Last data update: May 28, 2024. (Total: 46864 publications since 2009)
Records 1-10 (of 10 Records) |
Query Trace: Yadav PD[original query] |
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Editorial: Emerging SARS-CoV-2 variants: genomic variations, transmission, pathogenesis, clinical impact, and interventions, volume II
Yadav PD , Patil DY , Kumar S , Bergeron E , Rodriguez SE . Front Med (Lausanne) 2023 10 1215309 This Research Topic has focused on subjects such as tracking emerging SARS-CoV-2 variants, detection, isolation, and genomic characterization of emerging variants, transmission, pathogenesis, clinical effects of variants, assessment of COVID-19 vaccination and treatment effectiveness, comparative analysis of SARS-CoV-2 genomic data, and other public health intervention measures. The Research Topic featured 27 articles highlighting the emergence of Omicron variants and their sub-lineages across the globe and their clinical presentations, specifically asymptomatic infections, COVID-19-associated liver injury, and comorbidities such as hypertension, diabetes, and bronchitis. Additionally, a few studies have reported the efficacy of therapeutic drugs in reducing viral load and the significance of vaccination and a booster dose against Omicron variants. Furthermore, the studies on genomic surveillance and evolutionary analysis have demonstrated the emergence of Omicron and its sub-lineages and their characteristic mutations. All these in-depth studies have explored various elements of Omicron, resulting in a comprehensive understanding of this variant. |
Editorial: Emerging SARS-CoV-2 variants: Genomic variations, transmission, pathogenesis, clinical impact and interventions
Yadav PD , Kumar S , Bergeron É , Flora MS . Front Med (Lausanne) 2023 10 1178696 Severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) originated in Wuhan in December 2019 and rapidly spread across the globe, with the World Health Organization (WHO) declaring it a pandemic in March 2020. Since early 2021, multiple SARS-CoV-2 variants have emerged in various countries around the world (1). Among these, the “Variant of Concern” has been reported to be highly transmissible, infectious, and capable of evading the natural or vaccine-induced immune response. The rapid spread of these variants has resulted in a daily increase in SARS-CoV-2 cases, which are associated with severe morbidity and mortality, exacerbating the pandemic situation (2). The newly emerged variants have become a serious threat to the global COVID-19 vaccination program due to their reduced susceptibility to currently available vaccines (3). It is critical to conduct active genomic surveillance of SARS-CoV-2 variants in order to better understand their transmission, pathogenesis, and the efficacy of vaccines and other therapeutics against these variants. |
Lessons from the pandemic: Responding to emerging zoonotic viral diseases-a Keystone Symposia report
Cable J , Fauci A , Dowling WE , Günther S , Bente DA , Yadav PD , Madoff LC , Wang LF , Arora RK , Van Kerkhove M , Chu MC , Jaenisch T , Epstein JH , Frost SDW , Bausch DG , Hensley LE , Bergeron É , Sitaras I , Gunn MD , Geisbert TW , Muñoz-Fontela C , Krammer F , de Wit E , Nordenfelt P , Saphire EO , Gilbert SC , Corbett KS , Branco LM , Baize S , van Doremalen N , Krieger MA , Clemens SAC , Hesselink R , Hartman D . Ann N Y Acad Sci 2022 1518 (1) 209-225 The COVID-19 pandemic caught the world largely unprepared, including scientific and policy communities. On April 10-13, 2022, researchers across academia, industry, government, and nonprofit organizations met at the Keystone symposium "Lessons from the Pandemic: Responding to Emerging Zoonotic Viral Diseases" to discuss the successes and challenges of the COVID-19 pandemic and what lessons can be applied moving forward. Speakers focused on experiences not only from the COVID-19 pandemic but also from outbreaks of other pathogens, including the Ebola virus, Lassa virus, and Nipah virus. A general consensus was that investments made during the COVID-19 pandemic in infrastructure, collaborations, laboratory and manufacturing capacity, diagnostics, clinical trial networks, and regulatory enhancements-notably, in low-to-middle income countries-must be maintained and strengthened to enable quick, concerted responses to future threats, especially to zoonotic pathogens. |
Isolation and phylogenomic analysis of Buffalopox virus from Human and Buffaloes in India.
Yadav PD , Mauldin MR , Nyayanit DA , Albarino CG , Sarkale P , Shete A , Guerrero LW , Nakazawa Y , Nichol ST , Mourya DT . Virus Res 2019 277 197836 Three genome sequences of Buffalopox virus (BPVX) were retrieved from a human and two buffaloes scab samples. Phylogenomic analysis of the BPXV indicates that it shares a most recent common ancestor with Lister and closely related vaccine strains when compared to potential wild-type VACV strains (like Horsepox virus). |
Characterization of Novel Reoviruses [Wad Medani virus (Orbivirus) and Kundal (Coltivirus)] collected from Hyalomma antolicum ticks in India during CCHF surveillance.
