Jivan Shakya

ORCID: 0000-0001-9469-2148
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About
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Research Areas
  • Salmonella and Campylobacter epidemiology
  • Vibrio bacteria research studies
  • Viral gastroenteritis research and epidemiology
  • Bacteriophages and microbial interactions
  • SARS-CoV-2 detection and testing
  • Antibiotic Resistance in Bacteria
  • Fecal contamination and water quality
  • Lipoproteins and Cardiovascular Health
  • Aquaculture disease management and microbiota
  • Genomics and Phylogenetic Studies
  • Leprosy Research and Treatment
  • Gastrointestinal disorders and treatments
  • Neutrophil, Myeloperoxidase and Oxidative Mechanisms
  • Diverticular Disease and Complications
  • Immune cells in cancer
  • Signaling Pathways in Disease
  • Cancer Mechanisms and Therapy
  • Cancer, Lipids, and Metabolism
  • Cholesterol and Lipid Metabolism
  • Tuberculosis Research and Epidemiology
  • HIV Research and Treatment
  • Tryptophan and brain disorders
  • Genetic diversity and population structure
  • Mycobacterium research and diagnosis
  • Stress Responses and Cortisol

Anandaban Hospital
2025

Tribhuvan University
2021-2024

Dhulikhel Hospital
2020-2023

Kathmandu University
2020-2023

Institute for Social and Environmental Research-Nepal
2023

Nepal Development Research Institute
2023

Center for Molecular Dynamics - Nepal
2015-2018

Technion – Israel Institute of Technology
2018

Carmel Medical Center
2016

The emergence of increasingly antimicrobial-resistant Salmonella enterica serovar Typhi (S Typhi) threatens to undermine effective treatment and control. Understanding where antimicrobial resistance in S is emerging spreading crucial towards formulating control strategies.In this genomic epidemiology study, we sequenced the genomes 3489 strains isolated from prospective enteric fever surveillance studies Nepal, Bangladesh, Pakistan, India (between 2014 2019), combined these with a global...

10.1016/s2666-5247(22)00093-3 article EN cc-by The Lancet Microbe 2022-06-21

Abstract Regulating immunity is a leading target for cancer therapy. Here, we show that the anti-tumor immune response can be modulated by brain’s reward system, key circuitry in emotional processes. Activation of system tumor-bearing mice (Lewis lung carcinoma (LLC) and B16 melanoma) using chemogenetics (DREADDs), resulted reduced tumor weight. This effect was mediated via sympathetic nervous (SNS), manifested an attenuated noradrenergic input to major immunological site, bone marrow....

10.1038/s41467-018-05283-5 article EN cc-by Nature Communications 2018-07-09

BackgroundThe incidence of enteric fever, an invasive bacterial infection caused by typhoidal Salmonellae (Salmonella enterica serovars Typhi and Paratyphi), is largely unknown in regions without blood culture surveillance. The aim this study was to evaluate whether new diagnostic serological markers for Salmonella can reliably estimate population-level incidence.MethodsWe collected longitudinal samples from patients with culture-confirmed fever enrolled surveillance studies Bangladesh,...

10.1016/s2666-5247(22)00114-8 article EN cc-by The Lancet Microbe 2022-06-21

With fewer than 200 tigers (Panthera tigris tigris) left in Nepal, that are generally confined to five protected areas across the Terai Arc Landscape, genetic studies needed provide crucial information on diversity and connectivity for devising an effective country-wide tiger conservation strategy. As part of Nepal Tiger Genome Project, we studied landscape change, variation, population structure, gene flow Landscape by conducting Nepal's first comprehensive systematic scat-based,...

10.1371/journal.pone.0193495 article EN public-domain PLoS ONE 2018-03-21

Environmental surveillance, using detection of Salmonella Typhi DNA, has emerged as a potentially useful tool to identify typhoid-endemic settings; however, it is relatively costly and requires molecular diagnostic capacity. We sought determine whether S. bacteriophages are abundant in water sources setting, low-cost assays. collected drinking surface samples from urban, peri-urban rural areas 4 regions Nepal. performed double agar overlay with assess the presence bacteriophages. isolated...

