Optimization, Purification, and Characterization of Cholesterol Oxidase from Streptomyces rimosus. Sci Rep 2018; 8:10913. [PMID: 30026563 PMCID: PMC6053457 DOI: 10.1038/s41598-018-29241-9] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/19/2018] [Accepted: 07/02/2018] [Indexed: 11/18/2022] Open
Abstract
The applicability of the statistical tools coupled with artificial intelligence techniques was tested to optimize the critical medium components for the production of extracellular cholesterol oxidase (COD; an enzyme of commercial interest) from Streptomyces rimosus MTCC 10792. The initial medium component screening was performed using Placket-Burman design with yeast extract, dextrose, starch and ammonium carbonate as significant factors. Response surface methodology (RSM) was attempted to develop a statistical model with a significant coefficient of determination (R2 = 0.89847), followed by model optimization using Genetic Algorithm (GA). RSM-GA based optimization approach predicted that the combination of yeast extract, dextrose, starch and ammonium carbonate at concentrations 0.99, 0.8, 0.1, and 0.05 g/100 ml respectively, has resulted in 3.6 folds increase in COD production (5.41 U/ml) in comparison with the un-optimized medium (1.5 U/ml). COD was purified 10.34 folds having specific activity of 12.37 U/mg with molecular mass of 54 kDa. The enzyme was stable at pH 7.0 and 40 °C temperature. The apparent Michaelis constant (Km) and Vmax values of COD were 0.043 mM and 2.21 μmol/min/mg, respectively. This is the first communication reporting RSM-GA based medium optimization, purification and characterization of COD by S. rimosus isolated from the forest soil of eastern India.
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Affiliation(s)
- Akanksha Srivastava
- Microbiology Division, CSIR-Central Drug Research Institute, Lucknow, 226031, India.,Academy of Scientific and Innovative Research (AcSIR), Anusandhan Bhawan, New Delhi, 110001, India
| | - Vineeta Singh
- Department of Biotechnology, Institute of Engineering & Technology, Lucknow, 226021, Uttar Pradesh, India
| | - Shafiul Haque
- Research and Scientific Studies Unit, College of Nursing & Allied Health Sciences, Jazan University, Jazan, 45142, Saudi Arabia
| | - Smriti Pandey
- Microbiology Division, CSIR-Central Drug Research Institute, Lucknow, 226031, India
| | - Manisha Mishra
- Plant Molecular Biology Division, CSIR-National Botanical Research Institute, Lucknow, 226001, India
| | - Arshad Jawed
- Research and Scientific Studies Unit, College of Nursing & Allied Health Sciences, Jazan University, Jazan, 45142, Saudi Arabia
| | - P K Shukla
- Microbiology Division, CSIR-Central Drug Research Institute, Lucknow, 226031, India
| | - P K Singh
- Plant Molecular Biology Division, CSIR-National Botanical Research Institute, Lucknow, 226001, India
| | - C K M Tripathi
- Microbiology Division, CSIR-Central Drug Research Institute, Lucknow, 226031, India. .,Department of Biotechnology, Shri Ramswaroop Memorial University, Lucknow, 225003, Uttar Pradesh, India.
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Das S, Rai G, Tigga RA, Srivastava S, Singh PK, Sharma R, Datt S, Singh NP, Dar SA. Candida auris in critically ill patients: Emerging threat in intensive care unit of hospitals. J Mycol Med 2018; 28:514-518. [PMID: 30042047 DOI: 10.1016/j.mycmed.2018.06.005] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2018] [Revised: 05/12/2018] [Accepted: 06/19/2018] [Indexed: 01/05/2023]
Abstract
Candida auris has emerged as the multi-drug resistant non-albican candida species in critically ill patients admitted to intensive care units (ICU) causing bloodstream and other infections. It has often been misidentified as Candida famata, Candida sake, Rhodotorula glutinis, or Saccharomyces cerevisiae and Candida haemulonii by automated identification systems. We, in this study, discuss three patients who acquired Candida auris infection after 15 to 20days of their stay in medical ICU. Medical equipment, use of multiple antibiotics, and poor hand hygiene are the most probable predisposing factors attributing to its colonization at multiple anatomical sites leading to bloodstream infection. Candida auris might substantially contaminate the environment of colonized or infected patients making its eradication difficult. Patient screening for Candida auris, especially during prolonged ICU stays, along with strict infection prevention and control strategies needs to be adopted to break its persistence.
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Affiliation(s)
- S Das
- Department of Microbiology, University College of Medical Sciences (University of Delhi) and Guru Teg Bahadur Hospital, 110095 Delhi, India.
| | - G Rai
- Department of Microbiology, University College of Medical Sciences (University of Delhi) and Guru Teg Bahadur Hospital, 110095 Delhi, India
| | - R A Tigga
- Department of Microbiology, University College of Medical Sciences (University of Delhi) and Guru Teg Bahadur Hospital, 110095 Delhi, India
| | - S Srivastava
- Department of Microbiology, University College of Medical Sciences (University of Delhi) and Guru Teg Bahadur Hospital, 110095 Delhi, India
| | - P K Singh
- Department of Microbiology, University College of Medical Sciences (University of Delhi) and Guru Teg Bahadur Hospital, 110095 Delhi, India
| | - R Sharma
- Undergraduate student (Semester IX), University College of Medical Sciences (University of Delhi) and Guru Teg Bahadur Hospital, 110095 Delhi, India
| | - S Datt
- Department of Microbiology, University College of Medical Sciences (University of Delhi) and Guru Teg Bahadur Hospital, 110095 Delhi, India
| | - N P Singh
- Department of Microbiology, University College of Medical Sciences (University of Delhi) and Guru Teg Bahadur Hospital, 110095 Delhi, India
| | - S A Dar
- Department of Microbiology, University College of Medical Sciences (University of Delhi) and Guru Teg Bahadur Hospital, 110095 Delhi, India; Research and Scientific Studies Unit, College of Nursing & Allied Health Sciences, Jazan University, 45142 Jazan, Saudi Arabia
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Dar MH, Zaidi NW, Waza SA, Verulkar SB, Ahmed T, Singh PK, Roy SKB, Chaudhary B, Yadav R, Islam MM, Iftekharuddaula KM, Roy JK, Kathiresan RM, Singh BN, Singh US, Ismail AM. No yield penalty under favorable conditions paving the way for successful adoption of flood tolerant rice. Sci Rep 2018; 8:9245. [PMID: 29915310 PMCID: PMC6006260 DOI: 10.1038/s41598-018-27648-y] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2017] [Accepted: 05/30/2018] [Indexed: 01/25/2023] Open
Abstract
Flooding is one of the major constraints for rice production in rainfed lowlands, especially in years and areas of high rainfall. Incorporating the Sub1 (Submergence1) gene into high yielding popular varieties has proven to be the most feasible approach to sustain rice production in submergence-prone areas. Introgression of this QTL into popular varieties has resulted in considerable improvement in yield after flooding. However, its impact under non-flooded conditions or years have not been thoroughly evaluated which is important for the farmers to accept and adopt any new version of their popular varieties. The present study was carried out to evaluate the effect of Sub1 on grain yield of rice in different genetic backgrounds, under non-submergence conditions, over years and locations. The study was carried out using head to head trials in farmer’s fields, which enable the farmers to more accurately compare the performance of Sub1 varieties with their recurrent parents under own management. The data generated from different head to head trials revealed that the grain yield of Sub1 varieties was either statistically similar or higher than their non-Sub1 counterparts under non-submergence conditions. Thus, Sub1 rice varieties show no instance of yield penalty of the introgressed gene.
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Affiliation(s)
- Manzoor H Dar
- International Rice Research Institute (IRRI-India), NASC Complex, New Delhi, India.
| | - Najam W Zaidi
- International Rice Research Institute (IRRI-India), NASC Complex, New Delhi, India
| | - Showkat A Waza
- Sher-e-Kashmir University of Agricultural Sciences & Technology of Kashmir (J&K), Kashmir, India
| | | | - T Ahmed
- Assam Agricultural University, Jorhat, Assam, India
| | - P K Singh
- Banaras Hindu University, Varanasi, Uttar Pradesh, India
| | | | | | - Rambaran Yadav
- Regional Agriculture Research Station, NARC, Bara, Nepal
| | | | | | - J K Roy
- Association for Integrated Development (AID), Bhubaneswar, Odisha, India
| | | | - B N Singh
- Centre for Research and Development (CRD), Gorakhpur, UP, India
| | - Uma S Singh
- International Rice Research Institute (IRRI-India), NASC Complex, New Delhi, India
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Tewari S, Goyal P, Rastogi A, Agarwal A, Singh PK. Anesthetic challenges of extrinsic trachea-bronchial compression due to posterior mediastinal mass: Our experience with a large esophageal mucocele. Ann Card Anaesth 2018; 20:359-361. [PMID: 28701607 PMCID: PMC5535583 DOI: 10.4103/aca.aca_194_16] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022] Open
Abstract
Large posterior mediastinal masses may lead threatening complications such as critical tracheobronchial compression. Airway management in these individuals is a challenge and being a lower airway obstruction; rescue strategies are limited. We encountered one such case of a large esophageal mucocele causing extrinsic tracheobronchial compression. We have described the anesthetic management of this case using awake fiber-optic assessment followed by intubation. Close communication with the surgical team, meticulous planning of airway management, and early drainage of the mucocele are the cornerstones of management in such patients.
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Affiliation(s)
- Saipriya Tewari
- Department of Anesthesia, Sanjay Gandhi Post Graduate Institute of Medical Sciences, Lucknow, Uttar Pradesh, India
| | - Puneet Goyal
- Department of Anesthesia, Sanjay Gandhi Post Graduate Institute of Medical Sciences, Lucknow, Uttar Pradesh, India
| | - Amit Rastogi
- Department of Anesthesia, Sanjay Gandhi Post Graduate Institute of Medical Sciences, Lucknow, Uttar Pradesh, India
| | - Aarti Agarwal
- Department of Anesthesia, Sanjay Gandhi Post Graduate Institute of Medical Sciences, Lucknow, Uttar Pradesh, India
| | - P K Singh
- Department of Anesthesia, Sanjay Gandhi Post Graduate Institute of Medical Sciences, Lucknow, Uttar Pradesh, India
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Chauhan DS, Sharma R, Parashar D, Das R, Sharma P, Singh AV, Singh PK, Katoch K, Katoch VM. Rapid detection of ethambutol-resistant Mycobacterium tuberculosis in clinical specimens by real-time polymerase chain reaction hybridisation probe method. Indian J Med Microbiol 2018; 36:211-216. [PMID: 30084413 DOI: 10.4103/ijmm.ijmm_14_304] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
Abstract
Background Early diagnosis of drug resistance (DR) to ethambutol (EMB) in tuberculosis (TB) remains a challenge. Simple and reliable method (s) are needed for rapid detection of DR Mycobacterium tuberculosis (MTB) in clinical specimens. Objectives The aim of this study was to design fluorescence resonance energy transfer hybridisation probe-based real-time polymerase chain reaction (PCR) method for the early detection of EMB-resistant MTB direct from clinical sputa. Materials and Methods Primers and probes were designed against 306 codon of embB gene which is commonly associated with EMB resistance. A comparative study was done between Lowenstein-Jenson (L-J) proportion and hybridisation probe-based real-time PCR method for susceptibility testing. DNA sequencing was used in nine representative isolates to validate the efficiency of real-time PCR method to detect emb306 mutation of MTB. Results A total of 52 clinical sputum samples and corresponding culture isolates (from category II pulmonary TB cases) were included in this study. Out of 52 MTB isolates, 32 and 20 were resistant and susceptible to EMB, respectively, as determined by L-J proportion method. Real-time PCR showed 95% specificity, 75% sensitivity and 82.69% accuracy when compared with L-J proportion method. A 100% of concordance was observed by validating the real-time PCR results with DNA sequencing. Conclusions Our real-time PCR hybridisation probe method promises for rapid detection of EMB-resistant MTB directly from clinical specimens. However, future studies and modifications of method by incorporating other potential loci along with targeted mutation (emb306) are still required to increase the sensitivity of method.
