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Haroon H, Ho AMC, Gupta VK, Dasari S, Sellgren CM, Cervenka S, Engberg G, Eren F, Erhardt S, Sung J, Choi DS. Cerebrospinal fluid proteomic signatures are associated with symptom severity of first-episode psychosis. J Psychiatr Res 2024; 171:306-315. [PMID: 38340697 PMCID: PMC10995989 DOI: 10.1016/j.jpsychires.2024.02.002] [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] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 09/18/2023] [Revised: 01/04/2024] [Accepted: 02/01/2024] [Indexed: 02/12/2024]
Abstract
Apart from their diagnostic, monitoring, or prognostic utility in clinical settings, molecular biomarkers may be instrumental in understanding the pathophysiology of psychiatric disorders, including schizophrenia. Using untargeted metabolomics, we recently identified eight cerebrospinal fluid (CSF) metabolites unique to first-episode psychosis (FEP) subjects compared to healthy controls (HC). In this study, we sought to investigate the CSF proteomic signatures associated with FEP. We employed 16-plex tandem mass tag (TMT) mass spectrometry (MS) to examine the relative protein abundance in CSF samples of 15 individuals diagnosed with FEP and 15 age-and-sex-matched healthy controls (HC). Multiple linear regression model (MLRM) identified 16 differentially abundant CSF proteins between FEP and HC at p < 0.01. Among them, the two most significant CSF proteins were collagen alpha-2 (IV) chain (COL4A2: standard mean difference [SMD] = -1.12, p = 1.64 × 10-4) and neuron-derived neurotrophic factor (NDNF: SMD = -1.03, p = 4.52 × 10-4) both of which were down-regulated in FEP subjects compared to HC. We also identified several potential CSF proteins associated with the pathophysiology and the symptom profile and severity in FEP subjects, including COL4A2, NDNF, hornerin (HRNR), contactin-6 (CNTN6), voltage-dependent calcium channel subunit alpha-2/delta-3 (CACNA2D3), tropomyosin alpha-3 chain (TPM3 and TPM4). Moreover, several protein signatures were associated with cognitive performance. Although the results need replication, our exploratory study suggests that CSF protein signatures can be used to increase the understanding of the pathophysiology of psychosis.
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Affiliation(s)
- Humza Haroon
- Department of Molecular Pharmacology and Experimental Therapeutics, Mayo Clinic College of Medicine and Science, Rochester, MN, USA
| | - Ada Man-Choi Ho
- Department of Psychiatry and Psychology, Mayo Clinic College of Medicine and Science, Rochester, MN, USA
| | - Vinod K Gupta
- Division of Surgery Research, Department of Surgery, Rochester, MN, USA; Microbiome Program, Center for Individualized Medicine, Rochester, MN, USA
| | - Surendra Dasari
- Division of Biomedical Statistics and Informatics, Mayo Clinic College of Medicine and Science, Rochester, MN, USA
| | - Carl M Sellgren
- Department of Physiology and Pharmacology, Karolinska Institutet, Stockholm, Sweden; Centre for Psychiatry Research, Department of Clinical Neuroscience, Karolinska Institutet & Stockholm Health Care Services, Region Stockholm, Stockholm, Sweden
| | - Simon Cervenka
- Centre for Psychiatry Research, Department of Clinical Neuroscience, Karolinska Institutet & Stockholm Health Care Services, Region Stockholm, Stockholm, Sweden; Department of Medical Sciences, Psychiatry, Uppsala University, Uppsala, Sweden
| | - Göran Engberg
- Department of Physiology and Pharmacology, Karolinska Institutet, Stockholm, Sweden
| | - Feride Eren
- Department of Physiology and Pharmacology, Karolinska Institutet, Stockholm, Sweden
| | - Sophie Erhardt
- Department of Physiology and Pharmacology, Karolinska Institutet, Stockholm, Sweden
| | - Jaeyun Sung
- Division of Surgery Research, Department of Surgery, Rochester, MN, USA; Microbiome Program, Center for Individualized Medicine, Rochester, MN, USA; Division of Rheumatology, Department of Internal Medicine, Rochester, MN, USA
| | - Doo-Sup Choi
- Department of Molecular Pharmacology and Experimental Therapeutics, Mayo Clinic College of Medicine and Science, Rochester, MN, USA; Department of Psychiatry and Psychology, Mayo Clinic College of Medicine and Science, Rochester, MN, USA; Neuroscience Program, Mayo Clinic College of Medicine and Science, Rochester, MN, USA.
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Gupta VK, Rajendraprasad S, Ozkan M, Ramachandran D, Ahmad S, Bakken JS, Laudanski K, Gajic O, Bauer B, Zec S, Freeman DW, Khanna S, Shah A, Skalski JH, Sung J, Karnatovskaia LV. Safety, feasibility, and impact on the gut microbiome of kefir administration in critically ill adults. BMC Med 2024; 22:80. [PMID: 38378568 PMCID: PMC10880344 DOI: 10.1186/s12916-024-03299-x] [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] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/09/2023] [Accepted: 02/12/2024] [Indexed: 02/22/2024] Open
Abstract
BACKGROUND Dysbiosis of the gut microbiome is frequent in the intensive care unit (ICU), potentially leading to a heightened risk of nosocomial infections. Enhancing the gut microbiome has been proposed as a strategic approach to mitigate potential adverse outcomes. While prior research on select probiotic supplements has not successfully shown to improve gut microbial diversity, fermented foods offer a promising alternative. In this open-label phase I safety and feasibility study, we examined the safety and feasibility of kefir as an initial step towards utilizing fermented foods to mitigate gut dysbiosis in critically ill patients. METHODS We administered kefir in escalating doses (60 mL, followed by 120 mL after 12 h, then 240 mL daily) to 54 critically ill patients with an intact gastrointestinal tract. To evaluate kefir's safety, we monitored for gastrointestinal symptoms. Feasibility was determined by whether patients received a minimum of 75% of their assigned kefir doses. To assess changes in the gut microbiome composition following kefir administration, we collected two stool samples from 13 patients: one within 72 h of admission to the ICU and another at least 72 h after the first stool sample. RESULTS After administering kefir, none of the 54 critically ill patients exhibited signs of kefir-related bacteremia. No side effects like bloating, vomiting, or aspiration were noted, except for diarrhea in two patients concurrently on laxatives. Out of the 393 kefir doses prescribed for all participants, 359 (91%) were successfully administered. We were able to collect an initial stool sample from 29 (54%) patients and a follow-up sample from 13 (24%) patients. Analysis of the 26 paired samples revealed no increase in gut microbial α-diversity between the two timepoints. However, there was a significant improvement in the Gut Microbiome Wellness Index (GMWI) by the second timepoint (P = 0.034, one-sided Wilcoxon signed-rank test); this finding supports our hypothesis that kefir administration can improve gut health in critically ill patients. Additionally, the known microbial species in kefir were found to exhibit varying levels of engraftment in patients' guts. CONCLUSIONS Providing kefir to critically ill individuals is safe and feasible. Our findings warrant a larger evaluation of kefir's safety, tolerability, and impact on gut microbiome dysbiosis in patients admitted to the ICU. TRIAL REGISTRATION NCT05416814; trial registered on June 13, 2022.
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Affiliation(s)
- Vinod K Gupta
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, USA
- Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, USA
| | - Sanu Rajendraprasad
- Division of Pulmonary and Critical Care Medicine, Mayo Clinic, Rochester, MN, USA
| | - Mahmut Ozkan
- Division of Pulmonary and Critical Care Medicine, Mayo Clinic, Rochester, MN, USA
| | | | - Sumera Ahmad
- Division of Pulmonary and Critical Care Medicine, Mayo Clinic, Rochester, MN, USA
| | - Johan S Bakken
- Section of Infectious Diseases, St Luke's Hospital, Duluth, MN, USA
| | - Krzysztof Laudanski
- Department of Anesthesiology and Perioperative Care, Mayo Clinic, Rochester, MN, USA
| | - Ognjen Gajic
- Division of Pulmonary and Critical Care Medicine, Mayo Clinic, Rochester, MN, USA
| | - Brent Bauer
- Department of Internal Medicine, Mayo Clinic, Rochester, MN, USA
| | - Simon Zec
- Department of Anesthesiology and Perioperative Care, Beth Israel Deaconess Medical Center, Boston, MA, USA
| | - David W Freeman
- Department of Neurologic Surgery, Mayo Clinic, Jacksonville, FL, USA
| | - Sahil Khanna
- Division of Gastroenterology, Department of Medicine, Mayo Clinic, Rochester, MN, USA
| | - Aditya Shah
- Division of Public Health, Infectious Diseases, and Occupational Medicine, Department of Medicine, Mayo Clinic, Rochester, MN, USA
| | - Joseph H Skalski
- Division of Pulmonary and Critical Care Medicine, Mayo Clinic, Rochester, MN, USA
| | - Jaeyun Sung
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, USA.
- Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, USA.
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, USA.
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Kumar R, Bhardwaj P, Soni M, Singh R, Choudhary S, Virmani N, Asrani RK, Patial V, Sharma D, Gupta VK, Tripathi BN. Modulation of mammary tumour progression using murine model by ethanol root extract of Saussurea costus (falc.) lipsch. J Ethnopharmacol 2024; 319:117302. [PMID: 37858751 DOI: 10.1016/j.jep.2023.117302] [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] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2023] [Revised: 09/27/2023] [Accepted: 10/08/2023] [Indexed: 10/21/2023]
Abstract
ETHNOPHARMACOLOGICAL RELEVANCE Breast cancer is a major cause of death among human females across the globe. The anti-neoplastic agents or therapies used for the treatment of cancers can enhance longevity but are subsequently observed to deteriorate the quality of life due to the extensive side effects produced. Saussurea costus is a potential medicinal plant of the Himalayas with noticeable ethnopharmacological properties. The phytochemicals present in Saussurea costus are responsible for anti-carcinogenic potential and warranted nil or minimal side effects of Saussurea costus and directed to use this plant as a preventive or therapeutic drug candidate against cancers. AIM OF THE STUDY The present study was planned to evaluate the anti-neoplastic activity of Saussurea costus root extract (SL) in rat mammary tumour model. MATERIALS AND METHODS The anti-neoplastic activity of SL root extract at 3 different doses (100, 250 and 500 mg/kg BW) for 18 weeks against 12-dimethylbenz (a) anthracene (DMBA)-induced mammary tumours in Sprague Dawley (SD) female rats was analyzed through serum biochemistry (ALT, AST, ALP, Total protein, Creatinine and BUN), oxidative stress parameters (Lipid peroxidation, Catalase and Reduced glutathione), pro-inflammatory cytokines (TNF-α and NF-κB), immunohistochemical markers (Ki-67, MMP-9 and VEGF), real-time PCR (PCNA, p53, bax, bcl-2 and caspase-3, genes) and molecular docking. RESULTS Inhibition of tumour parameters, minimal alteration in the liver (ALT, AST and ALP) and kidney enzymes (Creatinine and BUN), decreased activity of MDA, elevated levels of GSH and catalase, reduction in the levels of pro-inflammatory cytokines i.e. TNF-α and NF-κB, reduced gross and histomorphological changes, declined expression of Ki-67, MMP-9 and VEGF in vivo rat model, mRNA expression of cancer-related genes and docking of dehydrocostus lactone and costunolide with NF-κB and TNF-α demonstrated the chemopreventive action of SL root extract. CONCLUSIONS The in-vivo trial elucidates anti-neoplastic activity of Saussurea costus root extract as demonstrated through the reduction of biochemical indices, oxidative stress parameters, histological changes, pro-inflammatory cytokines (NF-κB and TNF-α), cellular proliferation (Ki-67), metastases (MMP-9) and neovascularization (VEGF) markers with highest anti-neoplastic effect of SL extract at the dose of 500 mg/kg body weight. Therefore, the present study signifies the need to use the active principles present in the root extract of Saussurea costus against breast cancer as a therapeutic regimen.
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Affiliation(s)
- Rakesh Kumar
- Department of Veterinary Pathology, Dr. G.C Negi College of Veterinary and Animal Sciences, CSK Himachal Pradesh Agricultural University, Palampur, Himachal Pradesh, 176062, India.
| | - Pallavi Bhardwaj
- Department of Veterinary Pharmacology and Toxicology, Dr. G.C Negi College of Veterinary and Animal Sciences, CSK Himachal Pradesh Agricultural University, Palampur, Himachal Pradesh, 176062, India
| | - Mridul Soni
- Department of Veterinary Pathology, Dr. G.C Negi College of Veterinary and Animal Sciences, CSK Himachal Pradesh Agricultural University, Palampur, Himachal Pradesh, 176062, India
| | - Rahul Singh
- Department of Veterinary Pathology, Dr. G.C Negi College of Veterinary and Animal Sciences, CSK Himachal Pradesh Agricultural University, Palampur, Himachal Pradesh, 176062, India
| | - Sahil Choudhary
- Department of Veterinary Pathology, Dr. G.C Negi College of Veterinary and Animal Sciences, CSK Himachal Pradesh Agricultural University, Palampur, Himachal Pradesh, 176062, India
| | - Nitin Virmani
- ICAR- National Research Centre on Equines, Sirsa Road, Hisar, Haryana, 125001, India
| | - R K Asrani
- Department of Veterinary Pathology, Dr. G.C Negi College of Veterinary and Animal Sciences, CSK Himachal Pradesh Agricultural University, Palampur, Himachal Pradesh, 176062, India
| | - Vikram Patial
- Division of Dietetics and Nutrition Technology, CSIR-Institute of Himalayan Bioresource Technology, Palampur, Himachal Pradesh, 176061, India
| | - Dixit Sharma
- Department of Animal Sciences, Central University of Himachal Pradesh, Sahpur, Kangra, Himachal Pradesh, 176062, India
| | - V K Gupta
- Department of Veterinary Pathology, Dr. G.C Negi College of Veterinary and Animal Sciences, CSK Himachal Pradesh Agricultural University, Palampur, Himachal Pradesh, 176062, India
| | - B N Tripathi
- Sher-e-Kashmir University of Agricultural Sciences and Technology (SKUAST) of Jammu, Jammu and Kashmir, 180009, India.
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Chang D, Gupta VK, Hur B, Cobo-López S, Cunningham KY, Han NS, Lee I, Kronzer VL, Teigen LM, Karnatovskaia LV, Longbrake EE, Davis JM, Nelson H, Sung J. Gut Microbiome Wellness Index 2 for Enhanced Health Status Prediction from Gut Microbiome Taxonomic Profiles. bioRxiv 2023:2023.09.30.560294. [PMID: 37873265 PMCID: PMC10592848 DOI: 10.1101/2023.09.30.560294] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2023]
Abstract
Recent advancements in human gut microbiome research have revealed its crucial role in shaping innovative predictive healthcare applications. We introduce Gut Microbiome Wellness Index 2 (GMWI2), an advanced iteration of our original GMWI prototype, designed as a robust, disease-agnostic health status indicator based on gut microbiome taxonomic profiles. Our analysis involved pooling existing 8069 stool shotgun metagenome data across a global demographic landscape to effectively capture biological signals linking gut taxonomies to health. GMWI2 achieves a cross-validation balanced accuracy of 80% in distinguishing healthy (no disease) from non-healthy (diseased) individuals and surpasses 90% accuracy for samples with higher confidence (i.e., outside the "reject option"). The enhanced classification accuracy of GMWI2 outperforms both the original GMWI model and traditional species-level α-diversity indices, suggesting a more reliable tool for differentiating between healthy and non-healthy phenotypes using gut microbiome data. Furthermore, by reevaluating and reinterpreting previously published data, GMWI2 provides fresh insights into the established understanding of how diet, antibiotic exposure, and fecal microbiota transplantation influence gut health. Looking ahead, GMWI2 represents a timely pivotal tool for evaluating health based on an individual's unique gut microbial composition, paving the way for the early screening of adverse gut health shifts. GMWI2 is offered as an open-source command-line tool, ensuring it is both accessible to and adaptable for researchers interested in the translational applications of human gut microbiome science.