Yadav PD , Whitmer SLM , Sarkale P , Ng TFF , Goldsmith CS , Nyayanit DA , Esona MD , Shrivastava-Ranjan P , Lakra R , Pardeshi P , Majumdar TD , Francis A , Klena JD , Nichol ST , Stroher U , Mourya D . J Virol 2019 93 (13) In 2011, ticks were collected from livestock following an outbreak of Crimean Congo Hemorrhagic fever (CCHF) in Gujarat state, India. CCHF-negative Hyalomma anatolicum tick pools were passaged for virus isolation, and two virus isolates were obtained, designated Karyana virus (KARYV) and Kundal virus (KUNDV) respectively. Traditional RT-PCR identification of known viruses was unsuccessful, but a next-generation sequencing approach identified KARYV and KUNDV as viruses in the Reoviridae family, Orbivirus, and Coltivirus genera, respectively. Viral genomes were de novo assembled, yielding 10 complete segments of KARYV and 12 nearly complete segments of KUNDV. The VP1 gene of KARYV shared a most recent common ancestor with Wad Medani virus (WMV), strain Ar495, and based on nucleotide identity we demonstrate that it is a novel WMV strain. The VP1 segment of KUNDV shares a common ancestor with Colorado tick fever virus, Eyach virus, Tai Forest reovirus and Tarumizu tick virus from the Coltivirus genus. Based on VP1, VP6, VP7, and VP12 nucleotide and amino acid identity, KUNDV is proposed to be a new species of Coltivirus Electron microscopy supported the classification of KARYV and KUNDV as reoviruses and identified replication morphology consistent with other Orbi- and Colti- viruses. The identification of novel tick-borne viruses carried by the CCHF vector is an important step in the characterization of their potential role in human and animal pathogenesis.Importance Ticks, mosquitoes, as well Culicoides, can transmit viruses in the Reoviridae family. With the help of next-generation sequencing (NGS), previously unreported reoviruses such as equine encephalosis virus, Wad Medani virus (WMV), Kammanvanpettai virus (KVPTV) and with this report, KARYV and KUNDV have been discovered and characterized in India. The isolation of KUNDV and KARYV from Hyalomma anatolicum, which is a known vector for zoonotic pathogens, such as Crimean Congo Hemorrhagic Fever virus, Babesia, Theileria and Anaplasma species, identifies arboviruses with the potential to transmit to humans. Characterization of these KUNDV and KARYV isolated from Hyalomma ticks is critical for the development of specific serological and molecular assays that can be used to determine the association of these viruses with disease in humans and livestock. |
Characterization of Unknown Orthobunya-Like Viruses from India.
Whitmer SLM , Yadav PD , Sarkale P , Chaubal GY , Francis A , Klena J , Nichol ST , Stroher U , Mourya DT . Viruses 2018 10 (9) Next-generation sequencing (NGS) of agents causing idiopathic human diseases has been crucial in the identification of novel viruses. This study describes the isolation and characterization of two novel orthobunyaviruses obtained from a jungle myna and a paddy bird from Karnataka State, India. Using an NGS approach, these isolates were classified as Cat Que and Balagodu viruses belonging to the Manzanilla clade of the Simbu serogroup. Closely related viruses in the Manzanilla clade have been isolated from mosquitos, humans, birds, and pigs across a wide geographic region. Since Orthobunyaviruses exhibit high reassortment frequency and can cause acute, self-limiting febrile illness, these data suggest that human and livestock infections of the Oya/Cat Que/Manzanilla virus may be more widespread and/or under-reported than anticipated. It therefore becomes imperative to identify novel and unknown viruses in order to understand their role in human and animal pathogenesis. The current study is a step forward in this regard and would act as a prototype method for isolation, identification and detection of several other emerging viruses. |
Identification and characterization of novel mosquito-borne (Kammavanpettai virus) and tick-borne (Wad Medani) reoviruses isolated in India.