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Affiliation(s)
- D S Chauhan
- Department of Microbiology and Molecular Biology, National JALMA Institute for Leprosy and Other Mycobacterial Diseases (ICMR), Agra, Uttar Pradesh, India
| | - R Sharma
- Department of Microbiology and Molecular Biology, National JALMA Institute for Leprosy and Other Mycobacterial Diseases (ICMR), Agra, Uttar Pradesh, India
| | - D Parashar
- Department of Microbiology and Molecular Biology, National JALMA Institute for Leprosy and Other Mycobacterial Diseases (ICMR), Agra, Uttar Pradesh, India
| | - R Das
- Department of Microbiology and Molecular Biology, National JALMA Institute for Leprosy and Other Mycobacterial Diseases (ICMR), Agra, Uttar Pradesh, India
| | - P Sharma
- Department of Microbiology and Molecular Biology, National JALMA Institute for Leprosy and Other Mycobacterial Diseases (ICMR), Agra, Uttar Pradesh, India
| | - A V Singh
- Department of Microbiology and Molecular Biology, National JALMA Institute for Leprosy and Other Mycobacterial Diseases (ICMR), Agra, Uttar Pradesh, India
| | - P K Singh
- Department of Microbiology and Molecular Biology, National JALMA Institute for Leprosy and Other Mycobacterial Diseases (ICMR), Agra, Uttar Pradesh, India
| | - K Katoch
- Department of Microbiology and Molecular Biology, National JALMA Institute for Leprosy and Other Mycobacterial Diseases (ICMR), Agra, Uttar Pradesh, India
| | - V M Katoch
- Department of Microbiology and Molecular Biology, National JALMA Institute for Leprosy and Other Mycobacterial Diseases (ICMR), Agra, Uttar Pradesh, India
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Singh S, Tiwari S, Hopke PK, Zhou C, Turner JR, Panicker AS, Singh PK. Ambient black carbon particulate matter in the coal region of Dhanbad, India. Sci Total Environ 2018; 615:955-963. [PMID: 29020648 DOI: 10.1016/j.scitotenv.2017.09.307] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2017] [Revised: 09/27/2017] [Accepted: 09/28/2017] [Indexed: 06/07/2023]
Abstract
Light-absorbing, atmospheric particles have gained greater attention in recent years because of their direct and indirect impacts on regional and global climate. Atmospheric black carbon (BC) aerosol is a leading climate warming agent, yet uncertainties in the global direct aerosol radiative forcing remain large. Based on a year of aerosol absorption measurements at seven wavelengths, BC concentrations were investigated in Dhanbad, the coal capital of India. Coal is routinely burned for cooking and residential heat as well as in small industries. The mean daily concentrations of ultraviolet-absorbing black carbon measured at 370nm (UVBC) and black carbon measured at 880nm (BC) were 9.8±5.7 and 6.5±3.8μgm-3, respectively. The difference between UVBC and BC, Delta-C, is an indicator of biomass or residential coal burning and averaged 3.29±4.61μgm-3. An alternative approach uses the Ǻngstrom Exponent (AE) to estimate the biomass/coal and traffic BC concentrations. Biomass/coal burning contributed ~87% and high temperature, fossil-fuel combustion contributed ~13% to the annual average BC concentration. The post-monsoon seasonal mean UVBC values were 10.9μgm-3 and BC of 7.2μgm-3. Potential source contribution function analysis showed that in the post-monsoon season, air masses came from the central and northwestern Indo-Gangetic Plains where there is extensive agricultural burning. The mean winter UVBC and BC concentrations were 15.0 and 10.1μgm-3, respectively. These higher values were largely produced by local sources under poor dispersion conditions. The direct radiative forcing (DRF) due to UVBC and BC at the surface (SUR) and the top of the atmosphere (TOA) were calculated. The mean atmospheric heating rates due to UVBC and BC were estimated to be 1.40°Kday-1 and 1.18°Kday-1, respectively. This high heating rate may affect the monsoon circulation in this region.
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Affiliation(s)
- S Singh
- CSIR-Central Institute of Mining & Fuel Research, Dhanbad 826015, Jharkhand, India.
| | - S Tiwari
- Indian Institute of Tropical Meteorology, Pune 411008, India
| | - P K Hopke
- Center for Air Resources Engineering and Science, Clarkson University, Box 5708, Potsdam, NY 13699-5708, USA
| | - C Zhou
- Center for Air Resources Engineering and Science, Clarkson University, Box 5708, Potsdam, NY 13699-5708, USA
| | - J R Turner
- Department of Energy, Environmental & Chemical Engineering, Washington University in Saint Louis, St. Louis, MO 63130, USA
| | - A S Panicker
- Indian Institute of Tropical Meteorology, Pune 411008, India
| | - P K Singh
- CSIR-Central Institute of Mining & Fuel Research, Dhanbad 826015, Jharkhand, India
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Humagain M, Dixit S, Bhandari B, Khanal S, Singh PK. Self-Perception of Halitosis among Undergraduate Students of Kathmandu University School of Medical Sciences - A Questionnaire Based Study. Kathmandu Univ Med J (KUMJ) 2018; 16:89-93. [PMID: 30631025] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Background Halitosis is a frequently reported oral health problem worldwide with a prevalence rate of 10-30% in the general population. It is defined as the disagreeable or foul smelling breath originating consistently from a person's oral cavity. It not only effects the normal daily life activities of the patient but also bring humiliation, reduced self- esteem, ultimately resulting into decreased quality of life. Objective To determine the self-perception of halitosis among undergraduate students of different medical branches of Kathmandu University School of Medical Sciences (KUSMS); Kavre, Nepal. Method A descriptive cross-sectional epidemiological survey was conducted among undergraduate students of Physiotherapy, B.Sc Nursing, Bachelor of Nursing Sciences (BNS), MBBS and BDS program of Kathmandu University School of Medical Sciences, Dhulikhel. A self-administered questionnaire was developed and were distributed among 500 undergraduate students. Result Out of total 500 distributed questionnaires, 406 were completely filled and returned giving an overall response of 81.2%, in which 70 (89.7%) male and 280 (85.4%) female students from different medical branches were aware of the term halitosis. Among them 29 (7.14%) of students think that they suffer from halitosis. Similarly 178 (43.84%) students had severe impact of halitosis on their social life while 153 (37.68%) and 62 (15.27%) students had moderate and mild impact respectively. Conclusion Due to the multifactorial complexity of halitosis, further longitudinal studies including objective assessment of malodor are required to determine its prevalence and to further investigate the association of this problem with other etiological factors in the context of Nepal. Also, curriculum of different fields should be modified to include this simple but very necessary topic.
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Affiliation(s)
- M Humagain
- Department of Periodontology, Kathmandu University School of Medical Sciences, Dhulikhel, Kavre, Nepal
| | - S Dixit
- Department of Oral Medicine and Radiology, Kathmandu University School of Medical Sciences, Dhulikhel, Kavre, Nepal
| | - B Bhandari
- Department of Periodontology, Kathmandu University School of Medical Sciences, Dhulikhel, Kavre, Nepal
| | - S Khanal
- Department of Periodontology, Kathmandu University School of Medical Sciences, Dhulikhel, Kavre, Nepal
| | - P K Singh
- Department of Forensic Medicine, Kathmandu University School of Medical Sciences, Dhulikhel, Kavre, Nepal
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Vidakovic L, Singh PK, Hartmann R, Nadell CD, Drescher K. Dynamic biofilm architecture confers individual and collective mechanisms of viral protection. Nat Microbiol 2017; 3:26-31. [PMID: 29085075 PMCID: PMC5739289 DOI: 10.1038/s41564-017-0050-1] [Citation(s) in RCA: 158] [Impact Index Per Article: 22.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2017] [Accepted: 09/29/2017] [Indexed: 01/21/2023]
Affiliation(s)
- Lucia Vidakovic
- Max Planck Institute for Terrestrial Microbiology, Marburg, Germany
| | - Praveen K Singh
- Max Planck Institute for Terrestrial Microbiology, Marburg, Germany
| | - Raimo Hartmann
- Max Planck Institute for Terrestrial Microbiology, Marburg, Germany
| | - Carey D Nadell
- Max Planck Institute for Terrestrial Microbiology, Marburg, Germany. .,Department of Biological Sciences, Dartmouth College, Hanover, NH, USA.
| | - Knut Drescher
- Max Planck Institute for Terrestrial Microbiology, Marburg, Germany. .,Department of Physics, Philipps University Marburg, Marburg, Germany.
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Singh PK, Bartalomej S, Hartmann R, Jeckel H, Vidakovic L, Nadell CD, Drescher K. Vibrio cholerae Combines Individual and Collective Sensing to Trigger Biofilm Dispersal. Curr Biol 2017; 27:3359-3366.e7. [PMID: 29056457 PMCID: PMC5678073 DOI: 10.1016/j.cub.2017.09.041] [Citation(s) in RCA: 52] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2017] [Revised: 07/19/2017] [Accepted: 09/19/2017] [Indexed: 01/07/2023]
Abstract
Bacteria can generate benefits for themselves and their kin by living in multicellular, matrix-enclosed communities, termed biofilms, which are fundamental to microbial ecology and the impact bacteria have on the environment, infections, and industry [1, 2, 3, 4, 5, 6]. The advantages of the biofilm mode of life include increased stress resistance and access to concentrated nutrient sources [3, 7, 8]. However, there are also costs associated with biofilm growth, including the metabolic burden of biofilm matrix production, increased resource competition, and limited mobility inside the community [9, 10, 11]. The decision-making strategies used by bacteria to weigh the costs between remaining in a biofilm or actively dispersing are largely unclear, even though the dispersal transition is a central aspect of the biofilm life cycle and critical for infection transmission [12, 13, 14]. Using a combination of genetic and novel single-cell imaging approaches, we show that Vibrio cholerae integrates dual sensory inputs to control the dispersal response: cells use the general stress response, which can be induced via starvation, and they also integrate information about the local cell density and molecular transport conditions in the environment via the quorum sensing apparatus. By combining information from individual (stress response) and collective (quorum sensing) avenues of sensory input, biofilm-dwelling bacteria can make robust decisions to disperse from large biofilms under distress, while preventing premature dispersal when biofilm populations are small. These insights into triggers and regulators of biofilm dispersal are a key step toward actively inducing biofilm dispersal for technological and medical applications, and for environmental control of biofilms. Cells in V. cholerae biofilms decide to disperse by combining two sensory mechanisms Quorum sensing and RpoS provide information on different environmental parameters Integration of both sensory inputs yields robust and optimal dispersal decisions
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Affiliation(s)
- Praveen K Singh
- Max Planck Institute for Terrestrial Microbiology, Karl-von-Frisch-Strasse 10, Marburg 35043, Germany
| | - Sabina Bartalomej
- Max Planck Institute for Terrestrial Microbiology, Karl-von-Frisch-Strasse 10, Marburg 35043, Germany
| | - Raimo Hartmann
- Max Planck Institute for Terrestrial Microbiology, Karl-von-Frisch-Strasse 10, Marburg 35043, Germany
| | - Hannah Jeckel
- Max Planck Institute for Terrestrial Microbiology, Karl-von-Frisch-Strasse 10, Marburg 35043, Germany; Department of Physics, Philipps-Universität Marburg, Renthof 6, Marburg 35032, Germany
| | - Lucia Vidakovic
- Max Planck Institute for Terrestrial Microbiology, Karl-von-Frisch-Strasse 10, Marburg 35043, Germany
| | - Carey D Nadell
- Max Planck Institute for Terrestrial Microbiology, Karl-von-Frisch-Strasse 10, Marburg 35043, Germany
| | - Knut Drescher
- Max Planck Institute for Terrestrial Microbiology, Karl-von-Frisch-Strasse 10, Marburg 35043, Germany; Department of Physics, Philipps-Universität Marburg, Renthof 6, Marburg 35032, Germany.