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Affiliation(s)
- Daniel Chang
- Department of Computer Science and Engineering, University of Minnesota, Minneapolis, MN 55455, USA
| | - Vinod K Gupta
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN 55905, USA
- Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN 55905, USA
| | - Benjamin Hur
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN 55905, USA
- Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN 55905, USA
| | - Sergio Cobo-López
- Viral Information Institute, San Diego State University, San Diego, CA 92182, USA
| | - Kevin Y Cunningham
- Bioinformatics and Computational Biology Program, University of Minnesota, Minneapolis, MN 55455, USA
| | - Nam Soo Han
- Brain Korea 21 Center for Bio-Health Industry, Department of Food Science and Biotechnology, Chungbuk National University, Cheongju, South Korea
| | - Insuk Lee
- Department of Biotechnology, Yonsei University, Seoul 03722, South Korea
| | - Vanessa L Kronzer
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN 55905, USA
| | - Levi M Teigen
- Department of Food Science and Nutrition, University of Minnesota, St. Paul, MN 55108, USA
| | | | - Erin E Longbrake
- Department of Neurology, Yale University, New Haven, CT 06510, USA
| | - John M Davis
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN 55905, USA
| | - Heidi Nelson
- Emeritus, Department of Surgery, Mayo Clinic, Rochester, MN 55905, USA
| | - Jaeyun Sung
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN 55905, USA
- Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN 55905, USA
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN 55905, USA
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Lee DH, Seong H, Chang D, Gupta VK, Kim J, Cheon S, Kim G, Sung J, Han NS. Evaluating the prebiotic effect of oligosaccharides on gut microbiome wellness using in vitro fecal fermentation. NPJ Sci Food 2023; 7:18. [PMID: 37160919 PMCID: PMC10170090 DOI: 10.1038/s41538-023-00195-1] [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] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2022] [Accepted: 04/24/2023] [Indexed: 05/11/2023] Open
Abstract
We previously proposed the Gut Microbiome Wellness Index (GMWI), a predictor of disease presence based on a gut microbiome taxonomic profile. As an application of this index for food science research, we applied GMWI as a quantitative tool for measuring the prebiotic effect of oligosaccharides. Mainly, in an in vitro anaerobic batch fermentation system, fructooligosaccharides (FOS), galactooligosaccharides (GOS), xylooligosaccharides (XOS), inulin (IN), and 2'-fucosyllactose (2FL), were mixed separately with fecal samples obtained from healthy adult volunteers. To find out how 24 h prebiotic fermentation influenced the GMWI values in their respective microbial communities, changes in species-level relative abundances were analyzed in the five prebiotics groups, as well as in two control groups (no substrate addition at 0 h and for 24 h). The GMWI of fecal microbiomes treated with any of the five prebiotics (IN (0.48 ± 0.06) > FOS (0.47 ± 0.03) > XOS (0.33 ± 0.02) > GOS (0.26 ± 0.02) > 2FL (0.16 ± 0.06)) were positive, which indicates an increase of relative abundances of microbial species previously found to be associated with a healthy, disease-free state. In contrast, the GMWI of samples without substrate addition for 24 h (-0.60 ± 0.05) reflected a non-healthy, disease-harboring microbiome state. Compared to the original prebiotic index (PI) and α-diversity metrics, GMWI provides a more data-driven, evidence-based indexing system for evaluating the prebiotic effect of food components. This study demonstrates how GMWI can be applied as a novel PI in dietary intervention studies, with wider implications for designing personalized diets based on their impact on gut microbiome wellness.
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Affiliation(s)
- Dong Hyeon Lee
- Brain Korea 21 Center for Bio-Health Industry, Department of Food Science and Biotechnology, Chungbuk National University, Cheongju, Chungbuk, 28644, Republic of Korea
| | - Hyunbin Seong
- Brain Korea 21 Center for Bio-Health Industry, Department of Food Science and Biotechnology, Chungbuk National University, Cheongju, Chungbuk, 28644, Republic of Korea
| | - Daniel Chang
- Department of Computer Science and Engineering, University of Minnesota-Twin Cities, Minneapolis, MN, 55455, USA
| | - Vinod K Gupta
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, 55905, USA
- Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, 55905, USA
| | - Jiseung Kim
- Brain Korea 21 Center for Bio-Health Industry, Department of Food Science and Biotechnology, Chungbuk National University, Cheongju, Chungbuk, 28644, Republic of Korea
| | - Seongwon Cheon
- Brain Korea 21 Center for Bio-Health Industry, Department of Food Science and Biotechnology, Chungbuk National University, Cheongju, Chungbuk, 28644, Republic of Korea
| | - Geonhee Kim
- Brain Korea 21 Center for Bio-Health Industry, Department of Food Science and Biotechnology, Chungbuk National University, Cheongju, Chungbuk, 28644, Republic of Korea
- Gaesinbiotech, Cheongju, Chungbuk, 28644, Republic of Korea
| | - Jaeyun Sung
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, 55905, USA.
- Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, 55905, USA.
- Division of Rheumatology, Department of Internal Medicine, Mayo Clinic, Rochester, MN, 55905, USA.
| | - Nam Soo Han
- Brain Korea 21 Center for Bio-Health Industry, Department of Food Science and Biotechnology, Chungbuk National University, Cheongju, Chungbuk, 28644, Republic of Korea.
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Cunningham KY, Hur B, Gupta VK, Arment CA, Wright KA, Mason TG, Peterson LS, Bekele DI, Schaffer DE, Bailey ML, Delger KE, Crowson CS, Myasoedova E, Zeng H, Rodriguez M, Weyand CM, Davis JM, Sung J. Patients with ACPA-positive and ACPA-negative rheumatoid arthritis show different serological autoantibody repertoires and autoantibody associations with disease activity. Sci Rep 2023; 13:5360. [PMID: 37005480 PMCID: PMC10066987 DOI: 10.1038/s41598-023-32428-4] [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] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2022] [Accepted: 03/27/2023] [Indexed: 04/04/2023] Open
Abstract
Patients with rheumatoid arthritis (RA) can test either positive or negative for circulating anti-citrullinated protein antibodies (ACPA) and are thereby categorized as ACPA-positive (ACPA+) or ACPA-negative (ACPA-), respectively. In this study, we aimed to elucidate a broader range of serological autoantibodies that could further explain immunological differences between patients with ACPA+ RA and ACPA- RA. On serum collected from adult patients with ACPA+ RA (n = 32), ACPA- RA (n = 30), and matched healthy controls (n = 30), we used a highly multiplex autoantibody profiling assay to screen for over 1600 IgG autoantibodies that target full-length, correctly folded, native human proteins. We identified differences in serum autoantibodies between patients with ACPA+ RA and ACPA- RA compared with healthy controls. Specifically, we found 22 and 19 autoantibodies with significantly higher abundances in ACPA+ RA patients and ACPA- RA patients, respectively. Among these two sets of autoantibodies, only one autoantibody (anti-GTF2A2) was common in both comparisons; this provides further evidence of immunological differences between these two RA subgroups despite sharing similar symptoms. On the other hand, we identified 30 and 25 autoantibodies with lower abundances in ACPA+ RA and ACPA- RA, respectively, of which 8 autoantibodies were common in both comparisons; we report for the first time that the depletion of certain autoantibodies may be linked to this autoimmune disease. Functional enrichment analysis of the protein antigens targeted by these autoantibodies showed an over-representation of a range of essential biological processes, including programmed cell death, metabolism, and signal transduction. Lastly, we found that autoantibodies correlate with Clinical Disease Activity Index, but associate differently depending on patients' ACPA status. In all, we present candidate autoantibody biomarker signatures associated with ACPA status and disease activity in RA, providing a promising avenue for patient stratification and diagnostics.
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Affiliation(s)
- Kevin Y Cunningham
- Bioinformatics and Computational Biology Program, University of Minnesota Twin Cities, Minneapolis, MN, 55455, USA
| | - Benjamin Hur
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, 55905, USA
- Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, 55905, USA
| | - Vinod K Gupta
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, 55905, USA
- Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, 55905, USA
| | - Courtney A Arment
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, 55905, USA
| | - Kerry A Wright
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, 55905, USA
| | - Thomas G Mason
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, 55905, USA
| | - Lynne S Peterson
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, 55905, USA
| | - Delamo I Bekele
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, 55905, USA
| | - Daniel E Schaffer
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, 55905, USA
| | - Marissa L Bailey
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, 55905, USA
| | - Kara E Delger
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, 55905, USA
| | - Cynthia S Crowson
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, 55905, USA
- Department of Quantitative Health Sciences, Mayo Clinic, Rochester, MN, 55905, USA
| | - Elena Myasoedova
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, 55905, USA
- Department of Quantitative Health Sciences, Mayo Clinic, Rochester, MN, 55905, USA
| | - Hu Zeng
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, 55905, USA
- Department of Immunology, Mayo Clinic, Rochester, MN, 55905, USA
| | - Moses Rodriguez
- Department of Neurology, Mayo Clinic, Rochester, MN, 55905, USA
| | - Cornelia M Weyand
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, 55905, USA
- Department of Immunology, Mayo Clinic, Rochester, MN, 55905, USA
| | - John M Davis
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, 55905, USA
| | - Jaeyun Sung
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, 55905, USA.
- Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, 55905, USA.
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, 55905, USA.
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7
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Chang D, Gupta VK, Hur B, Cunningham KY, Sung J. GMWI-webtool: a user-friendly browser application for assessing health through metagenomic gut microbiome profiling. Bioinformatics 2023; 39:7008324. [PMID: 36707995 PMCID: PMC9897175 DOI: 10.1093/bioinformatics/btad061] [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] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2022] [Revised: 01/07/2023] [Accepted: 01/25/2023] [Indexed: 01/29/2023] Open
Abstract
SUMMARY We recently introduced the Gut Microbiome Wellness Index (GMWI), a stool metagenome-based indicator for assessing health by determining the likelihood of disease given the state of one's gut microbiome. The calculation of our wellness index depends on the relative abundances of health-prevalent and health-scarce species. Encouragingly, GMWI has already been utilized in various studies focusing on differences in the gut microbiome between cases and controls. Herein, we introduce the GMWI-webtool, a user-friendly browser application that computes GMWI, health-prevalent/-scarce species' relative abundances, and α-diversities from stool shotgun metagenome taxonomic profiles. Users of our interactive online tool can visualize their results and compare them side-by-side with those from our pooled reference dataset of metagenomes, as well as export data in.csv format and high-resolution figures. AVAILABILITY AND IMPLEMENTATION GMWI-webtool is freely available here: https://gmwi-webtool.github.io/. SUPPLEMENTARY INFORMATION Supplementary data are available at Bioinformatics online.
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Affiliation(s)
- Daniel Chang
- Department of Computer Science and Engineering, University of Minnesota, Minneapolis, MN 55455, USA
| | - Vinod K Gupta
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN 55905, USA.,Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN 55905, USA
| | - Benjamin Hur
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN 55905, USA.,Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN 55905, USA
| | - Kevin Y Cunningham
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN 55905, USA.,Bioinformatics and Computational Biology Program, University of Minnesota, Minneapolis, MN 55455, USA
| | - Jaeyun Sung
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN 55905, USA.,Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN 55905, USA.,Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN 55905, USA
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Gupta VK. Reader Response: Association of Nonalcoholic Fatty Liver Disease and Fibrosis With Incident Dementia and Cognition: The Rotterdam Study. Neurology 2023; 100:103-104. [PMID: 36623920 DOI: 10.1212/wnl.0000000000201715] [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: 01/10/2023] Open
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9
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Kumar R, Zafer A, Dubey PK, Kumar A, Singh M, Sharma ND, Jaiswal SK, Prakash O, Kumar H, Gupta VK, Aggarwal A, Yadav S. Design and development of mechanical test bench for testing and calibration of multiple blood pressure measuring devices. Rev Sci Instrum 2023; 94:014102. [PMID: 36725551 DOI: 10.1063/5.0100958] [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] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2022] [Accepted: 12/04/2022] [Indexed: 06/18/2023]
Abstract
Blood pressure (BP) measurement is an important physiological parameter for human health monitoring, which plays a significant role in the diagnosis of many incurable diseases. However, due to inaccuracies in the different types of BP measuring devices, the calibration of these BP measuring instruments is a major concern for a medical practitioner. Currently, these devices' calibration, testing, and validation are performed using rigorous methods with complex clinical trials and following the available documentary standards. This article describes the design and development of an indigenous mechanical test bench (MTB) system for the testing and calibration of multiple BP devices, as per International Organization of Legal Metrology (OIML) recommended documents e.g., OIML R 16-1 and OIML R 16-2. The developed system can test and calibrate 20 BP devices, simultaneously. The traceability of the developed MTB is established by performing its calibration against the Air Piston Gauge, a national primary vacuum standard. The estimated expanded measurement uncertainty evaluated is found to be ±0.11 mmHg, which is almost one order better than the measurement uncertainty required for the test and calibration of BP measuring instruments as per standard. The MTB has successfully been used to test and calibrate several BP measuring instruments. The data of one such device is reported herein as an indicator of the performance process. The calibration of these BP measuring instruments was performed in the static mode, and the estimated expanded measurement uncertainty was found to be ±1.25 mmHg. The developed MTB system would prove to be an excellent instrument for calibration laboratories, hospitals, regulatory agencies, and other users to test and calibrate 20 BP measuring devices simultaneously and cost-effectively.