Yadav PD , Shete AM , Nyayanit DA , Albarino CG , Jain S , Guerrero LW , Kumar S , Patil DY , Nichol ST , Mourya DT . J Gen Virol 2018 99 (8) 991-1000 In 1954, a virus named Wad Medani virus (WMV) was isolated from Hyalomma marginatum ticks from Maharashtra State, India. In 1963, another virus was isolated from Sturnia pagodarum birds in Tamil Nadu, India, and named Kammavanpettai virus (KVPTV) based on the site of its isolation. Originally these virus isolates could not be identified with conventional methods. Here we describe next-generation sequencing studies leading to the determination of their complete genome sequences, and identification of both virus isolates as orbiviruses (family Reoviridae). Sequencing data showed that KVPTV has an AT-rich genome, whereas the genome of WMV is GC-rich. The size of the KVPTV genome is 18 234 nucleotides encoding proteins ranging 238-1290 amino acids (aa) in length. Similarly, the size of the WMV genome is 16 941 nucleotides encoding proteins ranging 214-1305 amino acids in length. Phylogenetic analysis of the VP1 gene, along with the capsid genes VP5 and VP7, revealed that KVPTV is likely a novel mosquito-borne virus and WMV is a tick-borne orbivirus. This study focuses on the phylogenetic comparison of these newly identified orbiviruses with mosquito-, tick- and Culicoides-borne orbiviruses isolated in India and other countries. |
Equine encephalosis virus in India, 2008
Yadav PD , Albarino CG , Nyayanit DA , Guerrero L , Jenks MH , Sarkale P , Nichol ST , Mourya DT . Emerg Infect Dis 2018 24 (5) 898-901 A virus isolated from a sick horse from India in 2008 was confirmed by next-generation sequencing analysis to be equine encephalosis virus (EEV). EEV in India is concerning because several species of Culicoides midge, which play a major role in EEV natural maintenance and transmission, are present in this country. |
Detection of Nipah virus RNA in fruit bat (Pteropus giganteus) from India
Yadav PD , Raut CG , Shete AM , Mishra AC , Towner JS , Nichol ST , Mourya DT . Am J Trop Med Hyg 2012 87 (3) 576-8 The study deals with the survey of different bat populations (Pteropus giganteus, Cynopterus sphinx, and Megaderma lyra) in India for highly pathogenic Nipah virus (NiV), Reston Ebola virus, and Marburg virus. Bats (n = 140) from two states in India (Maharashtra and West Bengal) were tested for IgG (serum samples) against these viruses and for virus RNAs. Only NiV RNA was detected in a liver homogenate of P. giganteus captured in Myanaguri, West Bengal. Partial sequence analysis of nucleocapsid, glycoprotein, fusion, and phosphoprotein genes showed similarity with the NiV sequences from earlier outbreaks in India. A serum sample of this bat was also positive by enzyme-linked immunosorbent assay for NiV-specific IgG. This is the first report on confirmation of Nipah viral RNA in Pteropus bat from India and suggests the possible role of this species in transmission of NiV in India. |
Genomic analysis reveals Nairobi sheep disease virus to be highly diverse and present in both Africa, and in India in the form of the Ganjam virus variant
Yadav PD , Vincent MJ , Khristova M , Kale C , Nichol ST , Mishra AC , Mourya DT . Infect Genet Evol 2011 11 (5) 1111-20 Nairobi sheep disease (NSD) virus, the prototype tick-borne virus of the genus Nairovirus, family Bunyaviridae is associated with acute hemorrhagic gastroenteritis in sheep and goats in East and Central Africa. The closely related Ganjam virus found in India is associated with febrile illness in humans and disease in livestock. The complete S, M and L segment sequences of Ganjam and NSD virus and partial sequence analysis of Ganjam viral RNA genome S, M and L segments encoding regions (396bp, 701bp and 425bp) of the viral nucleocapsid (N), glycoprotein precursor (GPC) and L polymerase (L) proteins, respectively, was carried out for multiple Ganjam virus isolates obtained from 1954 to 2002 and from various regions of India. M segments of NSD and Ganjam virus encode a large ORF for the glycoprotein precursor (GPC), (1627 and 1624 amino acids in length, respectively) and their L segments encode a very large L polymerase (3991 amino acids). The complete S, M and L segments of NSD and Ganjam viruses were more closely related to one another than to other characterized nairoviruses, and no evidence of reassortment was found. However, the NSD and Ganjam virus complete M segment differed by 22.90% and 14.70%, for nucleotide and amino acid respectively, and the complete L segment nucleotide and protein differing by 9.90% and 2.70%, respectively among themselves. Ganjam and NSD virus, complete S segment differed by 9.40-10.40% and 3.2-4.10 for nucleotide and proteins while among Ganjam viruses 0.0-6.20% and 0.0-1.4%, variation was found for nucleotide and amino acids. Ganjam virus isolates differed by up to 17% and 11% at the nucleotide level for the partial S and L gene fragments, respectively, with less variation observed at the deduced amino acid level (10.5 and 2%, S and L, respectively). However, the virus partial M gene fragment (which encodes the hypervariable mucin-like domain) of these viruses differed by as much as 56% at the nucleotide level. Phylogenetic analysis of partial sequence differences suggests considerable mixing and movement of Ganjam virus strains within India, with no clear relationship between genetic lineages and virus geographic origin or year of isolation. Surprisingly, NSD virus does not represent a distinct lineage, but appears as a variant with other Ganjam virus among NSD virus group. |
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