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Krishnamurthy SL, Sharma PC, Sharma DK, Ravikiran KT, Singh YP, Mishra VK, Burman D, Maji B, Mandal S, Sarangi SK, Gautam RK, Singh PK, Manohara KK, Marandi BC, Padmavathi G, Vanve PB, Patil KD, Thirumeni S, Verma OP, Khan AH, Tiwari S, Geetha S, Shakila M, Gill R, Yadav VK, Roy SKB, Prakash M, Bonifacio J, Ismail A, Gregorio GB, Singh RK. Identification of mega-environments and rice genotypes for general and specific adaptation to saline and alkaline stresses in India. Sci Rep 2017; 7:7968. [PMID: 28801586 PMCID: PMC5554213 DOI: 10.1038/s41598-017-08532-7] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2016] [Accepted: 07/14/2017] [Indexed: 11/13/2022] Open
Abstract
In the present study, a total of 53 promising salt-tolerant genotypes were tested across 18 salt-affected diverse locations for three years. An attempt was made to identify ideal test locations and mega-environments using GGE biplot analysis. The CSSRI sodic environment was the most discriminating location in individual years as well as over the years and could be used to screen out unstable and salt-sensitive genotypes. Genotypes CSR36, CSR-2K-219, and CSR-2K-262 were found ideal across years. Overall, Genotypes CSR-2K-219, CSR-2K-262, and CSR-2K-242 were found superior and stable among all genotypes with higher mean yields. Different sets of genotypes emerged as winners in saline soils but not in sodic soils; however, Genotype CSR-2K-262 was the only genotype that was best under both saline and alkaline environments over the years. The lack of repeatable associations among locations and repeatable mega-environment groupings indicated the complexity of soil salinity. Hence, a multi-location and multi-year evaluation is indispensable for evaluating the test sites as well as identifying genotypes with consistently specific and wider adaptation to particular agro-climatic zones. The genotypes identified in the present study could be used for commercial cultivation across edaphically challenged areas for sustainable production.
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Affiliation(s)
| | - P C Sharma
- Central Soil Salinity Research Institute, Karnal, India
| | - D K Sharma
- Central Soil Salinity Research Institute, Karnal, India
| | - K T Ravikiran
- Central Soil Salinity Research Institute, Karnal, India
| | - Y P Singh
- Central Soil Salinity Research Institute, Regional Research Station, Lucknow, India
| | - V K Mishra
- Central Soil Salinity Research Institute, Regional Research Station, Lucknow, India
| | - D Burman
- Central Soil Salinity Research Institute, Regional Research Station, Canning Town, India
| | - B Maji
- Central Soil Salinity Research Institute, Regional Research Station, Canning Town, India
| | - S Mandal
- Central Soil Salinity Research Institute, Regional Research Station, Canning Town, India
| | - S K Sarangi
- Central Soil Salinity Research Institute, Regional Research Station, Canning Town, India
| | - R K Gautam
- Central Island Agricultural Research Institute, Port Blair, A & N Islands, India
| | - P K Singh
- Central Island Agricultural Research Institute, Port Blair, A & N Islands, India
| | - K K Manohara
- Central Coastal Agricultural Research Institute (CCARI), Ela, Goa, India
| | - B C Marandi
- National Rice Research Institute (NRRI), Cuttack, Odisha, India
| | - G Padmavathi
- Indian Institute of Rice Research, Telengana, India
| | - P B Vanve
- Dr. Balasaheb Sawant Konkan KrishiVidyapeeth, Khar Land, Panvel, India
| | - K D Patil
- Dr. Balasaheb Sawant Konkan KrishiVidyapeeth, Khar Land, Panvel, India
| | - S Thirumeni
- Pandit Jawaharlal Nehru College of Agriculture and Research Institute, Karaikal, India
| | - O P Verma
- Narendra Deva University of Agriculture & Technology, Faizabad, Uttar Pradesh, India
| | - A H Khan
- Narendra Deva University of Agriculture & Technology, Faizabad, Uttar Pradesh, India
| | - S Tiwari
- Rajendra Agricultural University, Samastipur, India
| | - S Geetha
- Anbil Dharmalingam Agricultural College and Research Institute, Trichy, India
| | - M Shakila
- Anbil Dharmalingam Agricultural College and Research Institute, Trichy, India
| | - R Gill
- Punjab Agricultural University, Ludhiana, India
| | - V K Yadav
- Chandra Shekhar Azad University of Agriculture & Technology, Kanpur, Uttar Pradesh, India
| | - S K B Roy
- Centre for Strategic Studies, Salt Lake City, India
| | - M Prakash
- Annamalai University, Chidambaram, Tamil Nadu, India
| | - J Bonifacio
- Division of Plant Breeding, IRRI, Philippines
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Fong JC, Rogers A, Michael AK, Parsley NC, Cornell WC, Lin YC, Singh PK, Hartmann R, Drescher K, Vinogradov E, Dietrich LE, Partch CL, Yildiz FH. Structural dynamics of RbmA governs plasticity of Vibrio cholerae biofilms. eLife 2017; 6:26163. [PMID: 28762945 PMCID: PMC5605196 DOI: 10.7554/elife.26163] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2017] [Accepted: 07/31/2017] [Indexed: 01/10/2023] Open
Abstract
Biofilm formation is critical for the infection cycle of Vibrio cholerae. Vibrio exopolysaccharides (VPS) and the matrix proteins RbmA, Bap1 and RbmC are required for the development of biofilm architecture. We demonstrate that RbmA binds VPS directly and uses a binary structural switch within its first fibronectin type III (FnIII-1) domain to control RbmA structural dynamics and the formation of VPS-dependent higher-order structures. The structural switch in FnIII-1 regulates interactions in trans with the FnIII-2 domain, leading to open (monomeric) or closed (dimeric) interfaces. The ability of RbmA to switch between open and closed states is important for V. cholerae biofilm formation, as RbmA variants with switches that are locked in either of the two states lead to biofilms with altered architecture and structural integrity.
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Affiliation(s)
- Jiunn Cn Fong
- Department of Microbiology and Environmental Toxicology, University of California, Santa Cruz, Santa Cruz, United States
| | - Andrew Rogers
- Department of Microbiology and Environmental Toxicology, University of California, Santa Cruz, Santa Cruz, United States
| | - Alicia K Michael
- Department of Chemistry and Biochemistry, University of California, Santa Cruz, Santa Cruz, United States
| | - Nicole C Parsley
- Department of Chemistry and Biochemistry, University of California, Santa Cruz, Santa Cruz, United States
| | | | - Yu-Cheng Lin
- Department of Biological Sciences, Columbia University, New York, United States
| | - Praveen K Singh
- Max Planck Institute for Terrestrial Microbiology, Marburg, Germany
| | - Raimo Hartmann
- Max Planck Institute for Terrestrial Microbiology, Marburg, Germany
| | - Knut Drescher
- Max Planck Institute for Terrestrial Microbiology, Marburg, Germany
| | | | - Lars Ep Dietrich
- Department of Biological Sciences, Columbia University, New York, United States
| | - Carrie L Partch
- Department of Chemistry and Biochemistry, University of California, Santa Cruz, Santa Cruz, United States
| | - Fitnat H Yildiz
- Department of Microbiology and Environmental Toxicology, University of California, Santa Cruz, Santa Cruz, United States
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Purkait S, Gharei R, Patra S, Mishra P, Singh PK, Kumar P, Sahoo N. Aneurysmal fibrous histiocytoma - spindle cell tumour with pigment: A diagnostic dilemma on cytology. Cytopathology 2017; 28:445-447. [PMID: 28727241 DOI: 10.1111/cyt.12444] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 03/27/2017] [Indexed: 11/29/2022]
Affiliation(s)
- S Purkait
- Department of Pathology, All India Institute of Medical Sciences, Bhubaneswar, India
| | - R Gharei
- Department of Pathology, All India Institute of Medical Sciences, Bhubaneswar, India
| | - S Patra
- Department of Pathology, All India Institute of Medical Sciences, Bhubaneswar, India
| | - P Mishra
- Department of Pathology, All India Institute of Medical Sciences, Bhubaneswar, India
| | - P K Singh
- Department of Surgery, All India Institute of Medical Sciences, Bhubaneswar, India
| | - P Kumar
- Department of Surgery, All India Institute of Medical Sciences, Bhubaneswar, India
| | - N Sahoo
- Department of Pathology, All India Institute of Medical Sciences, Bhubaneswar, India
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73
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Jeong TW, Singh PK, Scullion C, Ahmed H, Hadjisolomou P, Jeon C, Yun H, Kakolee KF, Borghesi M, Ter-Avetisyan S. CR-39 track detector for multi-MeV ion spectroscopy. Sci Rep 2017; 7:2152. [PMID: 28526837 PMCID: PMC5438376 DOI: 10.1038/s41598-017-02331-w] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2017] [Accepted: 04/10/2017] [Indexed: 11/17/2022] Open
Abstract
We present the characteristics of track formation on the front and rear surfaces of CR-39 produced by laser-driven protons and carbon ions. A methodological approach, based on bulk etch length, is proposed to uniquely characterize the particle tracks in CR-39, enabling comparative description of the track characteristics in different experiments. The response of CR-39 to ions is studied based on the energy dependent growth rate of the track diameter to understand the intrinsic particle stopping process within the material. A large non-uniformity in the track diameter is observed for CR-39 with thickness matching with the stopping range of particles. Simulation and experimental results show the imprint of longitudinal range straggling for energetic protons. Moreover, by exploiting the energy dependence of the track diameter, the energy resolution (δE/E) of CR-39 for few MeV protons and Carbon ion is found to be about 3%.
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Affiliation(s)
- T W Jeong
- Center for Relativistic Laser Science, Institute of Basic Science (IBS), Gwangju, 61005, Republic of Korea.,Department of Physics and Photon Science, Gwangju Institute of Science and Technology (GIST), Gwangju, 61005, Republic of Korea
| | - P K Singh
- Center for Relativistic Laser Science, Institute of Basic Science (IBS), Gwangju, 61005, Republic of Korea
| | - C Scullion
- School of Mathematics and Physics, The Queen's University of Belfast, Belfast, BT7 1NN, UK
| | - H Ahmed
- School of Mathematics and Physics, The Queen's University of Belfast, Belfast, BT7 1NN, UK
| | - P Hadjisolomou
- School of Mathematics and Physics, The Queen's University of Belfast, Belfast, BT7 1NN, UK
| | - C Jeon
- Center for Relativistic Laser Science, Institute of Basic Science (IBS), Gwangju, 61005, Republic of Korea
| | - H Yun
- Center for Relativistic Laser Science, Institute of Basic Science (IBS), Gwangju, 61005, Republic of Korea
| | - K F Kakolee
- Center for Relativistic Laser Science, Institute of Basic Science (IBS), Gwangju, 61005, Republic of Korea
| | - M Borghesi
- School of Mathematics and Physics, The Queen's University of Belfast, Belfast, BT7 1NN, UK
| | - S Ter-Avetisyan
- Center for Relativistic Laser Science, Institute of Basic Science (IBS), Gwangju, 61005, Republic of Korea. .,Department of Physics and Photon Science, Gwangju Institute of Science and Technology (GIST), Gwangju, 61005, Republic of Korea.
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Bhattarai SR, Derry PJ, Aziz K, Singh PK, Khoo AM, Chadha AS, Liopo A, Zubarev ER, Krishnan S. Gold nanotriangles: scale up and X-ray radiosensitization effects in mice. Nanoscale 2017; 9:5085-5093. [PMID: 28134383 PMCID: PMC6091862 DOI: 10.1039/c6nr08172j] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
In the past decade, there has been considerable interest in radiosensitization using gold nanoparticles that accumulate specifically in cancerous tissue while sparing normal tissues. Despite this interest, it remains unclear which nanoparticle morphologies, cellular uptake, or cytoplasmic distribution elicit optimal radiosensitization. We introduce gold nanotriangles (AuNTs) as a possible X-ray radiotherapy sensitizer. In this study, we first explored a large-scale synthetic method for the production of high quality monodisperse AuNTs. Second, we conducted in vitro and in vivo experiments to evaluate the effect of PEGylated AuNTs (pAuNTs) on cellular uptake, cytotoxicity, bio-distribution, and radiosensitization on radiation-resistant human Glioblastoma Multiforme (GBM) cells. Our results suggest that the new scale up synthesis methodology consistently produced high quality AuNTs and pAuNTs which had nonspecific cellular uptake without any obvious cytotoxicity and exhibited excellent radiosensitization.