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Affiliation(s)
- Rahul Kumar
- CSIR-National Physical Laboratory, Dr. K. S. Krishnan Marg, New Delhi 110012, India
| | - Afaqul Zafer
- CSIR-National Physical Laboratory, Dr. K. S. Krishnan Marg, New Delhi 110012, India
| | - P K Dubey
- CSIR-National Physical Laboratory, Dr. K. S. Krishnan Marg, New Delhi 110012, India
| | - Ashok Kumar
- CSIR-National Physical Laboratory, Dr. K. S. Krishnan Marg, New Delhi 110012, India
| | - Megha Singh
- CSIR-National Physical Laboratory, Dr. K. S. Krishnan Marg, New Delhi 110012, India
| | - Nita Dilawar Sharma
- CSIR-National Physical Laboratory, Dr. K. S. Krishnan Marg, New Delhi 110012, India
| | - S K Jaiswal
- CSIR-National Physical Laboratory, Dr. K. S. Krishnan Marg, New Delhi 110012, India
| | - Om Prakash
- CSIR-National Physical Laboratory, Dr. K. S. Krishnan Marg, New Delhi 110012, India
| | - Harish Kumar
- CSIR-National Physical Laboratory, Dr. K. S. Krishnan Marg, New Delhi 110012, India
| | - V K Gupta
- CSIR-National Physical Laboratory, Dr. K. S. Krishnan Marg, New Delhi 110012, India
| | | | - Sanjay Yadav
- CSIR-National Physical Laboratory, Dr. K. S. Krishnan Marg, New Delhi 110012, India
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Gupta VK. Reader Response: Relationship Between Headache Characteristics and a Remote History of TBI in Veterans: A 10-Year Retrospective Chart Review. Neurology 2022; 99:920-921. [PMID: 36376088 DOI: 10.1212/wnl.0000000000201511] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2022] [Accepted: 09/19/2022] [Indexed: 06/16/2023] Open
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11
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Gupta VK. Reader Response: Long-term Effect of Regular Physical Activity and Exercise Habits in Patients With Early Parkinson Disease. Neurology 2022; 99:133. [PMID: 35851552 DOI: 10.1212/wnl.0000000000200924] [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: 05/18/2022] [Accepted: 05/18/2022] [Indexed: 11/15/2022] Open
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12
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Crous PW, Sandoval-Denis M, Costa MM, Groenewald JZ, van Iperen AL, Starink-Willemse M, Hernández-Restrepo M, Kandemir H, Ulaszewski B, de Boer W, Abdel-Azeem AM, Abdollahzadeh J, Akulov A, Bakhshi M, Bezerra JDP, Bhunjun CS, Câmara MPS, Chaverri P, Vieira WAS, Decock CA, Gaya E, Gené J, Guarro J, Gramaje D, Grube M, Gupta VK, Guarnaccia V, Hill R, Hirooka Y, Hyde KD, Jayawardena RS, Jeewon R, Jurjević Ž, Korsten L, Lamprecht SC, Lombard L, Maharachchikumbura SSN, Polizzi G, Rajeshkumar KC, Salgado-Salazar C, Shang QJ, Shivas RG, Summerbell RC, Sun GY, Swart WJ, Tan YP, Vizzini A, Xia JW, Zare R, González CD, Iturriaga T, Savary O, Coton M, Coton E, Jany JL, Liu C, Zeng ZQ, Zhuang WY, Yu ZH, Thines M. Fusarium and allied fusarioid taxa (FUSA). 1. Fungal Syst Evol 2022; 9:161-200. [PMID: 35978986 PMCID: PMC9355104 DOI: 10.3114/fuse.2022.09.08] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [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: 03/21/2022] [Accepted: 06/14/2022] [Indexed: 11/07/2022] Open
Abstract
Seven Fusarium species complexes are treated, namely F. aywerte species complex (FASC) (two species), F. buharicum species complex (FBSC) (five species), F. burgessii species complex (FBURSC) (three species), F. camptoceras species complex (FCAMSC) (three species), F. chlamydosporum species complex (FCSC) (eight species), F. citricola species complex (FCCSC) (five species) and the F. concolor species complex (FCOSC) (four species). New species include Fusicolla elongata from soil (Zimbabwe), and Neocosmospora geoasparagicola from soil associated with Asparagus officinalis (Netherlands). New combinations include Neocosmospora akasia, N. awan, N. drepaniformis, N. duplosperma, N. geoasparagicola, N. mekan, N. papillata, N. variasi and N. warna. Newly validated taxa include Longinectria gen. nov., L. lagenoides, L. verticilliforme, Fusicolla gigas and Fusicolla guangxiensis. Furthermore, Fusarium rosicola is reduced to synonymy under N. brevis. Finally, the genome assemblies of Fusarium secorum (CBS 175.32), Microcera coccophila (CBS 310.34), Rectifusarium robinianum (CBS 430.91), Rugonectria rugulosa (CBS 126565), and Thelonectria blattea (CBS 952.68) are also announced here. Citation: Crous PW, Sandoval-Denis M, Costa MM, Groenewald JZ, van Iperen AL, Starink-Willemse M, Hernández-Restrepo M, Kandemir H, Ulaszewski B, de Boer W, Abdel-Azeem AM, Abdollahzadeh J, Akulov A, Bakhshi M, Bezerra JDP, Bhunjun CS, Câmara MPS, Chaverri P, Vieira WAS, Decock CA, Gaya E, Gené J, Guarro J, Gramaje D, Grube M, Gupta VK, Guarnaccia V, Hill R, Hirooka Y, Hyde KD, Jayawardena RS, Jeewon R, Jurjević Ž, Korsten L, Lamprecht SC, Lombard L, Maharachchikumbura SSN, Polizzi G, Rajeshkumar KC, Salgado-Salazar C, Shang Q-J, Shivas RG, Summerbell RC, Sun GY, Swart WJ, Tan YP, Vizzini A, Xia JW, Zare R, González CD, Iturriaga T, Savary O, Coton M, Coton E, Jany J-L, Liu C, Zeng Z-Q, Zhuang W-Y, Yu Z-H, Thines M (2022). Fusarium and allied fusarioid taxa (FUSA). 1. Fungal Systematics and Evolution 9: 161-200. doi: 10.3114/fuse.2022.09.08.
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Affiliation(s)
- P W Crous
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands.,Wageningen University and Research Centre (WUR), Laboratory of Phytopathology, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands
| | - M Sandoval-Denis
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands
| | - M M Costa
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands
| | - J Z Groenewald
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands
| | - A L van Iperen
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands
| | - M Starink-Willemse
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands
| | - M Hernández-Restrepo
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands
| | - H Kandemir
- Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands
| | - B Ulaszewski
- Senckenberg Biodiversity and Climate Research Center, Senckenberganlage 25, D-60325 Frankfurt am Main, Germany
| | - W de Boer
- Department of Microbial Ecology, Netherlands Institute of Ecology (NIOO-KNAW), Wageningen, Netherlands.,Soil Biology Group, Wageningen University, Wageningen, Netherlands
| | - A M Abdel-Azeem
- Systematic Mycology Lab., Botany and Microbiology Department, Faculty of Science, Suez Canal University, Ismailia 41522, Egypt
| | - J Abdollahzadeh
- Department of Plant Protection, Faculty of Agriculture, University of Kurdistan, P.O. Box 416, Sanandaj, Iran
| | - A Akulov
- Department of Mycology and Plant Resistance, V. N. Karazin Kharkiv National University, Maidan Svobody 4, 61022 Kharkiv, Ukraine
| | - M Bakhshi
- Iranian Research Institute of Plant Protection, Agricultural Research, Education and Extension Organization (AREEO), P.O. Box 19395-1454, Tehran, Iran
| | - J D P Bezerra
- Setor de Micologia / Departamento de Biociências e Tecnologia, Instituto de Patologia Tropical e Saúde Pública, Rua 235 - s/n - Setor Universitário - CEP: 74605-050, Universidade Federal de Goiás / Federal University of Goiás, Goiânia, Brasil / Goiânia, Brazil
| | - C S Bhunjun
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai 57100, Thailand
| | - M P S Câmara
- Departamento de Agronomia, Universidade Federal Rural de Pernambuco, Recife, 52171-900, PE, Brazil
| | - P Chaverri
- Escuela de Biología and Centro de Investigaciones en Productos Naturales, Universidad de Costa Rica, San Pedro, Costa Rica
| | - W A S Vieira
- Departamento de Agronomia, Universidade Federal Rural de Pernambuco, Recife, 52171-900, PE, Brazil
| | - C A Decock
- Mycothèque de l'Université catholique de Louvain (MUCL, BCCMTM), Earth and Life Institute - ELIM - Mycology, Université catholique de Louvain, Croix du Sud 2 bte L7.05.06, B-1348 Louvain-la-Neuve, Belgium
| | - E Gaya
- Royal Botanic Gardens, Kew, Richmond, Surrey, TW9 3DS, UK
| | - J Gené
- Unitat de Micologia, Facultat de Medicina i Ciències de la Salut i Institut d'Investigació Sanitària Pere Virgili (IISPV), Universitat Rovira i Virgili, 43201 Reus, Spain
| | - J Guarro
- Unitat de Micologia, Facultat de Medicina i Ciències de la Salut i Institut d'Investigació Sanitària Pere Virgili (IISPV), Universitat Rovira i Virgili, 43201 Reus, Spain
| | - D Gramaje
- Institute of Grapevine and Wine Sciences (ICVV), Spanish National Research Council (CSIC)-University of La Rioja-Government of La Rioja, Logroño 26007, Spain
| | - M Grube
- Institut für Biologie, Karl-Franzens-Universität Graz, Holteigasse 6, 8010 Graz, Austria
| | - V K Gupta
- Center for Safe and Improved Food, Scotland's Rural College (SRUC), Kings Buildings, West Mains Road, Edinburgh, EH9 3JG, UK.,Biorefining and Advanced Materials Research Center, Scotland's Rural College (SRUC), Kings Buildings, West Mains Road, Edinburgh, EH9 3JG, UK
| | - V Guarnaccia
- Department of Agricultural, Forestry and Food Sciences (DISAFA), University of Torino, Largo P. Braccini 2, 10095 Grugliasco (TO), Italy
| | - R Hill
- Royal Botanic Gardens, Kew, Richmond, Surrey, TW9 3DS, UK
| | - Y Hirooka
- Department of Clinical Plant Science, Faculty of Bioscience, Hosei University3-7-2 Kajino-cho, Koganei, Tokyo 184-8584, Japan
| | - K D Hyde
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai 57100, Thailand
| | - R S Jayawardena
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai 57100, Thailand
| | - R Jeewon
- Department of Health Sciences, Faculty of Medicine and Health Sciences, University of Mauritius, Reduit, Mauritius
| | - Ž Jurjević
- EMSL Analytical, Inc., 200 Route 130 North, Cinnaminson, NJ 08077, USA
| | - L Korsten
- Department of Plant and Soil Sciences, University of Pretoria, P. Bag X20 Hatfield, Pretoria 0002, South Africa
| | - S C Lamprecht
- ARC-Plant Health and Protection, Private Bag X5017, Stellenbosch 7599, Western Cape, South Africa
| | - L Lombard
- Dutch General Inspection Service for agricultural seeds and seed potatoes (NAK), Randweg 14, 8304 AS, Emmeloord, The Netherlands
| | - S S N Maharachchikumbura
- School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu 611731, People's Republic of China
| | - G Polizzi
- Dipartimento di Agricoltura, Alimentazione e Ambiente, sez. Patologia vegetale, University of Catania, Via S. Sofia 100, 95123 Catania, Italy
| | - K C Rajeshkumar
- National Fungal Culture Collection of India (NFCCI), Biodiversity and Palaeobiology (Fungi) Group, Agharkar Research Institute, Pune, Maharashtra 411 004, India
| | - C Salgado-Salazar
- USDA-ARS Mycology & Nematology Genetic Diversity & Biology Laboratory, Bldg. 010A, Rm. 212, BARC-West, 10300 Baltimore Ave. Beltsville, MD 20705, USA
| | - Q-J Shang
- Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai 57100, Thailand.,School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu 611731, People's Republic of China
| | - R G Shivas
- Centre for Crop Health, University of Southern Queensland, Toowoomba 4350, Queensland, Australia
| | - R C Summerbell
- Sporometrics, Toronto, ON, Canada.,Dalla Lana School of Public Health, University of Toronto, Toronto, ON, Canada
| | - G Y Sun
- College of Plant Protection, Northwest A&F University, Yangling, Shaanxi, China
| | - W J Swart
- Faculty of Natural and Agricultural Sciences, Department of Plant Sciences, University of the Free State, P.O. Box 339, Bloemfontein 9300, South Africa
| | - Y P Tan
- Centre for Crop Health, University of Southern Queensland, Toowoomba 4350, Queensland, Australia.,Queensland Plant Pathology Herbarium, Department of Agriculture and Fisheries, Dutton Park, Queensland 4102, Australia
| | - A Vizzini
- Department of Life Sciences and Systems Biology, University of Torino and Institute for Sustainable Plant Protection (IPSP-SS Turin), C.N.R, Viale P.A. Mattioli, 25, I-10125 Torino, Italy
| | - J W Xia
- Shandong Provincial Key Laboratory for Biology of Vegetable Diseases and Insect Pests, College of Plant Protection, Shandong Agricultural University, Taian, 271018, China
| | - R Zare
- Iranian Research Institute of Plant Protection, Agricultural Research, Education and Extension Organization (AREEO), P.O. Box 19395-1454, Tehran, Iran
| | - C D González
- Lab. Salud de Bosques, Fac. de Ciencias Forestales y RRNN, Universidad Austral de Chile, Chile
| | - T Iturriaga
- Curator, Cornell University Plant Pathology Herbarium, Ithaca, NY, USA
| | - O Savary
- Univ Brest, Laboratoire Universitaire de Biodiversité et Écologie Microbienne, F-29280 Plouzané, France
| | - M Coton
- Univ Brest, Laboratoire Universitaire de Biodiversité et Écologie Microbienne, F-29280 Plouzané, France
| | - E Coton
- Univ Brest, Laboratoire Universitaire de Biodiversité et Écologie Microbienne, F-29280 Plouzané, France
| | - J-L Jany
- Univ Brest, Laboratoire Universitaire de Biodiversité et Écologie Microbienne, F-29280 Plouzané, France
| | - C Liu
- College of Life Sciences, Yangtze University, Jingzhou, Hubei 434025, China
| | - Z-Q Zeng
- College of Life Sciences, Yangtze University, Jingzhou, Hubei 434025, China.,State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
| | - W-Y Zhuang
- State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
| | - Z-H Yu
- College of Life Sciences, Yangtze University, Jingzhou, Hubei 434025, China
| | - M Thines
- Senckenberg Biodiversity and Climate Research Center, Senckenberganlage 25, D-60325 Frankfurt am Main, Germany.,Goethe-University Frankfurt am Main, Department of Biological Sciences, Institute of Ecology, Evolution and Diversity, Max-von-Laue Str. 13, D-60438 Frankfurt am Main, Germany.,LOEWE Centre for Translational Biodiversity Genomics, Georg-Voigt-Str. 14-16, D-60325 Frankfurt am Main, Germany
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Cobo-López S, Gupta VK, Sung J, Guimerà R, Sales-Pardo M. Stochastic block models reveal a robust nested pattern in healthy human gut microbiomes. PNAS Nexus 2022; 1:pgac055. [PMID: 36741465 PMCID: PMC9896942 DOI: 10.1093/pnasnexus/pgac055] [Citation(s) in RCA: 2] [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] [Figures] [Subscribe] [Scholar Register] [Received: 09/12/2021] [Accepted: 05/10/2022] [Indexed: 02/07/2023]
Abstract
A key question in human gut microbiome research is what are the robust structural patterns underlying its taxonomic composition. Herein, we use whole metagenomic datasets from healthy human guts to show that such robust patterns do exist, albeit not in the conventional enterotype sense. We first introduce the concept of mixed-membership enterotypes using a network inference approach based on stochastic block models. We find that gut microbiomes across a group of people (hosts) display a nested structure, which has been observed in a number of ecological systems. This finding led us to designate distinct ecological roles to both microbes and hosts: generalists and specialists. Specifically, generalist hosts have microbiomes with most microbial species, while specialist hosts only have generalist microbes. Moreover, specialist microbes are only present in generalist hosts. From the nested structure of microbial taxonomies, we show that these ecological roles of microbes are generally conserved across datasets. Our results show that the taxonomic composition of healthy human gut microbiomes is associated with robustly structured combinations of generalist and specialist species.