10.1371/journal.pntd.0011912 article EN cc-by PLoS neglected tropical diseases 2024-02-08

As part of a comprehensive health care programme for people who use drugs in Nepal, HIV and viral hepatitis B C status--including risk factors, HCV-genotypes co-infections--as well as two IL28B Single-nucleotide polymorphisms (SNPs) were assessed random sample 401 inject three regions Nepal: mid-western Terrai (Nepalgunj), the eastern region (Dharan, Biratnagar) central (Kathmandu, Lalitpur Chitwan). Individuals included showed at least minimum seeking behaviour. This latter criterion was...

10.1371/journal.pone.0134455 article EN cc-by PLoS ONE 2015-08-11

Wastewater surveillance (WS) has been used globally as a complementary tool to monitor the spread of coronavirus disease 2019 (COVID-19) throughout pandemic. However, concern about appropriateness WS in low- and middle-income countries (LMICs) exists due low sewer coverage expensive viral concentration methods. In this study, influent wastewater samples (n = 63) collected from two treatment plants (WWTPs) Kathmandu Valley between March 2021 February 2022 were concentrated using economical...

10.3390/pathogens13050366 article EN cc-by Pathogens 2024-04-29

Previously, we have identified a new epitope in EMMPRIN, multifunctional protein that mediates tumor cell–macrophage interactions and induces both MMP-9 VEGF. Here, synthesized this as an octa-branched multiple antigenic peptide (MAP) to vaccinate mice implanted with subcutaneous syngeneic colon (CT26), prostate (TRAMP-C2) or renal (RENCA) cell line carcinomas. Vaccination inhibited, sometimes regressed, growth dose-dependent manner, reaching 94%, 71% 72% inhibition, respectively, at 50 μg...

10.1080/2162402x.2016.1261778 article EN OncoImmunology 2016-11-29

Introduction Salmonella Typhi and Paratyphi, fecal-oral transmitted bacterium, have temporally geographically heterogeneous pathways of transmission. Previous work in Kathmandu, Nepal implicated stone waterspouts as a dominant transmission pathway after 77% samples tested positive for 70% Paratyphi. Due to falling water table, these spouts no longer provide drinking water, but typhoid fever persists, the question disease’s remains unanswered. Methods We used environmental surveillance detect...

10.1371/journal.pntd.0011341 article EN cc-by PLoS neglected tropical diseases 2023-10-18
Megan E. Carey Zoe A. Dyson Danielle J. Ingle Afreenish Amir Mabel Kamweli Aworh and 95 more Marie Anne Chattaway Ka Lip Chew John A. Crump Nicholas Feasey Benjamin P. Howden Karen H. Keddy Mailis Maes Christopher M. Parry Sandra Van Puyvelde Hattie E. Webb Ayorinde O. Afolayan Shalini Anandan Jason R. Andrews Philip Ashton Buddha Basnyat Ashish Bavdekar Isaac I. Bogoch John D. Clemens Kesia E. da Silva Anuradha De Joep de Ligt Paula Díaz Christiane Dolecek Shanta Dutta Louise Francois Watkins Denise O Garrett Gauri Godbole Melita A. Gordon Andrew R. Greenhill Chelsey Griffin Madhu Gupta Rene Hendricksen Robert S. Heyderman Yogesh Hooda Juan Carlos Hormazábal Odion O. Ikhimiukor Junaid Iqbal Jobin John Jacob Claire Jenkins Dasaratha Ramaiah Jinka Jacob John Gagandeep Kang Abdoulie Kanteh Arti Kapil Abhilasha Karkey Samuel Kariuki Robert A. Kingsley Roshine Mary Koshy A.C. Lauer Myron M. Levine Ravikumar Kadahalli Lingegowda Stephen P. Luby Grant Mackenzie Tapfumanei Mashe Chisomo Msefula Ankur Mutreja Geetha Nagaraj Savitha Nagaraj Satheesh Nair Take Naseri Susana Nimarota-Brown Elisabeth Njamkepo Iruka N. Okeke Sulochana Putli Bai Perumal Andrew J. Pollard Agila Kumari Pragasam Firdausi Qadri Farah Naz Qamar Sadia Rahman Savitra Rambocus David A. Rasko Pallab Ray Roy M. Robins‐Browne Temsunaro Rongsen‐Chandola Jean Pierre Rutanga Samir K. Saha Senjuti Saha Karnika Saigal Mohammad Saiful Islam Sajib Jessica C. Seidman Jivan Shakya Varun Shamanna Jayanthi Shastri Rajeev Shrestha Sonia Sia Michael J. Sikorski Ashita Singh Anthony M. Smith Kaitlin A. Tagg Dipesh Tamrakar Arif Mohammad Tanmoy Maria Thomas M. Thomas Robert Thomsen Nicholas R. Thomson

Abstract The Global Typhoid Genomics Consortium was established to bring together the typhoid research community aggregate and analyse Salmonella enterica serovar Typhi (Typhi) genomic data inform public health action. This analysis, which marks twenty-one years since publication of first genome, represents largest genome sequence collection date (n=13,000), provides a detailed overview global genotype antimicrobial resistance (AMR) distribution temporal trends, generated using open analysis...