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Affiliation(s)
- S R Bhattarai
- Department of Experimental Radiation Oncology, M.D. Anderson Cancer Center, 1515 Holcombe Blvd, Houston, Texas 77030, USA
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Singh PK, Silakari O. Molecular dynamics and pharmacophore modelling studies of different subtype (ALK and EGFR (T790M)) inhibitors in NSCLC. SAR QSAR Environ Res 2017; 28:221-233. [PMID: 28290719 DOI: 10.1080/1062936x.2017.1300189] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/13/2016] [Accepted: 02/23/2017] [Indexed: 06/06/2023]
Abstract
Extensively validated 3D pharmacophore models for ALK (anaplastic lymphoma kinase) and EGFR (T790M) (epithelial growth factor receptor with acquired secondary mutation) were developed. The pharmacophore model for ALK (r2 = 0.96, q2 = 0.692) suggested that two hydrogen bond acceptors and three hydrophobic groups arranged in 3-D space are essential for the binding affinity of ALK inhibitors. Similarly, the pharmacophore model for EGFR (T790M) (r2 = 0.92, q2 = 0.72) suggested that the presence of a hydrogen bond acceptor, two hydrogen bond donors and a hydrophobic group plays vital role in binding of an inhibitor of EGFR (T790M). These pharmacophore models allowed searches for novel ALK and EGFR (T790M) dual inhibitors from multiconformer 3D databases (Asinex, Chembridge and Maybridge). Finally, the eight best hits were selected for molecular dynamics simulation, to study the stability of their complexes with both proteins and final binding orientations of these molecules. After molecular dynamics simulations, one hit has been predicted to possess good binding affinity for both ALK and EGFR (T790M), which can be further investigated for its experimental in-vitro/in-vivo activities.
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Affiliation(s)
- P K Singh
- a Molecular Modelling Lab (MML), Department of Pharmaceutical Sciences and Drug Research , Punjabi University , Patiala , Punjab , India
| | - O Silakari
- a Molecular Modelling Lab (MML), Department of Pharmaceutical Sciences and Drug Research , Punjabi University , Patiala , Punjab , India
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Ramachandran G, Miguel-Arribas A, Abia D, Singh PK, Crespo I, Gago-Córdoba C, Hao JA, Luque-Ortega JR, Alfonso C, Wu LJ, Boer DR, Meijer WJJ. Discovery of a new family of relaxases in Firmicutes bacteria. PLoS Genet 2017; 13:e1006586. [PMID: 28207825 PMCID: PMC5313138 DOI: 10.1371/journal.pgen.1006586] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2016] [Accepted: 01/16/2017] [Indexed: 11/19/2022] Open
Abstract
Antibiotic resistance is a serious global problem. Antibiotic resistance genes (ARG), which are widespread in environmental bacteria, can be transferred to pathogenic bacteria via horizontal gene transfer (HGT). Gut microbiomes are especially apt for the emergence and dissemination of ARG. Conjugation is the HGT route that is predominantly responsible for the spread of ARG. Little is known about conjugative elements of Gram-positive bacteria, including those of the phylum Firmicutes, which are abundantly present in gut microbiomes. A critical step in the conjugation process is the relaxase-mediated site- and strand-specific nick in the oriT region of the conjugative element. This generates a single-stranded DNA molecule that is transferred from the donor to the recipient cell via a connecting channel. Here we identified and characterized the relaxosome components oriT and the relaxase of the conjugative plasmid pLS20 of the Firmicute Bacillus subtilis. We show that the relaxase gene, named relLS20, is essential for conjugation, that it can function in trans and provide evidence that Tyr26 constitutes the active site residue. In vivo and in vitro analyses revealed that the oriT is located far upstream of the relaxase gene and that the nick site within oriT is located on the template strand of the conjugation genes. Surprisingly, the RelLS20 shows very limited similarity to known relaxases. However, more than 800 genes to which no function had been attributed so far are predicted to encode proteins showing significant similarity to RelLS20. Interestingly, these putative relaxases are encoded almost exclusively in Firmicutes bacteria. Thus, RelLS20 constitutes the prototype of a new family of relaxases. The identification of this novel relaxase family will have an important impact in different aspects of future research in the field of HGT in Gram-positive bacteria in general, and specifically in the phylum of Firmicutes, and in gut microbiome research. Antibiotics have saved the lives of millions. However, the emergence and spread of antibiotic resistance compromises the effectiveness of antibiotics. Genes conferring antibiotic resistance are often located on genetic elements that can be transferred to other bacteria. Conjugation is the predominant route responsible for spreading antibiotic resistance genes, and depends critically on a class of proteins called relaxases. These enzymes initiate conjugation by processing the DNA of the mobile element and are therefore an Achilles´ heel of the conjugation process. Although antibiotic resistance is an important health threat in both Gram-negative and Gram-positive bacteria, conjugation has so far been studied primarily in Gram-negative bacteria. Due to the extremely high concentration of bacteria, which favors conjugation, the intestinal gut is a hotspot for spreading antibiotic resistance. It is now known that a large part of the gut microbiome corresponds to Gram-positive bacteria, and many of these belong to the phylum Firmicutes. To better understand conjugation and specifically relaxases of Gram-positive conjugative elements we have identified and characterized the relaxase and the DNA region at which it acts of the conjugative plasmid pLS20 from the Gram-positive Firmicute Bacillus subtilis. We also show that the relaxase of pLS20 is the founding member of a new and large family of relaxases that is almost exclusively present in Firmicutes bacteria. This work will have important implications for the transfer of genes in Gram-positive bacteria in general and specifically for conjugation-mediated spread of antibiotic resistance in Firmicutes bacteria of the intestinal gut.
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Affiliation(s)
- Gayetri Ramachandran
- Centro de Biología Molecular "Severo Ochoa" (CSIC-UAM), Instituto de Biología Molecular "Eladio Viñuela" (CSIC), Universidad Autónoma, Canto Blanco, Madrid, Spain
| | - Andrés Miguel-Arribas
- Centro de Biología Molecular "Severo Ochoa" (CSIC-UAM), Instituto de Biología Molecular "Eladio Viñuela" (CSIC), Universidad Autónoma, Canto Blanco, Madrid, Spain
| | - David Abia
- Centro de Biología Molecular "Severo Ochoa" (CSIC-UAM), Instituto de Biología Molecular "Eladio Viñuela" (CSIC), Universidad Autónoma, Canto Blanco, Madrid, Spain
| | - Praveen K. Singh
- Centro de Biología Molecular "Severo Ochoa" (CSIC-UAM), Instituto de Biología Molecular "Eladio Viñuela" (CSIC), Universidad Autónoma, Canto Blanco, Madrid, Spain
| | - Isidro Crespo
- XALOC beamline, ALBA synchrotron Light Source, Cerdanyola del Vallès, Barcelona, Spain
| | - César Gago-Córdoba
- Centro de Biología Molecular "Severo Ochoa" (CSIC-UAM), Instituto de Biología Molecular "Eladio Viñuela" (CSIC), Universidad Autónoma, Canto Blanco, Madrid, Spain
| | - Jian An Hao
- Centro de Biología Molecular "Severo Ochoa" (CSIC-UAM), Instituto de Biología Molecular "Eladio Viñuela" (CSIC), Universidad Autónoma, Canto Blanco, Madrid, Spain
| | | | - Carlos Alfonso
- Centro de Investigaciones Biológicas (CSIC), Madrid, Spain
| | - Ling J. Wu
- Centre for Bacterial Cell Biology, Institute for Cell and Molecular Biosciences, Newcastle University, Newcastle Upon Tyne, United Kingdom
| | - D. Roeland Boer
- XALOC beamline, ALBA synchrotron Light Source, Cerdanyola del Vallès, Barcelona, Spain
| | - Wilfried J. J. Meijer
- Centro de Biología Molecular "Severo Ochoa" (CSIC-UAM), Instituto de Biología Molecular "Eladio Viñuela" (CSIC), Universidad Autónoma, Canto Blanco, Madrid, Spain
- * E-mail:
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Singh PK, Tamrakar D, Karki S, Menezes RG. Determination of Sex from the Foramen Magnum using 3DCT: A Nepalese Study. Kathmandu Univ Med J (KUMJ) 2017; 15:62-66. [PMID: 29446365] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Background Identification is of utmost importance in any medicolegal investigation with sex determination being one of the principle indicators of identity. Sexing of bones becomes easy when the skeletal remains are complete. However, the problem arises when the bones are fragmented. Many researchers have undertaken several studies in different populations to determine the sex with reasonable accuracy using numerous measurements of the skull including those of the foramen magnum. Objective The present study was aimed to find the sexual dimorphism of the foramen magnum in the Nepalese population by analyzing the antero-posterior length, transverse diameter and area of the foramen magnum. Method The antero-posterior length and transverse diameter of the foramen magnum were measured using three-dimensional computed tomography (3DCT) images of the head in a cohort of 100 Nepalese subjects. Radinsky's and Teixeria's formulae were used to calculate the area of the foramen magnum. Discriminate function analysis was used to analyze sex differences. Result Mean values of antero-posterior length and transverse diameter of the foramen magnum in males were higher than in females. The mean of the area calculated using Radinsky's formula was smaller than that calculated by Teixeira's formula and the areas calculated were higher in males. The measurements of the foramen magnum and the areas calculated showed significant difference (p<0.001) between males and females. Discriminate function analysis for the measurements of the foramen magnum and the areas calculated showed high predictability for both the sexes. Discriminate function analysis showed a maximum predictability of 75%. Conclusion Considering the percent of predictability of sex from the various variables related to the foramen magnum in the Nepalese population, it can be concluded that its restricted applicability in forensic investigations should be constrained to cases of fragmentary skull bases.
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Affiliation(s)
- P K Singh
- Department of Forensic Medicine, Kathmandu University School of Medical Sciences, Dhulikhel, Kavre, Nepal
| | - D Tamrakar
- Department of Community Medicine, Kathmandu University School of Medical Sciences, Dhulikhel, Kavre, Nepal
| | - S Karki
- Department of Radiodiagnosis and Imaging, Kathmandu University School of Medical Sciences, Dhulikhel, Kavre, Nepal
| | - R G Menezes
- Forensic Medicine Division, Department of Pathology, College of Medicine, University of Dammam, Dammam, Saudi Arabia
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Coothankandaswamy V, Cao S, Xu Y, Prasad PD, Singh PK, Reynolds CP, Yang S, Ogura J, Ganapathy V, Bhutia YD. Amino acid transporter SLC6A14 is a novel and effective drug target for pancreatic cancer. Br J Pharmacol 2016; 173:3292-3306. [PMID: 27747870 PMCID: PMC5738662 DOI: 10.1111/bph.13616] [Citation(s) in RCA: 82] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2016] [Revised: 08/16/2016] [Accepted: 08/17/2016] [Indexed: 01/04/2023] Open
Abstract
BACKGROUND AND PURPOSE Pancreatic cancer is a solid tumour that is often fatal. Hence, there is an urgent need to identify new drug targets for this disease. Highly proliferating cancer cells have an increased demand for nutrients and, therefore, need to up-regulate selective amino acid transporters. Here, we investigated which amino acid transporters are up-regulated in pancreatic cancer and whether any of these transporters has potential as a drug target for this fatal disease. EXPERIMENTAL APPROACH The expression of amino acid transporters in pancreatic cancer was analysed using publicly available microarray datasets, and the findings with the transporter SLC6A14 were validated by mRNA and protein analysis. The potential of SLC6A14 as a drug target was evaluated using a pharmacological blocker in vitro and in vivo. KEY RESULTS SLC6A14 was up-regulated several fold in patient-derived xenografts, primary tumour tissues and pancreatic cancer cells lines compared to normal pancreatic tissue or normal pancreatic epithelial cells. The magnitude of the up-regulation of SLC6A14 was the highest among the amino acid transporters examined. A pharmacological blocker of SLC6A14, α-methyltryptophan, induced amino acid starvation in pancreatic cancer cells and reduced the growth and proliferation of these cells, both in vitro and in vivo. CONCLUSION AND IMPLICATIONS The salient features of this study are that SLC6A14 is markedly up-regulated in pancreatic cancer and that pharmacological blockade of this transporter interferes with amino acid nutrition and reduces growth and proliferation of pancreatic cancer cells. These findings identify SLC6A14 as a novel druggable target for pancreatic cancer.