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Affiliation(s)
- Sergio Cobo-López
- Departament d’Enginyeria Química, Universitat Rovira i Virgili, 40007 Tarragona, Catalonia, Spain
| | - Vinod K Gupta
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN 55905, USA,Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN 55905, USA
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Gupta VK. Reader Response: Blood-Brain Barrier Permeability in Patients With Reversible Cerebral Vasoconstriction Syndrome Assessed With Dynamic Contrast-Enhanced MRI. Neurology 2022; 98:382-383. [PMID: 35228316 DOI: 10.1212/wnl.0000000000013318] [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: 11/15/2022] Open
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15
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Arora P, Gupta VK, Agarwal A, Misra S. Homozygous familial hypercholesterolemia with cutaneous xanthomas in a child. Int J Dermatol 2022; 61:e313-e316. [PMID: 34982846 DOI: 10.1111/ijd.16033] [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] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 05/01/2021] [Revised: 10/12/2021] [Accepted: 11/25/2021] [Indexed: 11/29/2022]
Affiliation(s)
- Pooja Arora
- Department of Dermatology, Dr Ram Manohar Lohia Hospital & Atal Bihari Vajpayee Institute of Medical Sciences (ABVIMS), New Delhi, India
| | - V K Gupta
- Department of Pediatrics, Dr Ram Manohar Lohia Hospital & Atal Bihari Vajpayee Institute of Medical Sciences (ABVIMS), New Delhi, India
| | - Aastha Agarwal
- Department of Dermatology, Dr Ram Manohar Lohia Hospital & Atal Bihari Vajpayee Institute of Medical Sciences (ABVIMS), New Delhi, India
| | - Sunayana Misra
- Department of Pathology, Dr Ram Manohar Lohia Hospital & Atal Bihari Vajpayee Institute of Medical Sciences (ABVIMS), New Delhi, India
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16
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Nain D, Mohanty TK, Dewry RK, Bhakat M, Nath S, Gupta VK, Parray MA. Butylated hydroxytoluene (bht) improves the post-thaw semen quality in low-dose sperm cryopreservation in murrah buffalo bull. Cryo Letters 2022; 44:57-65. [PMID: 36625876] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
Abstract
BACKGROUND Cryopreservation is an important technique for the long-term storage of semen for artificial insemination (AI). Buffalo spermatozoa are sensitive to cryopreservation procedures because of the presence of a high amount of polyunsaturated fatty acids in the plasma membrane. OBJECTIVE To study the effect of different concentrations of BHT on the quality of Murrah buffalo bull semen for low-dose cryopreservation. MATERIAL AND METHODS Semen was collected from four high fertile Murrah buffalo bulls (6 ejaculates each) using an artificial vagina. A total of 24 ejaculates were collected from each bull twice a week using an artificial vagina. Every sample was split into four parts: Control without additives; and three treatments with BHT at 0.5 mM, 1 mM or 2 mM. Semen was cryopreserved at low-dose sperm cryopreservation of 20, 15, 10 and 5 million sperm per aliquot after supplementation of BHT. Semen samples were evaluated for fresh, pre-freeze and post-thaw stages. RESULTS There was a significant increase (p<0.05) in sperm quality parameters, such as progressive motility (%), viability (%), HOST response (%), acrosome integrity (%) and post-thaw motility, with the addition of 0.5-1 mM BHT. CONCLUSION The addition of BHT in Murrah buffalo semen improves the low dose cryopreservation quality in a dose-dependent manner. doi.org/10.54680/fr23110110612.
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Affiliation(s)
- D Nain
- Artificial Breeding Research Centre, ICAR-National Dairy Research Institute, Karnal-132001, (Haryana), India
| | - T K Mohanty
- Artificial Breeding Research Centre, ICAR-National Dairy Research Institute, Karnal-132001, (Haryana), India
| | - R Kr Dewry
- Artificial Breeding Research Centre, ICAR-National Dairy Research Institute, Karnal-132001, (Haryana), India.
| | - M Bhakat
- Artificial Breeding Research Centre, ICAR-National Dairy Research Institute, Karnal-132001, (Haryana), India
| | - S Nath
- Artificial Breeding Research Centre, ICAR-National Dairy Research Institute, Karnal-132001, (Haryana), India
| | - V K Gupta
- Artificial Breeding Research Centre, ICAR-National Dairy Research Institute, Karnal-132001, (Haryana), India
| | - M A Parray
- Artificial Breeding Research Centre, ICAR-National Dairy Research Institute, Karnal-132001, (Haryana), India
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17
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Chander V, Sharma GK, Bhatt M, Nandi S, Mahajan S, Singh M, Mahendran K, Karikalan M, Pawde AM, Gupta V, Singh KP, Rajak KK, Gupta VK, Singh RK. Isolation and genetic characterization of canine adenovirus type 2 from a domestic dog showing neurological symptoms. Braz J Microbiol 2021; 52:2521-2528. [PMID: 34128211 PMCID: PMC8203211 DOI: 10.1007/s42770-021-00540-0] [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] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2020] [Accepted: 06/07/2021] [Indexed: 11/04/2022] Open
Abstract
Canine adenoviruses (CAVs) are of two types: canine adenovirus type 1 (CAV-1), which causes infectious canine hepatitis, and canine adenovirus type 2 (CAV-2), which is mainly associated with the respiratory type of disease in dogs. Due to the widespread use of modified live vaccines to control canine adenoviral infections and subsequently reduced disease incidence, CAVs are often neglected by clinicians. Although a number of studies are available about CAV-1 prevalence in India, only meagre information is available about CAV-2. This study reports the CAV-2 infection in a vaccinated dog with neurological and respiratory symptoms which was found negative for other canine pathogens like canine distemper virus and canine parvovirus. The virus was successfully isolated from rectal swab in MDCK cells and characterized by immunofluorescence assay and virus neutralization test. On phylogenetic analysis of partial E3 region, the Indian CAV-2 grouped in a separate clade different from established subgroups. An insertion of "G" nucleotide was reported at nucleotide (nt.) position 1077 in the E3 gene of Indian CAV-2 isolates which led to a frameshift in the coding region of E3 gene thereby imparting additional eleven amino acids to its C-terminal end in comparison to isolates from other parts of the world. This may have an implication on the functional role of E3 protein inside the cell. This study reinforces the unique signature insertion in the E3 gene of Indian CAV-2 and is the second study in the world to report the association of CAV-2 with neurological disease in dogs.
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Affiliation(s)
- Vishal Chander
- Virology Laboratory, Centre for Animal Disease Research and Diagnosis (CADRAD), ICAR-Indian Veterinary Research Institute (IVRI), Izatnagar, Bareilly, Uttar Pradesh, 243122, India.
| | - G K Sharma
- Virology Laboratory, Centre for Animal Disease Research and Diagnosis (CADRAD), ICAR-Indian Veterinary Research Institute (IVRI), Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - Mukesh Bhatt
- ICAR Research Complex for NEH Region, Sikkim Centre, Tadong, Gangtok, Sikkim, 737102, India
| | - Sukdeb Nandi
- Virology Laboratory, Centre for Animal Disease Research and Diagnosis (CADRAD), ICAR-Indian Veterinary Research Institute (IVRI), Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - S Mahajan
- Division of Veterinary Biotechnology, ICAR-IVRI, Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - Mithilesh Singh
- Immunology Section, ICAR-IVRI, Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - K Mahendran
- Referral Veterinary Polyclinic, ICAR-IVRI, Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - M Karikalan
- Centre for Wildlife, ICAR-IVRI, Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - Abhijit M Pawde
- Division of Veterinary Surgery, ICAR-IVRI, Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - Vikas Gupta
- CCS National Institute of Animal Health, Baghpat, Uttar Pradesh, 250609, India
| | - K P Singh
- Pathology Laboratory, CADRAD, ICAR-IVRI, Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - K K Rajak
- Divison of Biological Products, ICAR-IVRI, Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - V K Gupta
- CADRAD, ICAR-IVRI, Izatnagar, Bareilly, Uttar Pradesh, 243122, India.
| | - R K Singh
- ICAR-IVRI, Izatnagar, Bareilly, Uttar Pradesh, 243122, India
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18
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Gupta VK, Cunningham KY, Hur B, Bakshi U, Huang H, Warrington KJ, Taneja V, Myasoedova E, Davis JM, Sung J. Gut microbial determinants of clinically important improvement in patients with rheumatoid arthritis. Genome Med 2021; 13:149. [PMID: 34517888 PMCID: PMC8439035 DOI: 10.1186/s13073-021-00957-0] [Citation(s) in RCA: 28] [Impact Index Per Article: 9.3] [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: 12/29/2020] [Accepted: 08/23/2021] [Indexed: 02/06/2023] Open
Abstract
BACKGROUND Rapid advances in the past decade have shown that dysbiosis of the gut microbiome is a key hallmark of rheumatoid arthritis (RA). Yet, the relationship between the gut microbiome and clinical improvement in RA disease activity remains unclear. In this study, we explored the gut microbiome of patients with RA to identify features that are associated with, as well as predictive of, minimum clinically important improvement (MCII) in disease activity. METHODS We conducted a retrospective, observational cohort study on patients diagnosed with RA between 1988 and 2014. Whole metagenome shotgun sequencing was performed on 64 stool samples, which were collected from 32 patients with RA at two separate time-points approximately 6-12 months apart. The Clinical Disease Activity Index (CDAI) of each patient was measured at both time-points to assess achievement of MCII; depending on this clinical status, patients were distinguished into two groups: MCII+ (who achieved MCII; n = 12) and MCII- (who did not achieve MCII; n = 20). Multiple linear regression models were used to identify microbial taxa and biochemical pathways associated with MCII while controlling for potentially confounding factors. Lastly, a deep-learning neural network was trained upon gut microbiome, clinical, and demographic data at baseline to classify patients according to MCII status, thereby enabling the prediction of whether a patient will achieve MCII at follow-up. RESULTS We found age to be the largest determinant of the overall compositional variance in the gut microbiome (R2 = 7.7%, P = 0.001, PERMANOVA). Interestingly, the next factor identified to explain the most variance in the gut microbiome was MCII status (R2 = 3.8%, P = 0.005). Additionally, by looking at patients' baseline gut microbiome profiles, we observed significantly different microbiome traits between patients who eventually showed MCII and those who did not. Taxonomic features include alpha- and beta-diversity measures, as well as several microbial taxa, such as Coprococcus, Bilophila sp. 4_1_30, and Eubacterium sp. 3_1_31. Notably, patients who achieved clinical improvement had higher alpha-diversity in their gut microbiomes at both baseline and follow-up visits. Functional profiling identified fifteen biochemical pathways, most of which were involved in the biosynthesis of L-arginine, L-methionine, and tetrahydrofolate, to be differentially abundant between the MCII patient groups. Moreover, MCII+ and MCII- groups showed significantly different fold-changes (from baseline to follow-up) in eight microbial taxa and in seven biochemical pathways. These results could suggest that, depending on the clinical course, gut microbiomes not only start at different ecological states, but also are on separate trajectories. Finally, the neural network proved to be highly effective in predicting which patients will achieve MCII (balanced accuracy = 90.0%, leave-one-out cross-validation), demonstrating potential clinical utility of gut microbiome profiles. CONCLUSIONS Our findings confirm the presence of taxonomic and functional signatures of the gut microbiome associated with MCII in RA patients. Ultimately, modifying the gut microbiome to enhance clinical outcome may hold promise as a future treatment for RA.
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Affiliation(s)
- Vinod K Gupta
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, USA
- Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, USA
| | - Kevin Y Cunningham
- Bioinformatics and Computational Biology Program, University of Minnesota, Minneapolis, MN, USA
| | - Benjamin Hur
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, USA
- Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, USA
| | - Utpal Bakshi
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, USA
- Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, USA
| | - Harvey Huang
- Mayo Clinic Medical Scientist Training Program, Mayo Clinic, Rochester, MN, USA
| | - Kenneth J Warrington
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, USA
| | - Veena Taneja
- Department of Immunology, Mayo Clinic, Rochester, MN, USA
| | - Elena Myasoedova
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, USA
- Department of Health Sciences Research, Division of Epidemiology, Mayo Clinic, Rochester, MN, USA
| | - John M Davis
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, USA
| | - Jaeyun Sung
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, USA.
- Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, USA.
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, USA.
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Mirdha P, Nalgirkar V, Patil A, Potaliya P, Gupta VK. Effect of Carbohydrate Loading on Resistance Exercise and Muscle Mass: A Prospective Study. Mymensingh Med J 2021; 30:826-829. [PMID: 34226474] [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: 06/13/2023]
Abstract
The objective of the study was to assess the outcome of carbohydrate loading dietary strategy on resistance exercise and muscle mass. In this prospective study, conducted at Dr DY Patil Gym and Fitness Center, Navi Mumbai (India), young healthy male resistance-trained individuals (18-25 years) were recruited randomly. The duration for entire study was three months in the year 2019. Participants were divided into two groups (n=30 each): carbohydrate loading group and control group. Participants in the carbohydrate loading group consumed carbohydrate loading diet protocol and designed exercise program for seven days. The control group consumed a regular diet with an exercise program. Resistance exercise (strength) and body circumference (muscle mass) measurements were recorded after seven days of respective assigned diet and exercise program. In the carbohydrate loading group, performance in resistance exercise was not significant from baseline to day seven (63.5±6.45 vs. 64.0±6.75 kg; p>0.05). Changes in the arm girth (p=0.3256), thigh girth (p=0.3256) and calf girth (p=0.1608) were also not significant in the carbohydrate loading group when compared from baseline to seven days. Therefore, the result indicates that the carbohydrate loading regimen had no enhanced effect on resistance exercise as well as muscle girth. This study results suggest that carbohydrate loading has no additional advantage in improving resistance exercise and muscle mass in resistance-trained individuals.
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Affiliation(s)
- P Mirdha
- Dr Priyanka Mirdha, Assistant Lecturer, Department of Physiology, Dr DY Patil Medical College, Navi Mumbai, Maharashtra, India; E-mail:
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20
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Hur B, Gupta VK, Huang H, Wright KA, Warrington KJ, Taneja V, Davis JM, Sung J. Plasma metabolomic profiling in patients with rheumatoid arthritis identifies biochemical features predictive of quantitative disease activity. Arthritis Res Ther 2021; 23:164. [PMID: 34103083 PMCID: PMC8185925 DOI: 10.1186/s13075-021-02537-4] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [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: 10/16/2020] [Accepted: 05/19/2021] [Indexed: 02/06/2023] Open
Abstract
Background Rheumatoid arthritis (RA) is a chronic, autoimmune disorder characterized by joint inflammation and pain. In patients with RA, metabolomic approaches, i.e., high-throughput profiling of small-molecule metabolites, on plasma or serum has thus far enabled the discovery of biomarkers for clinical subgroups, risk factors, and predictors of treatment response. Despite these recent advancements, the identification of blood metabolites that reflect quantitative disease activity remains an important challenge in precision medicine for RA. Herein, we use global plasma metabolomic profiling analyses to detect metabolites associated with, and predictive of, quantitative disease activity in patients with RA. Methods Ultra-high-performance liquid chromatography-tandem mass spectrometry (UPLC-MS/MS) was performed on a discovery cohort consisting of 128 plasma samples from 64 RA patients and on a validation cohort of 12 samples from 12 patients. The resulting metabolomic profiles were analyzed with two different strategies to find metabolites associated with RA disease activity defined by the Disease Activity Score-28 using C-reactive protein (DAS28-CRP). More specifically, mixed-effects regression models were used to identify metabolites differentially abundant between two disease activity groups (“lower”, DAS28-CRP ≤ 3.2; and “higher”, DAS28-CRP > 3.2) and to identify metabolites significantly associated with DAS28-CRP scores. A generalized linear model (GLM) was then constructed for estimating DAS28-CRP using plasma metabolite abundances. Finally, for associating metabolites with CRP (an indicator of inflammation), metabolites differentially abundant between two patient groups (“low-CRP”, CRP ≤ 3.0 mg/L; “high-CRP”, CRP > 3.0 mg/L) were investigated. Results We identified 33 metabolites differentially abundant between the lower and higher disease activity groups (P < 0.05). Additionally, we identified 51 metabolites associated with DAS28-CRP (P < 0.05). A GLM based upon these 51 metabolites resulted in higher prediction accuracy (mean absolute error [MAE] ± SD: 1.51 ± 1.77) compared to a GLM without feature selection (MAE ± SD: 2.02 ± 2.21). The predictive value of this feature set was further demonstrated on a validation cohort of twelve plasma samples, wherein we observed a stronger correlation between predicted and actual DAS28-CRP (with feature selection: Spearman’s ρ = 0.69, 95% CI: [0.18, 0.90]; without feature selection: Spearman’s ρ = 0.18, 95% CI: [−0.44, 0.68]). Lastly, among all identified metabolites, the abundances of eight were significantly associated with the CRP patient groups while controlling for potential confounders (P < 0.05). Conclusions We demonstrate for the first time the prediction of quantitative disease activity in RA using plasma metabolomes. The metabolites identified herein provide insight into circulating pro-/anti-inflammatory metabolic signatures that reflect disease activity and inflammatory status in RA patients. Supplementary Information The online version contains supplementary material available at 10.1186/s13075-021-02537-4.