10.1101/2022.12.28.22283969 preprint EN cc-by medRxiv (Cold Spring Harbor Laboratory) 2022-12-30

Abstract Environmental surveillance, using detection of Salmonella Typhi DNA, has emerged as a potentially useful tool to identify typhoid-endemic settings; however, it is relatively costly and requires molecular diagnostic capacity. We sought determine whether S . bacteriophages are abundant in water sources setting, low-cost assays. collected drinking surface samples from urban, peri-urban rural areas 4 regions Nepal. performed double agar overlay with assess the presence bacteriophages....

10.1101/2023.02.14.23285806 preprint EN cc-by-nc-nd medRxiv (Cold Spring Harbor Laboratory) 2023-02-17

Introduction ATP-binding cassette transporter A1 (ABCA1) encoded by ABCA1 gene is one of the important protein involved in lipid metabolism. The effect statin therapy on dyslipidemia varies among individuals and it may be due to different genetic polymorphism. R219K polymorphism found have a significant role response statin. Objective This study was designed evaluate lipid-lowering action patients with dyslipidemia. Material Methods conducted 88 patients. Blood samples were taken from before...

10.1055/s-0043-1768630 article EN Journal of Laboratory Physicians 2023-07-03

Abstract The emergence of increasingly antimicrobial-resistant (AMR) Salmonella enterica serovar Typhi ( S . Typhi) threatens to undermine effective treatment and control. Here, aiming investigate the temporal geographic patterns spread AMR Typhi, we sequenced 3,489 isolated from prospective surveillance in South Asia combined these with a global collection 4,169 genomes. Our analysis revealed that independent acquisition plasmids homoplastic mutations conferring have occurred repeatedly...

10.1101/2021.09.03.21262852 preprint EN cc-by-nc-nd medRxiv (Cold Spring Harbor Laboratory) 2021-09-07

Abstract Background The incidence of enteric fever, an invasive bacterial infection caused by typhoidal Salmonellae , is largely unknown in regions lacking blood culture surveillance. New serologic markers have proven accurate diagnosing but whether they could be used to reliably estimate population-level unknown. Methods We collected longitudinal samples from culture-confirmed fever cases enrolled surveillance studies Bangladesh, Nepal, Pakistan, and Ghana conducted cross-sectional...

10.1101/2021.10.20.21265277 preprint EN cc-by-nd medRxiv (Cold Spring Harbor Laboratory) 2021-10-21

IJAR - Indian Journal of Applied Research (IJAR) is a double reviewed monthly print journal that accepts research works from scholars, academicians, professors, doctorates, lecturers, and corporate in their respective expertise studies.

10.15373/2249555x/apr2014/193 article EN Indian Journal Of Applied Research 2011-10-01

Abstract Insertion sequence contributes to the emergence of carbapenem resistance by dissemination carbapenemase genes and providing promoter for their overexpression. This study aims ascertain occurrence IS Aba1 -linked OXA its relevance level in Acinetobacter baumannii . hospital based descriptive was conducted at Shahid Gangalal National Heart Center, Kathmandu, Nepal. An overall 1,291 clinical specimens received routine culture antibiotic susceptibility testing throughout period were...

10.1101/2023.03.13.532405 preprint EN cc-by bioRxiv (Cold Spring Harbor Laboratory) 2023-03-13

Abstract Introduction Salmonella Typhi and Paratyphi, fecal-oral transmitted bacterium have temporally geographically heterogeneous pathways of transmission. Previous work in Kathmandu Nepal implicated stone waterspouts as a dominant transmission pathway after 77% samples tested positive for S . 70% Paratyphi. Due to falling water table, these spouts no longer provide drinking water, but typhoid fever persists, the question disease’s remains unanswered. Methods We used environmental...

10.1101/2023.05.02.23289369 preprint EN cc-by medRxiv (Cold Spring Harbor Laboratory) 2023-05-02
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