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Affiliation(s)
- V Coothankandaswamy
- Department of Biochemistry and Molecular BiologyAugusta UniversityAugustaGA30912USA
| | - S Cao
- Department of Biochemistry and Molecular BiologyUniversity of GeorgiaAthensGAUSA
| | - Y Xu
- Department of Biochemistry and Molecular BiologyUniversity of GeorgiaAthensGAUSA
| | - P D Prasad
- Department of Biochemistry and Molecular BiologyAugusta UniversityAugustaGA30912USA
| | - P K Singh
- Eppley Institute for Research in Cancer and Allied DiseasesUniversity of Nebraska Medical CenterOmahaNEUSA
| | - C P Reynolds
- Department of Cell Biology and Biochemistry and Cancer CenterTexas Tech University Health Sciences CenterLubbockTX30912USA
| | - S Yang
- Department of Cell Biology and Biochemistry and Cancer CenterTexas Tech University Health Sciences CenterLubbockTX30912USA
| | - J Ogura
- Department of Cell Biology and Biochemistry and Cancer CenterTexas Tech University Health Sciences CenterLubbockTX30912USA
| | - V Ganapathy
- Department of Cell Biology and Biochemistry and Cancer CenterTexas Tech University Health Sciences CenterLubbockTX30912USA
| | - Y D Bhutia
- Department of Cell Biology and Biochemistry and Cancer CenterTexas Tech University Health Sciences CenterLubbockTX30912USA
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Ter-Avetisyan S, Andreev A, Platonov K, Sung JH, Lee SK, Lee HW, Yoo JY, Singh PK, Ahmed H, Scullion C, Kakolee KF, Jeong TW, Hadjisolomou P, Borghesi M. Surface modulation and back reflection from foil targets irradiated by a Petawatt femtosecond laser pulse at oblique incidence. Opt Express 2016; 24:28104-28112. [PMID: 27906375 DOI: 10.1364/oe.24.028104] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
A significant level of back reflected laser energy was measured during the interaction of ultra-short, high contrast PW laser pulses with solid targets at 30° incidence. 2D PIC simulations carried out for the experimental conditions show that at the laser-target interface a dynamic regular structure is generated during the interaction, which acts as a grating (quasi-grating) and reflects back a significant amount of incident laser energy. With increasing laser intensity above 1018 W/cm2 the back reflected fraction increases due to the growth of the surface modulation to larger amplitudes. Above 1020 W/cm2 this increase results in the partial destruction of the quasi-grating structure and, hence, in the saturation of the back reflection efficiency. The PIC simulation results are in good agreement with the experimental findings, and, additionally, demonstrate that in presence of a small amount of pre-plasma this regular structure will be smeared out and the back reflection reduced.
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Gupta N, Shastri S, Singh PK, Jana M, Mridha A, Verma G, Kabra M. Nasopharyngeal teratoma, congenital diaphragmatic hernia and Dandy-Walker malformation - a yet uncharacterized syndrome. Clin Genet 2016; 90:470-471. [PMID: 27506516 DOI: 10.1111/cge.12830] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2016] [Revised: 07/05/2016] [Accepted: 07/06/2016] [Indexed: 11/28/2022]
Abstract
An association of congenital diaphragmatic hernia, dandy walker malformation and nasopharyngeal teratoma is very rare. Here, we report a fourth case with this association where chromosomal microarray and whole exome sequencing (WES) was performed to understand the underlying genetic basis. Findings of few variants especially a novel variation in HIRA provided some insights. An association of congenital diaphragmatic hernia, dandy walker malformation and nasopharyngeal teratoma is very rare. Here, we report a fourth case with this association where chromosomal microarray and whole exome sequencing (WES) was performed to understand the underlying genetic basis. Findings of few variants especially a novel variation in HIRA provided some insights.
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Affiliation(s)
- N Gupta
- Division of Genetics, Department of Pediatrics, All India Institute of Medical Sciences, New Delhi, India.
| | - S Shastri
- Division of Genetics, Department of Pediatrics, All India Institute of Medical Sciences, New Delhi, India
| | - P K Singh
- Division of Genetics, Department of Pediatrics, All India Institute of Medical Sciences, New Delhi, India
| | - M Jana
- Department of Radiodiagnosis, All India Institute of Medical Sciences, New Delhi, India
| | - A Mridha
- Department of Pathology, All India Institute of Medical Sciences, New Delhi, India
| | - G Verma
- Division of Genetics, Department of Pediatrics, All India Institute of Medical Sciences, New Delhi, India
| | - M Kabra
- Division of Genetics, Department of Pediatrics, All India Institute of Medical Sciences, New Delhi, India
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Prakash C, Mithra SVA, Singh PK, Mohapatra T, Singh NK. Unraveling the molecular basis of oxidative stress management in a drought tolerant rice genotype Nagina 22. BMC Genomics 2016. [PMID: 27716126 DOI: 10.6084/m9.figshare.c.3624881_d3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/09/2023] Open
Abstract
BACKGROUND Drought stress tolerance for crop improvement is an important goal worldwide. Drought is a complex trait, and it is vital to understand the complex physiological, biochemical, and molecular mechanisms of drought tolerance to tackle it effectively. Osmotic adjustment, oxidative stress management (OSM), and cell membrane stability (CMS) are major components of cellular tolerance under drought stress. In the current study, we explored the molecular basis of OSM in the drought tolerant rice variety, Nagina 22 and compared it with the popular drought sensitive rice variety, IR 64, under drought imposed at the reproductive stage, to understand how the parental polymorphisms correlate with the superiority of Nagina 22 and tolerant bulk populations under drought. RESULTS We generated recombinant inbred lines (RIL) from contrasting parents Nagina 22 and IR 64 and focussed on spikelet fertility (SF), in terms of its correlation with OSM, which is an important component of drought tolerance in Nagina 22. Based on SF under drought stress and its correlations with other yield related traits, we used superoxide dismutase (SOD), glutathione reductase (GR), and ascorbate peroxidase (APX) activity assays to establish the relationship between SF and OSM genes in the tolerant and sensitive lines. Among the OSM enzymes studied, GR had a significant and positive correlation with single plant yield (SPY) under drought stress. GR was also positively correlated with APX but negatively so with SOD. Interestingly, none of the enzyme-morphology correlations were significant under irrigated control (IC). Through genome-wide SNP analysis of the 21 genes encoding for OSM enzymes, we identified the functional polymorphisms between the parents and identified superior alleles. By using network analysis of OSM genes in rice, we identified the genes that are central to the OSM network. CONCLUSIONS From the biochemical and morphological data and the SNP analysis, the superiority of Nagina 22 in spikelet fertility under drought stress is because of its superior alleles for SOD (SOD2, SODCC1, SODA) and GR (GRCP2) rather than for APX, for which IR 64 had the superior allele (APX8). Nagina 22 can bypass APX8 by directly interacting with SODA. For nine of the 11 genes present in the central network, Nagina 22 had the superior alleles. We propose that Nagina 22 tolerance could mainly be because of SODA which is a reactive oxygen scavenger in mitochondria which is directly associated with spikelet fertility.
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Affiliation(s)
- Chandra Prakash
- ICAR-National Research Centre on Plant Biotechnology, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110 012, India
| | - S V Amitha Mithra
- ICAR-National Research Centre on Plant Biotechnology, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110 012, India.
| | - Praveen K Singh
- Division of Seed Science and Technology, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110 012, India
| | - T Mohapatra
- Indian Council of Agricultural Research, Krishi Bhavan, New Delhi, 110 001, India
| | - N K Singh
- ICAR-National Research Centre on Plant Biotechnology, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110 012, India
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Prakash C, Mithra SVA, Singh PK, Mohapatra T, Singh NK. Unraveling the molecular basis of oxidative stress management in a drought tolerant rice genotype Nagina 22. BMC Genomics 2016; 17:774. [PMID: 27716126 PMCID: PMC5050613 DOI: 10.1186/s12864-016-3131-2] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2016] [Accepted: 09/27/2016] [Indexed: 01/24/2023] Open
Abstract
BACKGROUND Drought stress tolerance for crop improvement is an important goal worldwide. Drought is a complex trait, and it is vital to understand the complex physiological, biochemical, and molecular mechanisms of drought tolerance to tackle it effectively. Osmotic adjustment, oxidative stress management (OSM), and cell membrane stability (CMS) are major components of cellular tolerance under drought stress. In the current study, we explored the molecular basis of OSM in the drought tolerant rice variety, Nagina 22 and compared it with the popular drought sensitive rice variety, IR 64, under drought imposed at the reproductive stage, to understand how the parental polymorphisms correlate with the superiority of Nagina 22 and tolerant bulk populations under drought. RESULTS We generated recombinant inbred lines (RIL) from contrasting parents Nagina 22 and IR 64 and focussed on spikelet fertility (SF), in terms of its correlation with OSM, which is an important component of drought tolerance in Nagina 22. Based on SF under drought stress and its correlations with other yield related traits, we used superoxide dismutase (SOD), glutathione reductase (GR), and ascorbate peroxidase (APX) activity assays to establish the relationship between SF and OSM genes in the tolerant and sensitive lines. Among the OSM enzymes studied, GR had a significant and positive correlation with single plant yield (SPY) under drought stress. GR was also positively correlated with APX but negatively so with SOD. Interestingly, none of the enzyme-morphology correlations were significant under irrigated control (IC). Through genome-wide SNP analysis of the 21 genes encoding for OSM enzymes, we identified the functional polymorphisms between the parents and identified superior alleles. By using network analysis of OSM genes in rice, we identified the genes that are central to the OSM network. CONCLUSIONS From the biochemical and morphological data and the SNP analysis, the superiority of Nagina 22 in spikelet fertility under drought stress is because of its superior alleles for SOD (SOD2, SODCC1, SODA) and GR (GRCP2) rather than for APX, for which IR 64 had the superior allele (APX8). Nagina 22 can bypass APX8 by directly interacting with SODA. For nine of the 11 genes present in the central network, Nagina 22 had the superior alleles. We propose that Nagina 22 tolerance could mainly be because of SODA which is a reactive oxygen scavenger in mitochondria which is directly associated with spikelet fertility.
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Affiliation(s)
- Chandra Prakash
- ICAR-National Research Centre on Plant Biotechnology, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110 012 India
| | - S. V. Amitha Mithra
- ICAR-National Research Centre on Plant Biotechnology, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110 012 India
| | - Praveen K. Singh
- Division of Seed Science and Technology, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110 012 India
| | - T. Mohapatra
- Indian Council of Agricultural Research, Krishi Bhavan, New Delhi, 110 001 India
| | - N. K. Singh
- ICAR-National Research Centre on Plant Biotechnology, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110 012 India
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Prakash C, Mithra SVA, Singh PK, Mohapatra T, Singh NK. Unraveling the molecular basis of oxidative stress management in a drought tolerant rice genotype Nagina 22. BMC Genomics 2016. [PMID: 27716126 DOI: 10.1186/s12864-016-3131-2do] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/16/2023] Open
Abstract
BACKGROUND Drought stress tolerance for crop improvement is an important goal worldwide. Drought is a complex trait, and it is vital to understand the complex physiological, biochemical, and molecular mechanisms of drought tolerance to tackle it effectively. Osmotic adjustment, oxidative stress management (OSM), and cell membrane stability (CMS) are major components of cellular tolerance under drought stress. In the current study, we explored the molecular basis of OSM in the drought tolerant rice variety, Nagina 22 and compared it with the popular drought sensitive rice variety, IR 64, under drought imposed at the reproductive stage, to understand how the parental polymorphisms correlate with the superiority of Nagina 22 and tolerant bulk populations under drought. RESULTS We generated recombinant inbred lines (RIL) from contrasting parents Nagina 22 and IR 64 and focussed on spikelet fertility (SF), in terms of its correlation with OSM, which is an important component of drought tolerance in Nagina 22. Based on SF under drought stress and its correlations with other yield related traits, we used superoxide dismutase (SOD), glutathione reductase (GR), and ascorbate peroxidase (APX) activity assays to establish the relationship between SF and OSM genes in the tolerant and sensitive lines. Among the OSM enzymes studied, GR had a significant and positive correlation with single plant yield (SPY) under drought stress. GR was also positively correlated with APX but negatively so with SOD. Interestingly, none of the enzyme-morphology correlations were significant under irrigated control (IC). Through genome-wide SNP analysis of the 21 genes encoding for OSM enzymes, we identified the functional polymorphisms between the parents and identified superior alleles. By using network analysis of OSM genes in rice, we identified the genes that are central to the OSM network. CONCLUSIONS From the biochemical and morphological data and the SNP analysis, the superiority of Nagina 22 in spikelet fertility under drought stress is because of its superior alleles for SOD (SOD2, SODCC1, SODA) and GR (GRCP2) rather than for APX, for which IR 64 had the superior allele (APX8). Nagina 22 can bypass APX8 by directly interacting with SODA. For nine of the 11 genes present in the central network, Nagina 22 had the superior alleles. We propose that Nagina 22 tolerance could mainly be because of SODA which is a reactive oxygen scavenger in mitochondria which is directly associated with spikelet fertility.