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Affiliation(s)
- Benjamin Hur
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, USA.,Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, USA
| | - Vinod K Gupta
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, USA.,Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, USA
| | - Harvey Huang
- Mayo Clinic Medical Scientist Training Program, Mayo Clinic, Rochester, MN, USA
| | - Kerry A Wright
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, USA
| | - Kenneth J Warrington
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, USA
| | - Veena Taneja
- Department of Immunology, Mayo Clinic, Rochester, MN, USA
| | - John M Davis
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, USA
| | - Jaeyun Sung
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, USA. .,Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, USA. .,Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, USA.
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21
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Gupta VK. Reader Response: Clinical Characterization of Delayed Alcohol-Induced Headache: A Study of 1,108 Participants. Neurology 2021; 96:771-772. [PMID: 33970875 DOI: 10.1212/wnl.0000000000011802] [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: 11/15/2022] Open
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22
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Karimi-Maleh H, Orooji Y, Karimi F, Alizadeh M, Baghayeri M, Rouhi J, Tajik S, Beitollahi H, Agarwal S, Gupta VK, Rajendran S, Ayati A, Fu L, Sanati AL, Tanhaei B, Sen F, Shabani-Nooshabadi M, Asrami PN, Al-Othman A. A critical review on the use of potentiometric based biosensors for biomarkers detection. Biosens Bioelectron 2021; 184:113252. [PMID: 33895688 DOI: 10.1016/j.bios.2021.113252] [Citation(s) in RCA: 202] [Impact Index Per Article: 67.3] [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: 01/14/2021] [Revised: 04/01/2021] [Accepted: 04/12/2021] [Indexed: 12/21/2022]
Abstract
Potentiometric-based biosensors have the potential to advance the detection of several biological compounds and help in early diagnosis of various diseases. They belong to the portable analytical class of biosensors for monitoring biomarkers in the human body. They contain ion-sensitive membranes sensors can be used to determine potassium, sodium, and chloride ions activity while being used as a biomarker to gauge human health. The potentiometric based ion-sensitive membrane systems can be coupled with various techniques to create a sensitive tool for the fast and early detection of cancer biomarkers and other critical biological compounds. This paper discusses the application of potentiometric-based biosensors and classifies them into four major categories: photoelectrochemical potentiometric biomarkers, potentiometric biosensors amplified with molecular imprinted polymer systems, wearable potentiometric biomarkers and light-addressable potentiometric biosensors. This review demonstrated the development of several innovative biosensor-based techniques that could potentially provide reliable tools to test biomarkers. Some challenges however remain, but these can be removed by coupling techniques to maximize the testing sensitivity.
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Affiliation(s)
- Hassan Karimi-Maleh
- School of Resources and Environment, University of Electronic Science and Technology of China, P.O. Box 611731, Xiyuan Ave, Chengdu, PR China; Department of Chemical Engineering and Energy, Quchan University of Technology, Quchan, 9477177870, Iran; Department of Chemical Sciences, University of Johannesburg, Doornfontein Campus, 2028 Johannesburg, P.O. Box 17011, South Africa.
| | - Yasin Orooji
- College of Materials Science and Engineering, Nanjing Forestry University, 159 Longpan Road, Nanjing 210037, China; Co-Innovation Center of Efficient Processing and Utilization of Forest Resources, Nanjing Forestry University, Nanjing 210037, China.
| | - Fatemeh Karimi
- Department of Chemical Engineering and Energy, Quchan University of Technology, Quchan, 9477177870, Iran.
| | - Marzieh Alizadeh
- Laboratory of Basic Sciences, Mohammad Rasul Allah Research Tower, Shiraz University of Medical Sciences, Shiraz, 71348-14336, Iran
| | - Mehdi Baghayeri
- Department of Chemistry, Faculty of Science, Hakim Sabzevari University, PO. Box 397, Sabzevar, Iran
| | - Jalal Rouhi
- Faculty of Physics, University of Tabriz, Tabriz, 51566, Iran
| | - Somayeh Tajik
- Research Center for Tropical and Infectious Diseases, Kerman University of Medical Sciences, Kerman, 7616913555, Iran
| | - Hadi Beitollahi
- Environment Department, Institute of Science and High Technology and Environmental Sciences, Graduate University of Advanced Technology, Kerman, 7631133131, Iran
| | - Shilpi Agarwal
- Center of Excellence for Advanced Materials Research, King Abdulaziz University, Jeddah, 21589, Saudi Arabia
| | - Vinod K Gupta
- Center of Excellence for Advanced Materials Research, King Abdulaziz University, Jeddah, 21589, Saudi Arabia
| | - Saravanan Rajendran
- Faculty of Engineering, Department of Mechanical Engineering, University of Tarapaca, Avda. General Velasquez, 1775 Arica, Chile
| | - Ali Ayati
- Department of Chemical Engineering and Energy, Quchan University of Technology, Quchan, 9477177870, Iran
| | - Li Fu
- College of Materials and Environmental Engineering, Hangzhou Dianzi University, Hangzhou, 310018, PR China
| | - Afsaneh L Sanati
- Institute of Systems and Robotics, Department of Electrical and Computer Engineering, University of Coimbra, Polo II, 3030-290, Coimbra, Portugal.
| | - Bahareh Tanhaei
- Department of Chemical Engineering and Energy, Quchan University of Technology, Quchan, 9477177870, Iran
| | - Fatih Sen
- Sen Research Group, Department of Biochemistry, Faculty of Arts and Science, Dumlupınar University, Evliya Çelebi Campus, 43100, Kütahya, Turkey
| | | | | | - Amani Al-Othman
- Department of Chemical Engineering, American University of Sharjah, Sharjah, PO. Box 26666, United Arab Emirates
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Rupner RN, VinodhKumar OR, Karthikeyan R, Sinha DK, Singh KP, Dubal ZB, Tamta S, Gupta VK, Singh BR, Malik YS, Dhama K. Bluetongue in India: a systematic review and meta-analysis with emphasis on diagnosis and seroprevalence. Vet Q 2021; 40:229-242. [PMID: 32886028 PMCID: PMC7534259 DOI: 10.1080/01652176.2020.1810356] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [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] [Indexed: 01/10/2023] Open
Abstract
Bluetongue (BT) is an infectious viral disease which affects a wide range of ruminants and was first reported in India in 1964. In view of the absence of comprehensive information on the BT status in India, this study presents the seroprevalence on BT in farm animals of India based-on a systematic review and meta-analysis. A systematic review was conducted to identify the published articles (2001–2018) reporting the seroprevalence of BT in sheep, goats, cattle, buffalo, camels, and Mithun (Bos frontalis) from India. From 409 research articles, 71 fulfilled the inclusion criteria and meta-analysis for proportions was carried out targeting the eligible studies. From these, 144 strata level data were extracted with a sample size of 14048 sheep, 14696 goats, 5218 cattle, 2653 buffaloes, 2062 camels, and 222 Mithun. Overall, the analyses showed that the BT seroprevalence of 43% (95% CI: 38–49%) in goats, 39% (95% CI: 33–46%) in sheep, 38% (95% CI: 25–45%) in cattle, 34% (95% CI: 20–51%) in buffaloes, 16% (95% CI: 10–22%) in camels, and 66% (95% CI: 17–95%) in Mithun. Furthermore, the meta-regression analysis suggested that serological tests, geographical region, and sample size were the prime moderators. Meta-analytic study indicates the BT seropositivity in 25.35 million sheep (95% CI: 21.5–29.9), 58 million goats (95% CI: 51.3–66.2), 66.8 million cattle (95% CI: 47.7–86), 37.0 million buffaloes (95% CI: 21.7–55.4), 0.06 million camels (95% CI: 0.04–0.09), and 0.19 million Mithun (95% CI: 0.05–0.28). The findings highlight the variation of BT seropositivity in different geographical regions of India.
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Affiliation(s)
- Ramkumar N Rupner
- Division of Epidemiology, ICAR-Indian Veterinary Research Institute, Bareilly, India
| | - O R VinodhKumar
- Division of Epidemiology, ICAR-Indian Veterinary Research Institute, Bareilly, India
| | - R Karthikeyan
- Division of Epidemiology, ICAR-Indian Veterinary Research Institute, Bareilly, India
| | - D K Sinha
- Division of Epidemiology, ICAR-Indian Veterinary Research Institute, Bareilly, India
| | - K P Singh
- Division of Pathology, ICAR-Indian Veterinary Research Institute, Bareilly, India
| | - Z B Dubal
- Division of Veterinary Public Health, ICAR-Indian Veterinary Research Institute, Bareilly, India
| | - Shikha Tamta
- Division of Epidemiology, ICAR-Indian Veterinary Research Institute, Bareilly, India
| | - V K Gupta
- CADRAD, ICAR-Indian Veterinary Research Institute, Bareilly, India
| | - B R Singh
- Division of Epidemiology, ICAR-Indian Veterinary Research Institute, Bareilly, India
| | - Y S Malik
- Division of Biological Standardisation, ICAR-Indian Veterinary Research Institute, Bareilly, India
| | - K Dhama
- Division of Pathology, ICAR-Indian Veterinary Research Institute, Bareilly, India
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Das B, Sahoo RN, Pargal S, Krishna G, Verma R, Viswanathan C, Sehgal VK, Gupta VK. Evaluation of different water absorption bands, indices and multivariate models for water-deficit stress monitoring in rice using visible-near infrared spectroscopy. Spectrochim Acta A Mol Biomol Spectrosc 2021; 247:119104. [PMID: 33161273 DOI: 10.1016/j.saa.2020.119104] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [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: 08/18/2020] [Revised: 10/06/2020] [Accepted: 10/13/2020] [Indexed: 05/23/2023]
Abstract
Accurate estimation of plant water status is a major factor in the decision-making process regarding general land use, crop water management and drought assessment. Visible-near infrared (VNIR) spectroscopy can provide an effective means for real-time and non-invasive monitoring of leaf water content (LWC) in crop plants. The current study aims to identify water absorption bands, indices and multivariate models for development of non-destructive water-deficit stress phenotyping protocols using VNIR spectroscopy and LWC estimated from 10 different rice genotypes. Existing spectral indices and band depths at water absorption regions were evaluated for LWC estimation. The developed models were found efficient in predicting LWC of the samples kept in the same environment with the ratio of performance to deviation (RPD) values varying from 1.49 to 3.05 and 1.66 to 2.63 for indices and band depths, respectively during validation. For identification of novel indices, ratio spectral indices (RSI) and normalised difference spectral indices (NDSI) were calculated in every possible band combination and correlated with LWC. The best spectral indices for estimating LWC of rice were RSI (R1830, R1834) and NDSI (R1830, R1834) with R2 greater than 0.90 during training and validation, respectively. Among the multivariate models, partial least squares regression (PLSR) provided the best results for prediction of LWC (RPD = 6.33 and 4.06 for training and validation, respectively). The approach developed in this study will also be helpful for high-throughput water-deficit stress phenotyping of other crops.
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Affiliation(s)
- Bappa Das
- Division of Agricultural Physics, ICAR-Indian Agricultural Research Institute, New Delhi 110012, India.
| | - Rabi N Sahoo
- Division of Agricultural Physics, ICAR-Indian Agricultural Research Institute, New Delhi 110012, India
| | - Sourabh Pargal
- Division of Agricultural Physics, ICAR-Indian Agricultural Research Institute, New Delhi 110012, India
| | - Gopal Krishna
- Division of Agricultural Physics, ICAR-Indian Agricultural Research Institute, New Delhi 110012, India
| | - Rakesh Verma
- Division of Plant Physiology, ICAR-Indian Agricultural Research Institute, New Delhi 110012, India
| | - Chinnusamy Viswanathan
- Division of Plant Physiology, ICAR-Indian Agricultural Research Institute, New Delhi 110012, India
| | - Vinay K Sehgal
- Division of Agricultural Physics, ICAR-Indian Agricultural Research Institute, New Delhi 110012, India
| | - Vinod K Gupta
- Division of Agricultural Physics, ICAR-Indian Agricultural Research Institute, New Delhi 110012, India
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Karimi-Maleh H, Alizadeh M, Orooji Y, Karimi F, Baghayeri M, Rouhi J, Tajik S, Beitollahi H, Agarwal S, Gupta VK, Rajendran S, Rostamnia S, Fu L, Saberi-Movahed F, Malekmohammadi S. Guanine-Based DNA Biosensor Amplified with Pt/SWCNTs Nanocomposite as Analytical Tool for Nanomolar Determination of Daunorubicin as an Anticancer Drug: A Docking/Experimental Investigation. Ind Eng Chem Res 2021. [DOI: 10.1021/acs.iecr.0c04698] [Citation(s) in RCA: 223] [Impact Index Per Article: 74.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Affiliation(s)
- Hassan Karimi-Maleh
- School of Resources and Environment, University of Electronic Science and Technology of China, Xiyuan Avenue, Chengdu 611731, PR China
- Department of Chemical Engineering, Quchan University of Technology, Quchan, 9477177870, Iran
- Department of Chemical Sciences, University of Johannesburg, Doornfontein Campus, 2028 Johannesburg, P.O. Box 17011, South Africa
- College of Materials Science and Engineering, Nanjing Forestry University 159 Longpan Road, Nanjing 210037, China
| | - Marzieh Alizadeh
- Laboratory of Basic Sciences, Mohammad Rasul Allah Research Tower, Shiraz University of Medical Sciences, P.O. Box 71348-14336, Shiraz 234567890, Iran
| | - Yasin Orooji
- Co-Innovation Center of Efficient Processing and Utilization of Forest Resources, Nanjing Forestry University, Nanjing 210037, China
- College of Materials Science and Engineering, Nanjing Forestry University 159 Longpan Road, Nanjing 210037, China
| | - Fatemeh Karimi
- Department of Chemical Engineering, Quchan University of Technology, Quchan, 9477177870, Iran
| | - Mehdi Baghayeri
- Department of Chemistry, Faculty of Science, Hakim Sabzevari University, Sabzevar 397, Iran
| | - Jalal Rouhi
- Department of Physics, Shahid Beheshti University, G.C., Evin, Tehran, 19839, Iran
| | - Somayeh Tajik
- Research Center for Tropical and Infectious Diseases, Kerman University of Medical Sciences, Kerman, 7616913555, Iran
- Neuroscience Research Center, Kerman University of Medical Sciences, Kerman, 7616913555, Iran
| | - Hadi Beitollahi
- Environment Department, Institute of Science and High Technology and Environmental Sciences, Graduate University of Advanced Technology, Kerman, 7631133131, Iran
| | - Shilpi Agarwal
- Center of Excellence for Advanced Materials Research, King Abdulaziz University, Jeddah, 21589,Saudi Arabia
| | - Vinod K. Gupta
- Center of Excellence for Advanced Materials Research, King Abdulaziz University, Jeddah, 21589,Saudi Arabia
| | - Saravanan Rajendran
- Faculty of Engineering, Department of Mechanical Engineering, University of Tarapaca, Avda. General Velasquez, 1775 Arica, Chile
| | - Sadegh Rostamnia
- Organic and Nano Group (ONG), Department of Chemistry, Iran University of Science and Technology (IUST), Tehran, 16846-13114, Iran
| | - Li Fu
- College of Materials and Environmental Engineering, Hangzhou Dianzi University, Hangzhou, 310018, PR China
| | - Farshad Saberi-Movahed
- Department of Materials Science and Engineering, North Carolina State University, Raleigh, North Carolina 27606, United States
| | - Samira Malekmohammadi
- Department of Chemical Engineering, Quchan University of Technology, Quchan, 9477177870, Iran
- Institute for Chemical Sciences and Engineering, École Polytechnique Fédérale de Lausanne (EPFL), CH-1015 Lausanne, Switzerland
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Gupta VK. Reader response: Meta-analysis of magnetic resonance spectroscopy in the diagnosis of hepatic encephalopathy. Neurology 2020; 95:984-985. [DOI: 10.1212/wnl.0000000000011038] [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: 11/15/2022] Open
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Gupta VK. Reader response: Migraine progression in subgroups of migraine based on comorbidities: Results of the CaMEO Study. Neurology 2020; 95:707. [DOI: 10.1212/wnl.0000000000010719] [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: 11/15/2022] Open
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Gupta VK, Kim M, Bakshi U, Cunningham KY, Davis JM, Lazaridis KN, Nelson H, Chia N, Sung J. A predictive index for health status using species-level gut microbiome profiling. Nat Commun 2020; 11:4635. [PMID: 32934239 PMCID: PMC7492273 DOI: 10.1038/s41467-020-18476-8] [Citation(s) in RCA: 99] [Impact Index Per Article: 24.8] [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] [Received: 02/22/2020] [Accepted: 08/19/2020] [Indexed: 12/26/2022] Open
Abstract
Providing insight into one’s health status from a gut microbiome sample is an important clinical goal in current human microbiome research. Herein, we introduce the Gut Microbiome Health Index (GMHI), a biologically-interpretable mathematical formula for predicting the likelihood of disease independent of the clinical diagnosis. GMHI is formulated upon 50 microbial species associated with healthy gut ecosystems. These species are identified through a multi-study, integrative analysis on 4347 human stool metagenomes from 34 published studies across healthy and 12 different nonhealthy conditions, i.e., disease or abnormal bodyweight. When demonstrated on our population-scale meta-dataset, GMHI is the most robust and consistent predictor of disease presence (or absence) compared to α-diversity indices. Validation on 679 samples from 9 additional studies results in a balanced accuracy of 73.7% in distinguishing healthy from non-healthy groups. Our findings suggest that gut taxonomic signatures can predict health status, and highlight how data sharing efforts can provide broadly applicable discoveries. A biologically-interpretable and robust metric that provides insight into one’s health status from a gut microbiome sample is an important clinical goal in current human microbiome research. Herein, the authors introduce a species-level index that predicts the likelihood of having a disease.
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Affiliation(s)
- Vinod K Gupta
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, 55905, USA.,Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, 55905, USA
| | - Minsuk Kim
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, 55905, USA.,Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, 55905, USA
| | - Utpal Bakshi
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, 55905, USA.,Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, 55905, USA
| | - Kevin Y Cunningham
- Graduate Research Education Program (GREP), Mayo Clinic, Rochester, MN, 55905, USA.,Department of Computer Science and Engineering, University of Minnesota Twin-Cities, Minneapolis, MN, 55455, USA
| | - John M Davis
- Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, 55905, USA
| | - Konstantinos N Lazaridis
- Division of Gastroenterology and Hepatology, Mayo Clinic College of Medicine and Science, Rochester, MN, 55905, USA
| | - Heidi Nelson
- Emeritus Chair, Department of Surgery, Mayo Clinic, Rochester, MN, 55905, USA
| | - Nicholas Chia
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, 55905, USA.,Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, 55905, USA
| | - Jaeyun Sung
- Microbiome Program, Center for Individualized Medicine, Mayo Clinic, Rochester, MN, 55905, USA. .,Division of Surgery Research, Department of Surgery, Mayo Clinic, Rochester, MN, 55905, USA. .,Division of Rheumatology, Department of Medicine, Mayo Clinic, Rochester, MN, 55905, USA.
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Gupta R, Das MK, Mohanan PP, Deb PK, Parashar SK, Chopra HK, Shrivastava S, Guha S, Goswami KC, Yadav R, Alagesan R, Amuthan V, Bansal M, Chakraborty RN, Chakraborti N, Chandra S, Chatterjee A, Chatterjee D, Chatterjee SS, Dutta AL, De A, Garg A, Garg VK, Goyal A, Goyal NK, Govind SC, Gupta VK, Hasija PK, Jabir A, Jain P, Jain V, Jayagopal PB, Kasliwal RR, Katyal VK, Kerkar PG, Khan AK, Khanna NN, Mandal M, Majumder B, Mishra SS, Meena CB, Naik N, Narain VS, Pancholia AK, Pathak LA, Ponde CK, Raghu K, Ray S, Roy D, Sarma D, Shanmugasundarum S, Singh BP, Tyagi S, Vijayaraghavan G, Wander GS, Wardhan H, Nanda NC. Cardiological society of India document on safety measure during echo evaluation of cardiovascular disease in the time of COVID-19. Indian Heart J 2020; 72:145-150. [PMID: 32768012 PMCID: PMC7250084 DOI: 10.1016/j.ihj.2020.05.016] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [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: 05/08/2020] [Revised: 05/15/2020] [Accepted: 05/19/2020] [Indexed: 01/08/2023] Open
Abstract
An echocardiographic investigation is one of the key modalities of diagnosis in cardiology. There has been a rising presence of cardiological comorbidities in patients positive for COVID-19. Hence, it is becoming extremely essential to look into the correct safety precautions, healthcare professionals must take while conducting an echo investigation. The decision matrix formulated for conducting an echocardiographic evaluation is based on presence or absence of cardiological comorbidity vis-à-vis positive, suspected or negative for COVID-19. The safety measures have been constructed keeping in mind the current safety precautions by WHO, CDC and MoHFW, India.
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Affiliation(s)
- Rakesh Gupta
- JROP Institute of Echocardiography, Ultrasound & Vascular Doppler, JROP Healthcare Pvt. Ltd., C-1/16, Ashok Vihar-II, Delhi, 110052, India; JROP Charak Heart City, MD City Hospital, Model Town Northex, Delhi, 110009, India.
| | - Mrinal Kanti Das
- C K Birla Group of Hospitals (BMB and CMRI), Kolkata, West Bengal, India
| | - P P Mohanan
- Westfort Hi-Tech Hospital, Thrissur, Kerala, India
| | | | - S K Parashar
- Metro Heart Hospital, Lajpat Nagar, New Delhi, India
| | | | | | - Santanu Guha
- Calcutta Medical College Hospital, Kolkata, West Bengal, India
| | | | - Rakesh Yadav
- All India Institute of Medical Sciences, New Delhi, India
| | | | - V Amuthan
- Jeyalakshmi Heart Center, Madurai, Tamilnadu, India
| | - M Bansal
- Medanta, The Medicity, New Delhi, India
| | - R N Chakraborty
- Medica Group of Superspeciality Hospitals, Kolkata, West Bengal, India
| | - N Chakraborti
- Medica Group of Superspeciality Hospitals, Kolkata, West Bengal, India
| | - S Chandra
- King George's Medical University, Lucknow, India
| | | | - D Chatterjee
- Rabindranath Tagore International Institute of Cardiac Sciences, Kolkata, India
| | | | | | - A De
- Apollo Gleneagles Hospital, Kolkata, India
| | - A Garg
- Jaipur Heart Institute, Jaipur, India
| | - V K Garg
- R D Gardi Medical College, Ujjain, India
| | - A Goyal
- Bani Park Hospital, Jaipur, India
| | - N K Goyal
- BLK Superspeciality Hospital, New Delhi, India
| | | | - V K Gupta
- Kishori Ram Hospital & Diabetes Care Centre, Bhatinda, India
| | | | - A Jabir
- Lisie Hospital Kochi, Kerala, India
| | - P Jain
- Lifeline Superspeciality Hospital, Jhansi, India
| | - V Jain
- Choithram Hospital &R.C., Indore, India
| | | | | | | | | | | | | | - M Mandal
- NRS Medical College, Kolkata, India
| | - B Majumder
- R.G. Kar Medical College & Hospital, Kolkata, India
| | - S S Mishra
- Hi-Tech Medical College and Hospital, Bhubaneshwar, India
| | - C B Meena
- SMS Medical College, Jaipur, Rajasthan
| | | | - V S Narain
- King George's Medical University, Lucknow, India
| | | | - L A Pathak
- Nanavati Heart Institute, Nanavati Superspeciality Hospital, Mumbai, India
| | - C K Ponde
- PD Hinduja National Hospital & RC, Mumbai, India
| | - K Raghu
- Care Hospital, Hyderabad, India
| | - S Ray
- Vivekananda Institute of Medical Sciences, Kolkata, India
| | - D Roy
- Rabindranath Tagore International Institute of Cardiac Sciences, Kolkata, India
| | - D Sarma
- Jorhat Christian Medical Centre Hospital, Jorhat, Assam, India
| | | | | | - S Tyagi
- GB Pant Institute of Post Graduate Medical Education and Research, New Delhi, India
| | | | - G S Wander
- Hero DMC Heart Institute, Ludhiana, India
| | - Harsh Wardhan
- Mahatma Gandhi Medical College and Hospital, Jaipur, India
| | - N C Nanda
- University of Alabama at Birmingham, Birmingham, AL, USA
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Gupta VK. Reader response: Disputes, debates, dialogue, and dodgers. Neurology 2020; 94:547. [DOI: 10.1212/wnl.0000000000009145] [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] [Received: 01/24/2020] [Accepted: 01/22/2020] [Indexed: 11/15/2022] Open
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Doshi AS, Bhagwan SS, Mehta TN, Gupta VK, Subaaiah G. Determination of Nebivolol and Valsartan in a Fixed-Dose Combination by Liquid Chromatography. J AOAC Int 2019. [DOI: 10.1093/jaoac/91.2.292] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Abstract
An accurate and reproducible liquid chromatographic assay method was developed and validated for the determination of nebivolol and valsartan in a capsule formulation. Bufferacetonitrile (55 + 45, v/v) was used for reversed-phase liquid chromatography to determine the contents of nebivolol and valsartan in the combination-capsule dosage form. The method was validated by determining parameters such as specificity, linearity, limits of detection and quantitation, precision, accuracy, and robustness. The method was found to be specific against placebo interference. Linearity was evaluated over the concentration ranges of 28 g/mL for nebivolol and 32128 g/mL for valsartan (the correlation coefficient was 0.9999 for both nebivolol and valsartan). Both the intraday and interday precision values of the system and the method were determined. The accuracy of the method ranged from 100.66 to 102.58 for nebivolol and from 101.17 to 101.85 for valsartan. The proposed method was found to be robust when slight but deliberate changes were made in the analytical conditions. The developed method was found suitable for the assay determination of nebivolol and valsartan in a capsule formulation.
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Affiliation(s)
- Ashish S Doshi
- Torrent Research Centre, Bhat, Gandhinagar, Gujarat, India, Pin Code 382428
| | - Sushil S Bhagwan
- Torrent Research Centre, Bhat, Gandhinagar, Gujarat, India, Pin Code 382428
| | - Tushar N Mehta
- Torrent Research Centre, Bhat, Gandhinagar, Gujarat, India, Pin Code 382428
| | - Vinod K Gupta
- Torrent Research Centre, Bhat, Gandhinagar, Gujarat, India, Pin Code 382428
| | - Gunta Subaaiah
- Torrent Research Centre, Bhat, Gandhinagar, Gujarat, India, Pin Code 382428
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Rab S, Yadav S, Sharma RK, Kumar L, Gupta VK, Zafer A, Haleem A. Development of hydraulic cross floating valve. Rev Sci Instrum 2019; 90:085102. [PMID: 31472631 DOI: 10.1063/1.5089953] [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] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/24/2019] [Accepted: 07/14/2019] [Indexed: 06/10/2023]
Abstract
This paper describes the design, simulation, development, and analysis of a Cross Floating Valve (CFV), an important instrument used in a cross float or pressure calibration system of pressure balances (PBs) to make the calibration process easy and time efficient. The design aspects of the CFV include the selection of proper materials and modeling of various necessary components of the CFV. For the piston design, 5 different materials, SS304, SS316, Aermet 340, SS440C, and AISI17-4PH were used. After the design, simulation studies were carried out using the ANSYS (Workbench R15.0) software to understand the behavior of stress, strain, and deformation. Out of the 5 materials thus used, the values of the factor of safety of 2 materials (SS304 and SS316) were found to be below expectations and hence were not used in the fabrication process. Among the rest of the 3 other materials (AISI17-4PH, SS440C, and Aermet 340) having a factor of safety within the expected limits, Aermet 340 was also ignored because of its high cost. Finally, AISI17-4PH and SS440C were used to fabricate the piston, the most important and critical component of the CFV. The final CFV thus developed was tested for its performance in the cross floating experiments with 2 different sets of PBs. The results thus obtained show that the use of CFV reduces the calibration time considerably which is approximately 30% (average time of increasing and decreasing orders of pressure) from the time taken in performing calibration without using CFV, which is a significant achievement.
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Affiliation(s)
- Shanay Rab
- CSIR-National Physical Laboratory (CSIR-NPL), New Delhi 110012, India
| | - Sanjay Yadav
- CSIR-National Physical Laboratory (CSIR-NPL), New Delhi 110012, India
| | - R K Sharma
- CSIR-National Physical Laboratory (CSIR-NPL), New Delhi 110012, India
| | - Lalit Kumar
- CSIR-National Physical Laboratory (CSIR-NPL), New Delhi 110012, India
| | - V K Gupta
- CSIR-National Physical Laboratory (CSIR-NPL), New Delhi 110012, India
| | - Afaqul Zafer
- CSIR-National Physical Laboratory (CSIR-NPL), New Delhi 110012, India
| | - Abid Haleem
- Department of Mechanical Engineering, Jamia Millia Islamia, New Delhi 110025, India
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Kumar A, Gupta VK, Mandil R, Rahal A, Verma AK, Yadav SK. Interplay of oxidative stress and antioxidant bio markers in oil adjuvant Brucella melitensis vaccinated and challenged mice. Vaccine 2019; 37:3343-3351. [PMID: 31064674 DOI: 10.1016/j.vaccine.2019.04.060] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [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: 02/27/2018] [Revised: 04/14/2019] [Accepted: 04/19/2019] [Indexed: 01/22/2023]
Abstract
The intracellular nature of Brucella leads to rise in oxidative stress due to bacterial invasion, particularly at the site of predilection spleen and lymph nodes. The present study aimed to evaluate the erythrocytic and tissue specific oxidative stress responses induced during oil adjuvant killed Brucella melitensis vaccination. The results of the study clearly implicated a significant increase in level of catalase, and superoxide dismutase (SOD) activity and lipid peroxidation (LPO), and total protein content in erythrocytes after vaccination. The activity of glutathione-S-transferase (GST) was unaltered during the period of experiment. The catalase activity and GSH content was significantly increased in lung and spleen tissues. The tissues GST levels increased significantly in all tissues, while tissue SOD level increased significantly only in lung tissues. Thus, it can be inferred that oil adjuvant based Brucella vaccine induces negligible signs of inflammatory pathophysiology and supports the development of significant level of protection against virulent Brucella challenge.