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Affiliation(s)
- Chandra Prakash
- ICAR-National Research Centre on Plant Biotechnology, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110 012, India
| | - S V Amitha Mithra
- ICAR-National Research Centre on Plant Biotechnology, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110 012, India.
| | - Praveen K Singh
- Division of Seed Science and Technology, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110 012, India
| | - T Mohapatra
- Indian Council of Agricultural Research, Krishi Bhavan, New Delhi, 110 001, India
| | - N K Singh
- ICAR-National Research Centre on Plant Biotechnology, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110 012, India
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Jeong TW, Singh PK, Scullion C, Ahmed H, Kakolee KF, Hadjisolomou P, Alejo A, Kar S, Borghesi M, Ter-Avetisyan S. Experimental evaluation of the response of micro-channel plate detector to ions with 10s of MeV energies. Rev Sci Instrum 2016; 87:083301. [PMID: 27587107 DOI: 10.1063/1.4959187] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
The absolute calibration of a microchannel plate (MCP) assembly using a Thomson spectrometer for laser-driven ion beams is described. In order to obtain the response of the whole detection system to the particles' impact, a slotted solid state nuclear track detector (CR-39) was installed in front of the MCP to record the ions simultaneously on both detectors. The response of the MCP (counts/particles) was measured for 5-58 MeV carbon ions and for protons in the energy range 2-17.3 MeV. The response of the MCP detector is non-trivial when the stopping range of particles becomes larger than the thickness of the detector. Protons with energies E ≳ 10 MeV are energetic enough that they can pass through the MCP detector. Quantitative analysis of the pits formed in CR-39 and the signal generated in the MCP allowed to determine the MCP response to particles in this energy range. Moreover, a theoretical model allows to predict the response of MCP at even higher proton energies. This suggests that in this regime the MCP response is a slowly decreasing function of energy, consistently with the decrease of the deposited energy. These calibration data will enable particle spectra to be obtained in absolute terms over a broad energy range.
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Affiliation(s)
- Tae Won Jeong
- Center for Relativistic Laser Science, Institute of Basic Science (IBS), Gwangju 61005, South Korea
| | - P K Singh
- Center for Relativistic Laser Science, Institute of Basic Science (IBS), Gwangju 61005, South Korea
| | - C Scullion
- School of Mathematics and Physics, The Queen's University of Belfast, Belfast BT7 1NN, United Kingdom
| | - H Ahmed
- School of Mathematics and Physics, The Queen's University of Belfast, Belfast BT7 1NN, United Kingdom
| | - K F Kakolee
- Center for Relativistic Laser Science, Institute of Basic Science (IBS), Gwangju 61005, South Korea
| | - P Hadjisolomou
- School of Mathematics and Physics, The Queen's University of Belfast, Belfast BT7 1NN, United Kingdom
| | - A Alejo
- School of Mathematics and Physics, The Queen's University of Belfast, Belfast BT7 1NN, United Kingdom
| | - S Kar
- School of Mathematics and Physics, The Queen's University of Belfast, Belfast BT7 1NN, United Kingdom
| | - M Borghesi
- School of Mathematics and Physics, The Queen's University of Belfast, Belfast BT7 1NN, United Kingdom
| | - S Ter-Avetisyan
- Center for Relativistic Laser Science, Institute of Basic Science (IBS), Gwangju 61005, South Korea
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85
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Ameri SK, Singh PK, D'Angelo R, Stoppel W, Black L, Sonkusale SR. Three dimensional graphene scaffold for cardiac tissue engineering and in-situ electrical recording. Annu Int Conf IEEE Eng Med Biol Soc 2016; 2016:4201-4203. [PMID: 28269209 DOI: 10.1109/embc.2016.7591653] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
In this paper, we present a three-dimensional graphene foam made of few layers of CVD grown graphene as a scaffold for growing cardiac cells and recording their electrical activity. Our results show that graphene foam not only provides an excellent extra-cellular matrix (ECM) for the culture of such electrogenic cells but also enables recording of its extracellular electrical activity in-situ. Recording is possible due to graphene's excellent conductivity. In this paper, we present our results on the fabrication of the graphene scaffold and initial studies on the culture of cardiac cell lines such as HL-1 and recording of their real-time electrical activity.
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86
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Singh PK, Karki RK, Palikh AK, Menezes RG. Sex Determination From the Bicondylar Width of the Femur: A Nepalese Study Using Digital X-ray Images. Kathmandu Univ Med J (KUMJ) 2016; 14:198-201. [PMID: 28814678] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Background One of the important components of forensic identification is sex determination. The prediction of sex becomes easy with a complete skeleton. The problem arises with mutilated and incomplete skeletal remains. The skull and pelvis are preferred for sex prediction, but not uncommonly, long bones are brought for forensic examination. The femur out stands as the most dimorphic long bone. The literature on sex determination from the femur in different population groups is in abundance. The forensic anthropology literature suggests that longitudinal dimensions are often less discriminating than the breadth and circumference of long bones. Many researchers have suggested that the bicondylar width of the femur is the most dimorphic dimension. Objective To evaluate the sexing potential of the bicondylar width of the femur in the Nepalese population using digital X-ray images. Method A sample of 200 digital X-ray images of the knee belonging to 100 males and 100 females was used to measure the bicondylar width of the right femur. These digital X-ray images were those of Nepalese patients who visited the Department of Radiology at the affiliate hospital of Kathmandu University School of Medical Sciences, Dhulikhel, Nepal for diagnostic and treatment purposes. Result The resent study reveals a statistically significant difference for the bicondylar width of the femur between males and females. A regression equation was derived with sectioning point 77.84. Using the regression equation the prediction of sex was 68% with an overlapping of 32%. Having a low prediction in comparison to other studies in different populations, 95% confidence interval for the mean was used to get a range of measurements of the bicondylar width for males and females. The range stated in the present study is 79.47 mm to 82.20 mm for males and 73.75 mm to 75.93 mm for females. Conclusion The bicondylar width of the femur cannot be individually recommended for sex determination in the Nepalese population, but could be considered if analyzed along with the other morphometric traits for sex determination.
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Affiliation(s)
- P K Singh
- Department of Forensic Medicine, Kathmandu University School of Medical Sciences, Dhulikhel, Kavre, Nepal
| | - R K Karki
- Department of Forensic Medicine, Kathmandu University School of Medical Sciences, Dhulikhel, Kavre, Nepal
| | - A K Palikh
- Department of Radiodiagnosis and Imaging, Kathmandu University School of Medical Sciences, Dhulikhel, Kavre, Nepal
| | - R G Menezes
- Forensic Medicine Division, Department of Pathology, College of Medicine, University of Dammam, Dammam, Saudi Arabia
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Singh PK, Kumar A. Mitochondria mediates caspase-dependent and independent retinal cell death in Staphylococcus aureus endophthalmitis. Cell Death Discov 2016; 2:16034. [PMID: 27551524 PMCID: PMC4979429 DOI: 10.1038/cddiscovery.2016.34] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2016] [Revised: 04/25/2016] [Accepted: 04/28/2016] [Indexed: 12/18/2022] Open
Abstract
Bacterial endophthalmitis, a vision-threatening complication of ocular surgery or trauma, is characterized by increased intraocular inflammation and retinal tissue damage. Although significant vision loss in endophthalmitis has been linked to retinal cell death, the underlying mechanisms of cell death remain elusive. In this study, using a mouse model of Staphylococcus aureus endophthalmitis and cultured human retinal Müller glia (MIO-M1 cell line), we demonstrate that S. aureus caused significant apoptotic cell death in the mouse retina and Müller glia, as evidenced by increased number of terminal dUTP nick end labeling and Annexin V and propidium iodide-positive cells. Immunohistochemistry and western blot studies revealed the reduction in mitochondrial membrane potential (JC-1 staining), release of cytochrome c into the cytosol, translocation of Bax to the mitochondria and the activation of caspase-9 and -3 in S. aureus-infected retina/retinal cells. In addition, the activation of PARP-1 and the release of apoptosis inducing factor from mitochondria was also observed in S. aureus-infected retinal cells. Inhibition studies using pan-caspase (Q-VD-OPH) and PARP-1 (DPQ) inhibitors showed significant reduction in S. aureus-induced retinal cell death both in vivo and in vitro. Together, our findings demonstrate that in bacterial endophthalmitis, retinal cells undergo apoptosis in the both caspase-dependent and independent manners, and mitochondria have a central role in this process. Hence, targeting the identified signaling pathways may provide the rationale to design therapeutic interventions to prevent bystander retinal tissue damage in bacterial endophthalmitis.
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Affiliation(s)
- P K Singh
- Kresge Eye Institute/Department of Ophthalmology, Wayne State University, Detroit, MI, USA
- Department of Anatomy and Cell Biology, Wayne State University, Detroit, MI, USA
| | - A Kumar
- Kresge Eye Institute/Department of Ophthalmology, Wayne State University, Detroit, MI, USA
- Department of Anatomy and Cell Biology, Wayne State University, Detroit, MI, USA
- Department of Immunology and Microbiology, Wayne State University, Detroit, MI, USA
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88
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Kumari R, Agrawal A, Dubey GP, Ilango K, Singh PK, Singh GPI. Safety evaluation of a polyherbal formulation containing hydroalcoholic extracts of Hippophae salicifolia, Nyctanthes arbor-tristis, Ocimum tenuiflorum, and Reinwardtia indica in rodents. J Biomed Res 2016; 30:248-50. [PMID: 27533935 PMCID: PMC4885174 DOI: 10.7555/jbr.30.20150056] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2015] [Revised: 07/28/2015] [Accepted: 12/09/2015] [Indexed: 11/12/2022] Open
Affiliation(s)
- Rinki Kumari
- Institute of Medical Sciences, Banaras Hindu University Varanasi - 221005, India
| | - Aruna Agrawal
- Institute of Medical Sciences, Banaras Hindu University Varanasi - 221005, India
| | - G P Dubey
- Institute of Medical Sciences, Banaras Hindu University Varanasi - 221005, India
| | - K Ilango
- Interdisciplinary School of Indian System of Medicine SRM University, Kattankulathur Kancheepuram Dist - 603203, India
| | | | - G P I Singh
- Adesh University, Barnala Road Bathinda - 151109, India
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89
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Singh PK, Markwick R, Lu L, Howell FV, Williams G, Doherty P. Assay and Inhibition of the Purified Catalytic Domain of Diacylglycerol Lipase Beta. Biochemistry 2016; 55:2713-21. [DOI: 10.1021/acs.biochem.6b00221] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Affiliation(s)
- Praveen K. Singh
- Wolfson Centre for Age-Related
Diseases, King’s College London, London SE1 9RT, United Kingdom
| | - Rachel Markwick
- Wolfson Centre for Age-Related
Diseases, King’s College London, London SE1 9RT, United Kingdom
| | - Leanne Lu
- Wolfson Centre for Age-Related
Diseases, King’s College London, London SE1 9RT, United Kingdom
| | - Fiona V. Howell
- Wolfson Centre for Age-Related
Diseases, King’s College London, London SE1 9RT, United Kingdom
| | - Gareth Williams
- Wolfson Centre for Age-Related
Diseases, King’s College London, London SE1 9RT, United Kingdom
| | - Patrick Doherty
- Wolfson Centre for Age-Related
Diseases, King’s College London, London SE1 9RT, United Kingdom
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90
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Agrawal D, Singh PK, Sinha S, Gupta DK, Satyarthee GD, Misra MC. Remaining unconscious: The burden of traumatic brain injuries in India. J Neurosci Rural Pract 2016; 6:520-2. [PMID: 26752896 PMCID: PMC4692009 DOI: 10.4103/0976-3147.165394] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022] Open
Abstract
INTRODUCTION It is well-known that severe traumatic brain injuries (TBI) have a poor outcome. However, what is not well-known is the outcome for those who survive but remain unconscious at the time of discharge from the hospital. AIMS AND OBJECTIVES To assess the outcome of severe TBI patients who have a motor response of M5 or lower on the Glasgow coma score (GCS) at discharge from a single centre in India. MATERIALS AND METHODS In this retrospective study carried at one trauma centre in India, a prospectively maintained neurotrauma registry was queried from May 2010 to February 2013 for patients who had severe traumatic brain injury (GCS ≤ 8) at admission and had a motor response of M5 or lower on the GCS at discharge. Demographic and clinical data were analyzed, and outcome Glasgow outcome scale (GOS) assessed at 6 months using a telephonic questionnaire. OBSERVATIONS AND RESULTS There were a total of 1525 patients with severe TBI in the study period. Of these 166 (10.9%) were unconscious (motor response M5 or lower on the GCS) at discharge from the hospital. 139 were males and 27 females with a mean age of 33.9 years. After a mean hospital stay of 24.31 days, the discharge motor score was M5 in 32 (19.3%), M4 in 44 (26.5%), M3 in 59 (35.5%), M2 in 44 (26.5%), and M1 in 9 (5.4%). Telephonic follow-up was available in 102 (61.4%) of the patients. 54 (52.9%) patients had died and 32 (31.4%) remained unconscious (vegetative) at 6 months. Only 16 patients (15.7%) had a good outcome (GOS 1-2) at 6 months following an injury. CONCLUSIONS This is the only study of its kind on patients who remain unconscious at discharge following severe TBI and reveals that around 50% will die and another 30% remains vegetative at 6 months of discharge. Only a small percentage (15% in our study) will become conscious and partially integrated in the society.