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Affiliation(s)
- Amit Kumar
- Department of Immunology & Defense Mechanism, College of Biotechnology, Sardar Vallabhbhai Patel University of Agriculture and Technology, Meerut, 250110, India.
| | - V K Gupta
- CADRAD, Indian Veterinary Research Institute, Izatnagar, 243122, India
| | - Rajesh Mandil
- Department of Veterinary Pharmacology, College of Veterinary and Animal Sciences, Sardar Vallabhbhai Patel University of Agriculture & Technology, Meerut, 250110, India
| | - Anu Rahal
- Division of Goat Health, Central Institute for Research on Goats, Farha, Mathura, 281122, India
| | - A K Verma
- Department of Veterinary Medicine, College of Veterinary and Animal Sciences, Sardar Vallabhbhai Patel University of Agriculture & Technology, Meerut, 250110, India
| | - S K Yadav
- Department of Veterinary Microbiology, College of Veterinary and Animal Sciences, DUVASU, Mathura, 281001, India
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Gupta VK. Reader response: The efficacy of nonpharmacologic intervention for orthostatic hypotension associated with aging. Neurology 2019; 92:682-683. [PMID: 30936233 DOI: 10.1212/wnl.0000000000007226] [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: 11/15/2022] Open
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Gupta VK. Reader response: Gray matter volume modifications in migraine: A cross-sectional and longitudinal study. Neurology 2019; 92:587. [DOI: 10.1212/wnl.0000000000007131] [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: 11/15/2022] Open
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Singh BR, Sinha DK, Or VK, Vadhana P, Bhardwaj M, Saraf A, Dubey S, Pawde AM, De UK, Gupta VK. Antimicrobial Activity of Agarwood Oil Against Multiple-Drug-Resistant (MDR) Microbes of Clinical, Food and Environmental Origin. Curr Drug Discov Technol 2019; 17:348-356. [PMID: 30686261 DOI: 10.2174/1570163816666190125163536] [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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2018] [Revised: 01/10/2019] [Accepted: 01/15/2019] [Indexed: 11/22/2022]
Abstract
BACKGROUND AND OBJECTIVES Multiple-Drug-Resistance (MDR) among bacteria is an imminent problem and alternative therapies are seen as a future abode. Agarwood Oil (AO) is described to possess antimicrobial activity besides many other medicinal utilities. This paper discusses the antimicrobial activity of AO on MDR and non-MDR strains of microbes of 69 genera isolated from clinical and non-clinical samples. METHODS AND RESULTS In this study sensitivity of microbes was determined for conventional antimicrobials and AO using disc diffusion assay followed by determination of minimum inhibitory concentration (MIC) using agar well dilution assay. A total of 18.5% (522) strains were found sensitive to AO. Carbapenem resistant bacterial strains were more often (p, ≤0.01) resistant to antibiotics with 4.2 times more odds (99% CI, 2.99-5.90) of being MDR than carbapenem sensitive strains but no difference in their AO sensitivity was observed. However, MDR strains were more often (p, <0.001) resistant to AO than non-MDR strains. Bacteria isolated from dogs were more often sensitive to AO than those from buffaloes, human, horse, and cattle. On the other hand, bacteria from pigs were more often (p, ≤0.05) resistant to AO than bacteria from human, cattle, buffaloes, dogs, wild carnivores and birds. Oxidase positive Gram positive bacteria had 4.29 (95% CI, 2.94-6.27) times more odds to be AO sensitive than oxidase negative Gram negative bacteria. Bacillus species strains were the most sensitive bacteria to AO followed by strains of Streptococcus and Staphylococcus. The MIC of AO for different bacteria ranged from 0.01 mg/mL to > 2.56 mg/mL. CONCLUSION The study concluded that MDR and AO resistance had a similar trend and AO may not be seen as a good antimicrobial agent against MDR strains.
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Affiliation(s)
- Bhoj R Singh
- Division of Epidemiology, ICAR-Indian Veterinary Research Institute, Izatnagar-243 122, India
| | - Dharmendra K Sinha
- Division of Epidemiology, ICAR-Indian Veterinary Research Institute, Izatnagar-243 122, India
| | - Vinodh K Or
- Division of Epidemiology, ICAR-Indian Veterinary Research Institute, Izatnagar-243 122, India
| | - Prasanna Vadhana
- Division of Bacteriology and Mycology, ICAR-Indian Veterinary Research Institute, Izatnagar-243 122, India
| | - Monika Bhardwaj
- Division of Bacteriology and Mycology, ICAR-Indian Veterinary Research Institute, Izatnagar-243 122, India
| | - Archana Saraf
- Division of Epidemiology, ICAR-Indian Veterinary Research Institute, Izatnagar-243 122, India
| | - Sakshi Dubey
- Division of Epidemiology, ICAR-Indian Veterinary Research Institute, Izatnagar-243 122, India
| | - Abhijit M Pawde
- Division of Surgery, ICARIndian Veterinary Research Institute, Izatnagar-243 122, India
| | - Ujjwal K De
- Division of Medicine, ICAR-Indian Veterinary Research Institute, Izatnagar-243 122, India
| | - Vinod K Gupta
- Division of Medicine, ICAR-Indian Veterinary Research Institute, Izatnagar-243 122, India
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Bhati P, Sharma S, Jain R, Rath B, Beri S, Gupta VK, Aneja S. Cerebral Palsy in North Indian Children: Clinico-etiological Profile and Comorbidities. J Pediatr Neurosci 2019; 14:30-35. [PMID: 31316640 PMCID: PMC6601115 DOI: 10.4103/jpn.jpn_46_18] [Citation(s) in RCA: 5] [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] [Indexed: 11/04/2022] Open
Abstract
Aims and Objectives Cerebral palsy (CP) is a common motor disability in children. This study aimed at elaborating various comorbidities and etiologies and also at correlating motor disability with other disabilities. Material and Methods This hospital-based study was conducted in the outpatient department of a tertiary care hospital in Delhi on 160 children with CP in the age group 2-15 years. A detailed history taking and examination were conducted for each patient and appropriate investigations were performed. Results Most patients, that is 64.4%, were younger than 5 years of age and 72.5% were males. Most common etiology was birth asphyxia (41.9%). Maximum patients were of bilateral spastic (spastic quadriplegic) CP accounting 43.1%. Intellectual disability was the most common comorbidity across all subtypes of CP followed by epilepsy. Comorbidities such as epilepsy and all visual problems except optic atrophy were more common in spastic quadriplegic CP. Hearing, speech impairment, and optic atrophy were more common in dyskinetic CP. Chewing, swallowing, and drooling problems were more common in spastic quadriplegic CP. Conclusion Most common risk factor of CP is birth asphyxia; thus, by improving health care facilities, its incidence can be reduced. CP affects not only motor functions but also other important functions of body as well, and the more severe the motor disabilities, the more are other comorbidities and their intensity also increases with that of the intensity of brain insult.
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Affiliation(s)
- Parul Bhati
- Department of Pediatrics, Lady Hardinge Medical College and Kalawati Saran Children's Hospital, New Delhi, India
| | - Suvasini Sharma
- Department of Pediatrics, Lady Hardinge Medical College and Kalawati Saran Children's Hospital, New Delhi, India
| | - Ridhimaa Jain
- Department of Pediatrics, Lady Hardinge Medical College and Kalawati Saran Children's Hospital, New Delhi, India
| | - B Rath
- Department of Pediatrics, Lady Hardinge Medical College and Kalawati Saran Children's Hospital, New Delhi, India
| | - Sarita Beri
- Department of Ophthalmology, Lady Hardinge Medical College and SSK Hospital, New Delhi, India
| | - Vinod K Gupta
- Department of Physical Medicine and Rehabilitation, Lady Hardinge Medical College and Kalawati Saran Children's Hospital, New Delhi, India
| | - Satinder Aneja
- Department of Pediatrics, Lady Hardinge Medical College and Kalawati Saran Children's Hospital, New Delhi, India
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Gupta VK. Reader response: Body composition status and the risk of migraine: A meta-analysis. Neurology 2018; 91:1073. [DOI: 10.1212/wnl.0000000000006623] [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: 11/15/2022] Open
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Gupta VK. Reader response: Optimal deep brain stimulation site and target connectivity for chronic cluster headache. Neurology 2018; 91:193. [PMID: 30037919 DOI: 10.1212/wnl.0000000000005849] [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: 11/15/2022] Open
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Das B, Sahoo RN, Pargal S, Krishna G, Verma R, Chinnusamy V, Sehgal VK, Gupta VK, Dash SK, Swain P. Quantitative monitoring of sucrose, reducing sugar and total sugar dynamics for phenotyping of water-deficit stress tolerance in rice through spectroscopy and chemometrics. Spectrochim Acta A Mol Biomol Spectrosc 2018; 192:41-51. [PMID: 29126007 DOI: 10.1016/j.saa.2017.10.076] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [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: 03/10/2017] [Revised: 10/30/2017] [Accepted: 10/31/2017] [Indexed: 05/21/2023]
Abstract
In the present investigation, the changes in sucrose, reducing and total sugar content due to water-deficit stress in rice leaves were modeled using visible, near infrared (VNIR) and shortwave infrared (SWIR) spectroscopy. The objectives of the study were to identify the best vegetation indices and suitable multivariate technique based on precise analysis of hyperspectral data (350 to 2500nm) and sucrose, reducing sugar and total sugar content measured at different stress levels from 16 different rice genotypes. Spectral data analysis was done to identify suitable spectral indices and models for sucrose estimation. Novel spectral indices in near infrared (NIR) range viz. ratio spectral index (RSI) and normalised difference spectral indices (NDSI) sensitive to sucrose, reducing sugar and total sugar content were identified which were subsequently calibrated and validated. The RSI and NDSI models had R2 values of 0.65, 0.71 and 0.67; RPD values of 1.68, 1.95 and 1.66 for sucrose, reducing sugar and total sugar, respectively for validation dataset. Different multivariate spectral models such as artificial neural network (ANN), multivariate adaptive regression splines (MARS), multiple linear regression (MLR), partial least square regression (PLSR), random forest regression (RFR) and support vector machine regression (SVMR) were also evaluated. The best performing multivariate models for sucrose, reducing sugars and total sugars were found to be, MARS, ANN and MARS, respectively with respect to RPD values of 2.08, 2.44, and 1.93. Results indicated that VNIR and SWIR spectroscopy combined with multivariate calibration can be used as a reliable alternative to conventional methods for measurement of sucrose, reducing sugars and total sugars of rice under water-deficit stress as this technique is fast, economic, and noninvasive.
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Affiliation(s)
- Bappa Das
- Division of Agricultural Physics, Indian Council for Agricultural Research - Indian Agricultural Research Institute, New Delhi 110012, India
| | - Rabi N Sahoo
- Division of Agricultural Physics, Indian Council for Agricultural Research - Indian Agricultural Research Institute, New Delhi 110012, India.
| | - Sourabh Pargal
- Division of Agricultural Physics, Indian Council for Agricultural Research - Indian Agricultural Research Institute, New Delhi 110012, India
| | - Gopal Krishna
- Division of Agricultural Physics, Indian Council for Agricultural Research - Indian Agricultural Research Institute, New Delhi 110012, India
| | - Rakesh Verma
- Division of Plant Physiology, Indian Council for Agricultural Research - Indian Agricultural Research Institute, New Delhi 110012, India
| | - Viswanathan Chinnusamy
- Division of Plant Physiology, Indian Council for Agricultural Research - Indian Agricultural Research Institute, New Delhi 110012, India
| | - Vinay K Sehgal
- Division of Agricultural Physics, Indian Council for Agricultural Research - Indian Agricultural Research Institute, New Delhi 110012, India
| | - Vinod K Gupta
- Division of Agricultural Physics, Indian Council for Agricultural Research - Indian Agricultural Research Institute, New Delhi 110012, India
| | - Sushanta K Dash
- Indian Council for Agricultural Research - National Rice Research Institute, Cuttack 753006, Odisha, India
| | - Padmini Swain
- Indian Council for Agricultural Research - National Rice Research Institute, Cuttack 753006, Odisha, India
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Burakov AE, Galunin EV, Burakova IV, Kucherova AE, Agarwal S, Tkachev AG, Gupta VK. Adsorption of heavy metals on conventional and nanostructured materials for wastewater treatment purposes: A review. Ecotoxicol Environ Saf 2018; 148:702-712. [PMID: 29174989 DOI: 10.1016/j.ecoenv.2017.11.034] [Citation(s) in RCA: 522] [Impact Index Per Article: 87.0] [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: 08/22/2017] [Revised: 11/07/2017] [Accepted: 11/13/2017] [Indexed: 05/24/2023]
Abstract
The problem of water pollution is of a great concern. Adsorption is one of the most efficient techniques for removing noxious heavy metals from the solvent phase. This paper presents a detailed information and review on the adsorption of noxious heavy metal ions from wastewater effluents using various adsorbents - i.e., conventional (activated carbons, zeolites, clays, biosorbents, and industrial by-products) and nanostructured (fullerenes, carbon nanotubes, graphenes). In addition to this, the efficiency of developed materials for adsorption of the heavy metals is discussed in detail along with the comparison of their maximum adsorption capacity in tabular form. A special focus is made on the perspectives of further wider applications of nanostructured adsorbents (especially, carbon nanotubes and graphenes) in wastewater treatment.
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Affiliation(s)
- Alexander E Burakov
- Tambov State Technical University, 106, Sovetskaya Str., Tambov 392000, Russia
| | - Evgeny V Galunin
- Tambov State Technical University, 106, Sovetskaya Str., Tambov 392000, Russia
| | - Irina V Burakova
- Tambov State Technical University, 106, Sovetskaya Str., Tambov 392000, Russia.
| | | | - Shilpi Agarwal
- University of Johannesburg, Corner Beit and Nind Street, John Orr Building, P.O Box 17011, Doornfontein 2028, South Africa
| | - Alexey G Tkachev
- Tambov State Technical University, 106, Sovetskaya Str., Tambov 392000, Russia
| | - Vinod K Gupta
- University of Johannesburg, Corner Beit and Nind Street, John Orr Building, P.O Box 17011, Doornfontein 2028, South Africa
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Ramakrishnan MA, Pundkar CY, Fayaz A, ChandraSekar S, Mageswary R, Ashokkumar D, Bano R, Muthuchelvan D, Nandi S, Gupta VK. Differentiation of bovine herpesvirus1 subtypes based on UL0.5 gene sequencing. Virusdisease 2018; 29:106-108. [PMID: 29607367 DOI: 10.1007/s13337-018-0422-z] [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] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2017] [Accepted: 01/10/2018] [Indexed: 11/24/2022] Open
Abstract
Infectious bovine rhinotracheitis/infectious pustular vulvovaginitis is one of the high economic importance diseases of cattle and caused by bovine herpesvirus1 (BoHV1). Based on the restriction endonuclease fingerprinting of viral DNA, the BoHV1 can be divided into three subtypes viz., BoHV1.1, 1.2a, and 1.2b. Since this method requires a pure viral DNA, it is time-consuming and labour intense. In the current study, the UL0.5 gene based PCR sequencing has been used for the subtyping of BoHV1. Out of five isolates, four had BoHV1-like signatures and one isolate had BoHV1.2-like signatures. Further, these viruses phylogenetically clustered under the respective subtypes. These results indicate that the UL 0.5 gene based PCR sequencing could be used as an alternate method of subtyping of BoHV1.