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Affiliation(s)
- Deepak Agrawal
- Department of Neurosurgery, JPNA Trauma Centre, All India Institute of Medical Sciences, New Delhi, India
| | - P K Singh
- Department of Neurosurgery, JPNA Trauma Centre, All India Institute of Medical Sciences, New Delhi, India
| | - S Sinha
- Department of Neurosurgery, JPNA Trauma Centre, All India Institute of Medical Sciences, New Delhi, India
| | - D K Gupta
- Department of Neurosurgery, JPNA Trauma Centre, All India Institute of Medical Sciences, New Delhi, India
| | - G D Satyarthee
- Department of Neurosurgery, JPNA Trauma Centre, All India Institute of Medical Sciences, New Delhi, India
| | - M C Misra
- Department of Surgery, JPNA Trauma Centre, All India Institute of Medical Sciences, New Delhi, India
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91
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Agrawal A, Goyal A, Goyal S, Kumari S, Singh PK. Seroprevalence of hepatitis B and syphilis co-infection in human immunodeficiency virus-positive antiretroviral therapy attendees and human immunodeficiency virus-negative sexually transmitted infection attendees. Indian J Sex Transm Dis AIDS 2016; 37:94-5. [DOI: 10.4103/0253-7184.180291] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022] Open
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Singh R, Singh Y, Xalaxo S, Verulkar S, Yadav N, Singh S, Singh N, Prasad KSN, Kondayya K, Rao PVR, Rani MG, Anuradha T, Suraynarayana Y, Sharma PC, Krishnamurthy SL, Sharma SK, Dwivedi JL, Singh AK, Singh PK, Singh NK, Kumar R, Chetia SK, Ahmad T, Rai M, Perraju P, Pande A, Singh DN, Mandal NP, Reddy JN, Singh ON, Katara JL, Marandi B, Swain P, Sarkar RK, Singh DP, Mohapatra T, Padmawathi G, Ram T, Kathiresan RM, Paramsivam K, Nadarajan S, Thirumeni S, Nagarajan M, Singh AK, Vikram P, Kumar A, Septiningshih E, Singh US, Ismail AM, Mackill D, Singh NK. From QTL to variety-harnessing the benefits of QTLs for drought, flood and salt tolerance in mega rice varieties of India through a multi-institutional network. Plant Sci 2016; 242:278-287. [PMID: 26566845 DOI: 10.1016/j.plantsci.2015.08.008] [Citation(s) in RCA: 78] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/20/2015] [Revised: 08/10/2015] [Accepted: 08/13/2015] [Indexed: 05/21/2023]
Abstract
Rice is a staple cereal of India cultivated in about 43.5Mha area but with relatively low average productivity. Abiotic factors like drought, flood and salinity affect rice production adversely in more than 50% of this area. Breeding rice varieties with inbuilt tolerance to these stresses offers an economically viable and sustainable option to improve rice productivity. Availability of high quality reference genome sequence of rice, knowledge of exact position of genes/QTLs governing tolerance to abiotic stresses and availability of DNA markers linked to these traits has opened up opportunities for breeders to transfer the favorable alleles into widely grown rice varieties through marker-assisted backcross breeding (MABB). A large multi-institutional project, "From QTL to variety: marker-assisted breeding of abiotic stress tolerant rice varieties with major QTLs for drought, submergence and salt tolerance" was initiated in 2010 with funding support from Department of Biotechnology, Government of India, in collaboration with International Rice Research Institute, Philippines. The main focus of this project is to improve rice productivity in the fragile ecosystems of eastern, northeastern and southern part of the country, which bear the brunt of one or the other abiotic stresses frequently. Seven consistent QTLs for grain yield under drought, namely, qDTY1.1, qDTY2.1, qDTY2.2, qDTY3.1, qDTY3.2, qDTY9.1 and qDTY12.1 are being transferred into submergence tolerant versions of three high yielding mega rice varieties, Swarna-Sub1, Samba Mahsuri-Sub1 and IR 64-Sub1. To address the problem of complete submergence due to flash floods in the major river basins, the Sub1 gene is being transferred into ten highly popular locally adapted rice varieties namely, ADT 39, ADT 46, Bahadur, HUR 105, MTU 1075, Pooja, Pratikshya, Rajendra Mahsuri, Ranjit, and Sarjoo 52. Further, to address the problem of soil salinity, Saltol, a major QTL for salt tolerance is being transferred into seven popular locally adapted rice varieties, namely, ADT 45, CR 1009, Gayatri, MTU 1010, PR 114, Pusa 44 and Sarjoo 52. Genotypic background selection is being done after BC2F2 stage using an in-house designed 50K SNP chip on a set of twenty lines for each combination, identified with phenotypic similarity in the field to the recipient parent. Near-isogenic lines with more than 90% similarity to the recipient parent are now in advanced generation field trials. These climate smart varieties are expected to improve rice productivity in the adverse ecologies and contribute to the farmer's livelihood.
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Affiliation(s)
- Renu Singh
- National Research Centre on Plant Biotechnology, New Delhi, India
| | - Yashi Singh
- National Research Centre on Plant Biotechnology, New Delhi, India
| | - Suchit Xalaxo
- Indira Gandhi Krishi Vishwavidyalaya, Raipur, Chhatisgarh, India
| | - S Verulkar
- Indira Gandhi Krishi Vishwavidyalaya, Raipur, Chhatisgarh, India
| | - Neera Yadav
- National Research Centre on Plant Biotechnology, New Delhi, India
| | - Shweta Singh
- National Research Centre on Plant Biotechnology, New Delhi, India
| | - Nisha Singh
- National Research Centre on Plant Biotechnology, New Delhi, India
| | - K S N Prasad
- Acharya N.G. Ranga Agricultural University, Maruteru, AP, India
| | - K Kondayya
- Acharya N.G. Ranga Agricultural University, Maruteru, AP, India
| | - P V Ramana Rao
- Acharya N.G. Ranga Agricultural University, Maruteru, AP, India
| | - M Girija Rani
- Acharya N.G. Ranga Agricultural University, Maruteru, AP, India
| | - T Anuradha
- Acharya N.G. Ranga Agricultural University, Maruteru, AP, India
| | - Y Suraynarayana
- Acharya N.G. Ranga Agricultural University, Maruteru, AP, India
| | - P C Sharma
- ICAR-Central Soil Salinity Research Institute, Karnal, Haryana, India
| | - S L Krishnamurthy
- ICAR-Central Soil Salinity Research Institute, Karnal, Haryana, India
| | - S K Sharma
- ICAR-Central Soil Salinity Research Institute, Karnal, Haryana, India
| | - J L Dwivedi
- Acharya Narendra Dev University of Agriculture and Technology, Faizabad, UP, India
| | - A K Singh
- Acharya Narendra Dev University of Agriculture and Technology, Faizabad, UP, India
| | - P K Singh
- Banaras Hindu University, Varanasi, UP, India
| | - N K Singh
- Rajendra Agricultural University, Samastipur, Bihar, India
| | - Rajesh Kumar
- Rajendra Agricultural University, Samastipur, Bihar, India
| | - S K Chetia
- Assam Agricultural University, Jorhat, Assam, India
| | - T Ahmad
- Assam Agricultural University, Jorhat, Assam, India
| | - M Rai
- Central Agricultural University, Umiam, Meghalaya, India
| | - P Perraju
- Jawahar Lal Nehru Krishi Vishwavidyalaya, Reewa, MP, India
| | - Anita Pande
- Birsa Agricultural University, Ranchi, Jharkhand, India
| | - D N Singh
- Birsa Agricultural University, Ranchi, Jharkhand, India
| | - N P Mandal
- ICAR-Central Rice Research Institute, Cuttack, Odisha, India
| | - J N Reddy
- ICAR-Central Rice Research Institute, Cuttack, Odisha, India
| | - O N Singh
- ICAR-Central Rice Research Institute, Cuttack, Odisha, India
| | - J L Katara
- ICAR-Central Rice Research Institute, Cuttack, Odisha, India
| | - B Marandi
- ICAR-Central Rice Research Institute, Cuttack, Odisha, India
| | - P Swain
- ICAR-Central Rice Research Institute, Cuttack, Odisha, India
| | - R K Sarkar
- ICAR-Central Rice Research Institute, Cuttack, Odisha, India
| | - D P Singh
- ICAR-Central Rice Research Institute, Cuttack, Odisha, India
| | - T Mohapatra
- ICAR-Central Rice Research Institute, Cuttack, Odisha, India
| | - G Padmawathi
- ICAR-Indian Institute of Rice Research, Hyderabad, India
| | - T Ram
- ICAR-Indian Institute of Rice Research, Hyderabad, India
| | | | - K Paramsivam
- Pandit Jawaharlal Nehru College of Agriculture & Research Institute, Karikal, Puducherry, India
| | - S Nadarajan
- Pandit Jawaharlal Nehru College of Agriculture & Research Institute, Karikal, Puducherry, India
| | - S Thirumeni
- Pandit Jawaharlal Nehru College of Agriculture & Research Institute, Karikal, Puducherry, India
| | - M Nagarajan
- ICAR-Indian Agricultural Research Institute, Aduthurai, TN, India
| | - A K Singh
- ICAR-Indian Agricultural Research Institute, New Delhi, India
| | - Prashant Vikram
- International Rice Research Institute, Los Banos, Philippines
| | - Arvind Kumar
- International Rice Research Institute, Los Banos, Philippines
| | - E Septiningshih
- International Rice Research Institute, Los Banos, Philippines
| | - U S Singh
- International Rice Research Institute, Los Banos, Philippines
| | - A M Ismail
- International Rice Research Institute, Los Banos, Philippines
| | - D Mackill
- International Rice Research Institute, Los Banos, Philippines
| | - Nagendra K Singh
- National Research Centre on Plant Biotechnology, New Delhi, India.