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Affiliation(s)
- Muthannan A Ramakrishnan
- 1Division of Virology, ICAR-Indian Veterinary Research Institute, Mukteswar, Uttarakhand 263 138 India
| | - Chetan Y Pundkar
- 1Division of Virology, ICAR-Indian Veterinary Research Institute, Mukteswar, Uttarakhand 263 138 India
| | - Arfa Fayaz
- 1Division of Virology, ICAR-Indian Veterinary Research Institute, Mukteswar, Uttarakhand 263 138 India
| | - S ChandraSekar
- 1Division of Virology, ICAR-Indian Veterinary Research Institute, Mukteswar, Uttarakhand 263 138 India
| | - R Mageswary
- 1Division of Virology, ICAR-Indian Veterinary Research Institute, Mukteswar, Uttarakhand 263 138 India
| | - Deenanath Ashokkumar
- 1Division of Virology, ICAR-Indian Veterinary Research Institute, Mukteswar, Uttarakhand 263 138 India
| | - Rukhsana Bano
- 1Division of Virology, ICAR-Indian Veterinary Research Institute, Mukteswar, Uttarakhand 263 138 India
| | - Dhanavelu Muthuchelvan
- 1Division of Virology, ICAR-Indian Veterinary Research Institute, Mukteswar, Uttarakhand 263 138 India
| | - Sukdeb Nandi
- 2Centre for Animal Disease Research and Diagnosis, ICAR-Indian Veterinary Research Institute, Izatnagar, Uttar Pradesh 243 122 India
| | - V K Gupta
- 2Centre for Animal Disease Research and Diagnosis, ICAR-Indian Veterinary Research Institute, Izatnagar, Uttar Pradesh 243 122 India
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Joshi V, Gupta VK, Bhanuprakash AG, Mandal RSK, Dimri U, Ajith Y. Haptoglobin and serum amyloid A as putative biomarker candidates of naturally occurring bovine respiratory disease in dairy calves. Microb Pathog 2018; 116:33-37. [PMID: 29330058 DOI: 10.1016/j.micpath.2018.01.001] [Citation(s) in RCA: 40] [Impact Index Per Article: 6.7] [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: 11/20/2017] [Revised: 12/13/2017] [Accepted: 01/07/2018] [Indexed: 02/06/2023]
Abstract
Bovine respiratory disease (BRD) is one of the leading causes of morbidity and mortality in dairy calves. Identification of reliable biomarkers of naturally occurring BRD is essential for ensuring early diagnosis and treatment of calves and monitoring treatment efficacy. This need is punctuated, especially in mild to moderate cases that would greatly help to decrease recurrence and the overall prevalence of BRD. The present study was conducted to investigate the changes in serum concentrations of haptoglobin (Hpt) and serum amyloid A (SAA) and association between oxidative stress and acute phase proteins (APPs) in BRD. Hpt and SAA levels significantly increased (P < .01) in BRD stressed calves as compared to healthy subjects. There was a significant decrease (P < .01) in serum albumin (Alb) concentration of infected calves as compared to controls. The oxidative stress markers revealed a significant (P < .01) increase in lipid peroxidation (LPO) and a concurrent decrease in activities of superoxide dismutase (SOD), reduced glutathione (R-GSH) and catalase (CAT) in BRD. A significant correlation among APPs, extent of oxidative stress and clinical score (CS) of calves was depicted. A stepwise decrease in Hpt and SAA and increase in Alb was observed in infected calves post-treatment. These results suggest implication of oxidative stress in enhancing APPs and monitoring of APPs as a potential complement to clinical assessment of treatment in calves with naturally occurring BRD. Hpt may be useful as the most sensitive biomarker in BRD. However, the combined use of Hpt and oxidative stress biomarkers would greatly improve the diagnostic accuracy.
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Affiliation(s)
- Vivek Joshi
- Division of Medicine, ICAR-Indian Veterinary Research Institute, Izatnagar, Uttar Pradesh, India.
| | - V K Gupta
- Division of Medicine, ICAR-Indian Veterinary Research Institute, Izatnagar, Uttar Pradesh, India
| | - A G Bhanuprakash
- Division of Medicine, ICAR-Indian Veterinary Research Institute, Izatnagar, Uttar Pradesh, India
| | - R S K Mandal
- Division of Medicine, ICAR-Indian Veterinary Research Institute, Izatnagar, Uttar Pradesh, India
| | - U Dimri
- Division of Medicine, ICAR-Indian Veterinary Research Institute, Izatnagar, Uttar Pradesh, India
| | - Y Ajith
- Division of Medicine, ICAR-Indian Veterinary Research Institute, Izatnagar, Uttar Pradesh, India
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Beena V, Pawaiya RVS, Gururaj K, Singh DD, Mishra AK, Gangwar NK, Gupta VK, Singh R, Sharma AK, Karikalan M, Kumar A. Molecular etiopathology of naturally occurring reproductive diseases in female goats. Vet World 2017; 10:964-972. [PMID: 28919691 PMCID: PMC5591487 DOI: 10.14202/vetworld.2017.964-972] [Citation(s) in RCA: 7] [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] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2017] [Accepted: 07/26/2017] [Indexed: 11/16/2022] Open
Abstract
AIM The aim of the present study was to investigate the molecular etiopathology of occurrence of reproductive diseases in female goats. Reproductive diseases in goats account for major economic losses to goat farmers in terms of valuable loss of offspring and animal productivity. MATERIALS AND METHODS A total of 660 female genitalia were examined for pathological conditions (macroscopic and microscopic lesions). The etiopathological study was carried out for the presence of pathogenic organisms such as Brucella, Chlamydia, and Campylobacter in the uterus and ovary. Based on the microscopic lesions, suspected samples were subjected to diagnostic polymerase chain reaction (PCR) for various etiological agents employing 16srRNA genus specific primers for Campylobacter and Chlamydophila and OMP31 gene-based PCR for Brucella melitensis and nested PCR using ITS-1 gene primers for Toxoplasma gondii. For Brucella suspected samples, immunohistochemistry (IHC) was also performed. RESULTS In studied female genitalia, 108 (16.30%) showed gross abnormalities with overall 23.32% occurrence of pathological conditions (macroscopic and microscopic lesions). Pathological involvement of the uterus was the highest 68 (62.96%), followed by the ovaries 27 (25%) and other organs. Major uterine condition observed was endometritis (5.60%). In uterine infections, 35 (5.30%) samples were found positive for Campylobacter spp., 12 (1.81%) samples for B. melitensis, and 3 (0.45%) samples were positive for Chlamydophila spp. Among the samples positive for B. melitensis by PCR, 3 were found positive by IHC also. Corynebacterium ovis was detected by PCR using specific primers in a case of hydrosalpinx. It was concluded that many pathological lesions in female genitalia of functional significance play a major role in infertility in goats. CONCLUSION The present study concluded that many pathological lesions in female genitalia of functional significance play a major role in infertility in goats.
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Affiliation(s)
- V Beena
- Division of Animal Health, ICAR-Central Institute for Research on Goats, Makhdoom, Farah, Mathura - 281 122, Uttar Pradesh, India
| | - R V S Pawaiya
- Division of Animal Health, ICAR-Central Institute for Research on Goats, Makhdoom, Farah, Mathura - 281 122, Uttar Pradesh, India
| | - K Gururaj
- Division of Animal Health, ICAR-Central Institute for Research on Goats, Makhdoom, Farah, Mathura - 281 122, Uttar Pradesh, India
| | - D D Singh
- Division of Animal Health, ICAR-Central Institute for Research on Goats, Makhdoom, Farah, Mathura - 281 122, Uttar Pradesh, India
| | - A K Mishra
- Division of Animal Health, ICAR-Central Institute for Research on Goats, Makhdoom, Farah, Mathura - 281 122, Uttar Pradesh, India
| | - N K Gangwar
- Division of Animal Health, ICAR-Central Institute for Research on Goats, Makhdoom, Farah, Mathura - 281 122, Uttar Pradesh, India
| | - V K Gupta
- Centre for Animal Disease Research and Diagnosis (CADRAD), ICAR-Indian Veterinary Research Institute, Izatnagar - 243 122, Uttar Pradesh, India
| | - R Singh
- Division of Pathology, ICAR-Indian Veterinary Research Institute, Izatnagar - 243 122, Uttar Pradesh, India
| | - A K Sharma
- Division of Pathology, ICAR-Indian Veterinary Research Institute, Izatnagar - 243 122, Uttar Pradesh, India
| | - M Karikalan
- Division of Pathology, ICAR-Indian Veterinary Research Institute, Izatnagar - 243 122, Uttar Pradesh, India
| | - Ashok Kumar
- Division of Animal Health, ICAR-Central Institute for Research on Goats, Makhdoom, Farah, Mathura - 281 122, Uttar Pradesh, India
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Jaiswal SK, Gupta VK, Siddiqi NJ, Sharma B. Curcumin mediated attenuation of carbofuran induced toxicity in the heart of Wistar rats. ACTA ACUST UNITED AC 2017; 63:12-17. [PMID: 28968202 DOI: 10.14715/cmb/2017.63.6.3] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [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: 08/19/2017] [Indexed: 11/18/2022]
Abstract
Carbofuran is used to improve the agricultural productivity as well as to protect the house hold and industrial products, but due to accumulation in the biological system, it causes serious side effects in many non-targets mammalian systems. The aim of present study is to evaluate the carbofuran induced oxidative stress in rat heart and its attenuation by using herbal product curcumin. Rats were divided into four groups; one group received 20 % LD50 of carbofuran another group of rats received same doses of carbofuran was pretreated with curcumin (100 mg kg-1 body weight) and remaining two other groups served as control and curcumin treated animals. The activity of lactate dehydrogenase (LDH) in the heart tissues and serum was evaluated and the activity of enzymatic antioxidants superoxide dismutase (SOD) and catalase (CAT) was estimated in the heart tissues. The level of malondialdehyde (MDA) in heart tissues was also measured. The Total cholesterol (TC) and high density lipoprotein (HDL) was measured in the serum of the entire animals group. The results of present study showed that the activity of LDH in heart tissues were decreased and in serum was elevated. The MDA level was significantly elevated due to exposure of carbofuran. The enzymatic antioxidants, SOD and CAT activities were also inhibited. The ratio of pro-oxidant (P)/antioxidant (A) was also found to be sharply increased in the rat heart tissues of carbofuran exposed animals. The alterations in all the parameter were recovered by the pretreatment of curcumin (100 mg kg-1 body weight).
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Affiliation(s)
- S K Jaiswal
- Department of Biochemistry, University of Allahabad, Allahabad-211002, UP, India
| | - V K Gupta
- Department of Biochemistry, University of Allahabad, Allahabad-211002, UP, India
| | - N J Siddiqi
- Department of Biochemistry, College of Science, King Saud University, Riyadh 11495, Saudi Arabia
| | - B Sharma
- Department of Biochemistry, University of Allahabad, Allahabad-211002, UP, India
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Chethan GE, Garkhal J, Sircar S, Malik YPS, Mukherjee R, Gupta VK, Sahoo NR, Agarwal RK, De UK. Changes of haemogram and serum biochemistry in neonatal piglet diarrhoea associated with porcine rotavirus type A. Trop Anim Health Prod 2017; 49:1517-1522. [PMID: 28752213 DOI: 10.1007/s11250-017-1357-x] [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] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2017] [Accepted: 07/05/2017] [Indexed: 01/26/2023]
Abstract
Porcine rotavirus type A (RVA) is a major cause of neonatal piglet mortality in India. The effect of the disease on haemogram and serum biochemical profile is not well established in piglets. Accordingly, we assessed the haemogram and serum biochemical profile in the neonatal piglet diarrhoea with RVA infection (n = 17). The diagnosis of RVA was confirmed using RNA-polyacrylamide gel electrophoresis (RNA-PAGE), commercially available enzyme-linked immunosorbent assay (ELISA) kit and reverse transcription-polymerase chain reaction (RT-PCR). Non-infected healthy piglets (n = 6) served as control. The concentrations of total protein, albumin, alanine amino transaminase (ALT), aspartate amino transaminase (AST), blood urea nitrogen (BUN) and creatinine in serum were measured by spectrophotometric method. Haemogram was done in the blood using sodium ethylenediaminetetraacetic acid (Na2 EDTA) as anticoagulant. The mean values of total protein, albumin and globulin concentrations were significantly (P < 0.001) decreased and concentrations of ALT, AST, BUN and creatinine were significantly increased (P < 0.001) in the RVA-infected piglets. Haemogram showed marked haemoconcentration (P < 0.001), leukopenia (P < 0.01) and neutropenia (P < 0.01) in the presence of RVA infection than healthy piglets. The results indicated a possible extra-intestinal spread of RVA in piglets during neonatal diarrhoea. The finding might be helpful to clinicians and while treating such type of clinical cases, incorporation of organ protective drugs will be helpful for better response in the treatment schedule.
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Affiliation(s)
- G E Chethan
- Division of Medicine, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - J Garkhal
- Division of Medicine, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - Shubhankar Sircar
- Division of Biological Standardization, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - Y P S Malik
- Division of Biological Standardization, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - R Mukherjee
- Division of Medicine, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - V K Gupta
- Division of Medicine, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - N R Sahoo
- Livestock Production and Management Section, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - R K Agarwal
- Division of Bacteriology and Mycology, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, 243122, India
| | - U K De
- Division of Medicine, Indian Veterinary Research Institute, Izatnagar, Bareilly, Uttar Pradesh, 243122, India.
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Gupta VK, Paul S, Dutta C. Geography, Ethnicity or Subsistence-Specific Variations in Human Microbiome Composition and Diversity. Front Microbiol 2017; 8:1162. [PMID: 28690602 PMCID: PMC5481955 DOI: 10.3389/fmicb.2017.01162] [Citation(s) in RCA: 549] [Impact Index Per Article: 78.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2016] [Accepted: 06/07/2017] [Indexed: 12/14/2022] Open
Abstract
One of the fundamental issues in the microbiome research is characterization of the healthy human microbiota. Recent studies have elucidated substantial divergences in the microbiome structure between healthy individuals from different race and ethnicity. This review provides a comprehensive account of such geography, ethnicity or life-style-specific variations in healthy microbiome at five major body habitats—Gut, Oral-cavity, Respiratory Tract, Skin, and Urogenital Tract (UGT). The review focuses on the general trend in the human microbiome evolution—a gradual transition in the gross compositional structure along with a continual decrease in diversity of the microbiome, especially of the gut microbiome, as the human populations passed through three stages of subsistence like foraging, rural farming and industrialized urban western life. In general, gut microbiome of the hunter-gatherer populations is highly abundant with Prevotella, Proteobacteria, Spirochaetes, Clostridiales, Ruminobacter etc., while those of the urban communities are often enriched in Bacteroides, Bifidobacterium, and Firmicutes. The oral and skin microbiome are the next most diverse among different populations, while respiratory tract and UGT microbiome show lesser variations. Higher microbiome diversity is observed for oral-cavity in hunter-gatherer group with higher prevalence of Haemophilus than agricultural group. In case of skin microbiome, rural and urban Chinese populations show variation in abundance of Trabulsiella and Propionibacterium. On the basis of published data, we have characterized the core microbiota—the set of genera commonly found in all populations, irrespective of their geographic locations, ethnicity or mode of subsistence. We have also identified the major factors responsible for geography-based alterations in microbiota; though it is not yet clear which factor plays a dominant role in shaping the microbiome—nature or nurture, host genetics or his environment. Some of the geographical/racial variations in microbiome structure have been attributed to differences in host genetics and innate/adaptive immunity, while in many other cases, cultural/behavioral features like diet, hygiene, parasitic load, environmental exposure etc. overshadow genetics. The ethnicity or population-specific variations in human microbiome composition, as reviewed in this report, question the universality of the microbiome-based therapeutic strategies and recommend for geographically tailored community-scale approaches to microbiome engineering.
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Affiliation(s)
- Vinod K Gupta
- Structural Biology and Bioinformatics Division, CSIR-Indian Institute of Chemical BiologyKolkata, India.,Academy of Scientific and Innovative ResearchKolkata, India
| | - Sandip Paul
- Structural Biology and Bioinformatics Division, CSIR-Indian Institute of Chemical BiologyKolkata, India
| | - Chitra Dutta
- Structural Biology and Bioinformatics Division, CSIR-Indian Institute of Chemical BiologyKolkata, India.,Academy of Scientific and Innovative ResearchKolkata, India
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