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Affiliation(s)
- P K Singh
- Regional Director, World Health Organization, Regional Office for South East Asia, New Delhi, India
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Kotwal J, Kotwal A, Bhalla S, Singh PK, Nair V. Effectiveness of homocysteine lowering vitamins in prevention of thrombotic tendency at high altitude area: A randomized field trial. Thromb Res 2015; 136:758-62. [PMID: 26319423 DOI: 10.1016/j.thromres.2015.08.001] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2015] [Revised: 06/23/2015] [Accepted: 08/03/2015] [Indexed: 10/23/2022]
Abstract
INTRODUCTION A higher risk of thrombosis has been reported on prolonged stay at high altitude (HAA). Lowering of homocysteine (Hcy) has been found to reduce the risk of venous thrombosis. A randomized field trial was conducted with primary question whether Hcy lowering agents have any effect on the incidence of thrombosis at HAA amongst Indian soldiers as compared to existing interventions. METHODS All units freshly inducted to HAA were randomized into intervention (Vit B12 1000 microgram/day, B6 3mg/day & folic acid 5mg/day) and control arms, with a sample size of 12,000 person-years in each arm. RESULTS At the end of one year stay at HAA, Folate and B 12 levels decreased significantly in control arm. The levels of Hcy, fibrinogen and plasminogen activator inhibitor (PAI 1) were lower and nitric oxide higher in intervention arm as compared to control arm (p<0.05). At the end of 2years, 5 thrombotic episodes occurred in the intervention arm and 17 in control arm with RR of 0.29 (95% CI 0.11-0.80), attributable fraction % (AFe) 70.59%, Population attributable risk percent 54.55% and Protective Fraction 240%. CONCLUSION Intervention with B12 and folic acid is effective in reducing Hcy, PAI 1, fibrinogen levels and increasing NO levels at 1yr as compared to control arm and reducing the incidence of thrombosis at 2years of stay at HAA. Thus, vitamin B 12, B6 and folic acid intervention is safe and effective method of reducing morbidity and mortality caused by HAA induced coagulopathy.
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Affiliation(s)
- Jyoti Kotwal
- Department of Hematology, Sir Gangaram Hospital & GRIPMER, Rajinder Nagar, New Delhi, 110060, India.
| | - Atul Kotwal
- Commandant Hospital, Leh and Consultant Comm Med & Epidemiologist.
| | - Sandeep Bhalla
- Director AFMS (Medical Research), O/o DGAFMS, New Delhi, India.
| | - P K Singh
- Addl DGMS (Army), O/o DGMS (Army), New Delhi, India.
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Rinkoo AV, Singh SP, Mishra S, Vashishta G, Chandra H, Singh PK. Does effective designing of operation theaters contribute towards staff satisfaction. Facilities 2015. [DOI: 10.1108/f-11-2013-0082] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Purpose
– This study aims to measure the staff satisfaction achieved with regard to the recently furnished modular operation theaters (MOTs).
Design/methodology/approach
– A cross-sectional study through questionnaire-based interviews was done. Desired sample size for ANOVA design came out to be 25 per level at a level of significance of 5 per cent and a power of 85 per cent.
Findings
– Overall, mean rating of the satisfaction of the staff was 7.52 with a standard deviation (SD) of 2.35. Mean ratings (with standard deviations) of surgeons, nurses and anesthetists were 7.14 (1.26), 7.21 (0.95) and 8.21 (0.48), respectively. One sample t-test showed that all the three categories of staff were satisfied. Post-hoc test revealed that the anesthetists were significantly more satisfied than the surgeons (p = 0) and the nurses (p = 0.001). Maximum satisfier was aseptic environment provided by the MOTs. Hatch box with ultraviolet technology also attracted high ratings from all the three categories. Staff considered all the probable advantages of MOTs, except air showers, significant with regard to its satisfaction and morale.
Originality/value
– Findings suggest that initiatives such as effectively designed MOTs may contribute toward the satisfaction of all categories of staff working in operation theaters (OTs), which, in turn, may probably lead to better overall performance of these facilities. It is desirable that hospital planners in modern health-care systems give adequate importance to finer aspects of OT designing.
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Abstract
Adrenal incidentalomas are adrenal masses discovered incidental to imaging studies performed for reasons unrelated to adrenal pathology. Although most adrenal incidentalomas are non-functioning benign adenomas, their increasing prevalence presents diagnostic and therapeutic challenges. The assessment of adrenal incidentalomas is aimed at deciding whether or not the tumour should be surgically removed. Adrenalectomy is indicated for phaeochromocytoma, other symptomatic hormone-secreting tumours and those with a high risk of malignancy. Biochemical screening for tumour hypersecretion is mandatory in all adrenal incidentalomas, since hormone secreting tumours may be clinically silent. The diagnosis of phaeochromocytoma is of paramount importance because of its life-threatening complications. Non-functioning adrenal incidentalomas need assessment for risk of malignancy, and this is based on the size of the tumour and its imaging characteristics. An observational policy with periodic radiological and biochemical reassessment is pursued in patients with non-functioning incidentalomas with low malignancy risk. The duration and frequency of reassessment remains unclear, as the natural history of adrenal incidentalomas has yet to be clearly defined, and there is a lack of controlled studies comparing surgical intervention with observation. However, the possibility of acquiring autonomous hypersecretion or conversion to malignancy in an incidentaloma diagnosed to be a benign non-functioning lesion is very low, and most patients may be safely discharged after an initial follow-up period of 2 years.
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Affiliation(s)
- P K Singh
- Endocrinology and Diabetes, University Hospitals of North Staffordshire, Stoke on Trent, UK
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Nagarajan G, Swami SK, Dahiya SS, Narnaware SD, Mehta SC, Singh PK, Singh R, Tuteja FC, Patil NV. Characterization of GM-CSF-inhibitory factor and Uracil DNA glycosylase encoding genes from camel pseudocowpoxvirus. Res Vet Sci 2015; 100:291-6. [PMID: 25816930 DOI: 10.1016/j.rvsc.2015.03.013] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2014] [Revised: 02/13/2015] [Accepted: 03/06/2015] [Indexed: 11/29/2022]
Abstract
The present study describes the PCR amplification of GM-CSF-inhibitory factor (GIF) and Uracil DNA glycosylase (UDG) encoding genes of pseudocowpoxvirus (PCPV) from the Indian Dromedaries (Camelus dromedarius) infected with contagious ecthyma using the primers based on the corresponding gene sequences of human PCPV and reindeer PCPV, respectively. The length of GIF gene of PCPV obtained from camel is 795 bp and due to the addition of one cytosine residue at position 374 and one adenine residue at position 516, the open reading frame (ORF) got altered, resulting in the production of truncated polypeptide. The ORF of UDG encoding gene of camel PCPV is 696 bp encoding a polypeptide of 26.0 kDa. Comparison of amino acid sequence homologies of GIF and UDG of camel PCPV revealed that the camel PCPV is closer to ORFV and PCPV (reference stains of both human and reindeer), respectively.
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Affiliation(s)
- G Nagarajan
- National Research Centre on Camel, Post Bag No.7, Jorbeer, Bikaner, Rajasthan 334 001, India.
| | - Shelesh Kumar Swami
- National Research Centre on Camel, Post Bag No.7, Jorbeer, Bikaner, Rajasthan 334 001, India
| | - Shyam Singh Dahiya
- National Research Centre on Camel, Post Bag No.7, Jorbeer, Bikaner, Rajasthan 334 001, India
| | - S D Narnaware
- National Research Centre on Camel, Post Bag No.7, Jorbeer, Bikaner, Rajasthan 334 001, India
| | - S C Mehta
- National Research Centre on Camel, Post Bag No.7, Jorbeer, Bikaner, Rajasthan 334 001, India
| | - P K Singh
- National Research Centre on Camel, Post Bag No.7, Jorbeer, Bikaner, Rajasthan 334 001, India
| | - Raghvendar Singh
- National Research Centre on Camel, Post Bag No.7, Jorbeer, Bikaner, Rajasthan 334 001, India
| | - F C Tuteja
- National Research Centre on Camel, Post Bag No.7, Jorbeer, Bikaner, Rajasthan 334 001, India
| | - N V Patil
- National Research Centre on Camel, Post Bag No.7, Jorbeer, Bikaner, Rajasthan 334 001, India
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Mahapatra M, Singh PK, Agarwal M, Prabhu M, Mishra P, Seth T, Tyagi S, Patil HP, Saxena R. Epidemiology, Clinico-Haematological Profile and Management of Aplastic Anaemia: AIIMS Experience. J Assoc Physicians India 2015; 63:30-35. [PMID: 26529865] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
BACKGROUND The incidence of aplastic anaemia (AA) is higher in Asia than in the West. The precise incidence of AA in India is not known due to lack of epidemiological study. 20-40% of pancytopenic patients in referral centres are of aplastic anaemia. PATIENTS AND METHODS This was an analysis of 1501 patients diagnosed with aplastic anaemia over a period of seven and half years (January 2007- June 2014) attending the Aplastic clinic of department of haematology of All India Institute of Medical Sciences, New Delhi. The details regarding medical history, physical examination, complete blood count, bone marrow aspirate and biopsy, treatment received, were retrieved. Inherited bone marrow failure was screened in patients below 35 years. Treatment response was analysed for various treatment modalities. RESULTS 1501 patients of AA from 20 different states of India were analysed. The bulk of patients were from Uttar Pradesh (28.7%), Bihar (23.6%), Delhi/NCR (20%) and Haryana (7%).The average number of new aplastic anaemia patients enrolled per year 214 (range: 101 -263). The median age at presentation was 25 years (range 2-83),with M;F - 2.3:1. Severity of AA revealed: severe (SAA): 75%, very severe (VSAA): 15%, non-severe (NSAA): 10%. Inherited bone marrow failure syndromes constituted 5% (75 patients) of all aplastic anaemia patients. The most common clinical presentations were pallor (97%), bleeding manifestations (69.6%) and fever (54%). The haematological parameters showed: median level of haemoglobin level: 5.9 gm/dL, WBC: 2700/mm3, ANC: 380/mm3, platelet: 1 0000/mm3. PNH clone was present in 13.5% of patients. 107 patients (7%) were lost to follow up or expired before any treatment was initiated. Only 69 patients (4.5%) received treatment with HLA-matched sibling stem cell transplantation and another 232 (15.5%) patients received ATG plus cyclosporine as immunosuppressive therapy. Seven hundred thirteenpatients (47.5%) received cyclosporine. The overall response to various treatment modalities was: HLA matched sibling haematopoietic stem cell transplant: 75.3%, Anti-thymocyte globulin plus cyclosporine: 58.7%, cyclosporine plus androgen: 45.6%, cyclosporine alone: 32.2%. CONCLUSION Management of AA is a real challenge in developing countries.This is one of the largest case series from a single centre from India. It is our endeavour to reduce the detrimental outcome by increasing awareness among patients and referring physicians to reduce the delay between diagnosis and treatment.
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Kumar M, Kumar R, Singh PK, Singh M, Yadav KK, Mittal HK. Catchment delineation and morphometric analysis using geographical information system. Water Sci Technol 2015; 72:1168-1175. [PMID: 26398032 DOI: 10.2166/wst.2015.303] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
The geographical information system (GIS) has emerged as an efficient tool in delineation of drainage patterns of watershed planning and management. The morphometric parameters of basins can address linear, areal and relief aspects. The study deals with the integrated watershed management of Baliya micro-watersheds, located in the Udaipur district of Rajasthan, India. Morphometric analysis in hydrological investigation is an important aspect and it is inevitable in the development and management of drainage basins. The determination of linear, areal and relief parameters indicate fairly good significance. The low value of the bifurcation ratio of 4.19 revealed that the drainage pattern has not been distorted by structural disturbance. The high value of the elongation ratio (0.68) compared to the circulatory ratio (0.27) indicates an elongated shape of the watershed. The high value of drainage density (5.39 km/km(2)) and stream frequency (12.32) shows that the region has impermeable subsoil material under poor vegetative cover with a low relief factor. The morphometric parameters of relief ratio (0.041) and relative relief (0.99%) show that the watershed can be treated using GIS techniques to determine the morphometric presence of dendritic drainage pattern, with a view to selecting the soil and water conservation measures and water harvesting.
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Affiliation(s)
- Manoj Kumar
- Department of Soil and Water Engineering, College of Technology and Engineering, Udaipur 313001, India
| | - Rohitashw Kumar
- Division of Agricultural Engineering, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, Shalimar Campus, Srinagar 190025, India E-mail:
| | - P K Singh
- Department of Soil and Water Engineering, College of Technology and Engineering, Udaipur 313001, India
| | - Manjeet Singh
- Department of Soil and Water Engineering, College of Technology and Engineering, Udaipur 313001, India
| | - K K Yadav
- Department of Soil and Water Engineering, College of Technology and Engineering, Udaipur 313001, India
| | - H K Mittal
- Department of Soil and Water Engineering, College of Technology and Engineering, Udaipur 313001, India
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Anupam K, Singh PK, Singhal A, Ramasethu R, Chhatopadhyay R. A case of resistant malarial infection with hyper reactive malarial splenomegaly. J Mar Med Soc 2015. [DOI: 10.4103/0975-3605.203404] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022] Open
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