Complete genome sequencing of Kaisodi virus isolated from ticks in India belonging to Phlebovirus genus, family Phenuiviridae

Yadav, Pragya D; Nyayanit, Dimpal A; Shete, Anita M.; Jain, Shilpi; Majumdar, Triparna; Chaubal, Gouri; Shil, Pratip; Kore, Pravin; Mourya, Devendra T.

doi:10.1016/j.ttbdis.2018.08.012

Cited by 41 publications

(29 citation statements)

References 27 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Next-generation sequencing (NGS) of bat coronavirus: Selected bat specimens were used for RNA extraction 22 23 . RNA libraries were prepared and quantified by Qubit ® 2.0 Fluorometer (Invitrogen, USA).…”

Section: Methodsmentioning

confidence: 99%

See 1 more Smart Citation

Detection of coronaviruses in Pteropus & Rousettus species of bats from different States of India

Yadav

Shete-Aich

Nyayanit

et al. 2020

Indian Journal of Medical Research

View full text Add to dashboard Cite

Background & objectives: Bats are considered to be the natural reservoir for many viruses, of which some are potential human pathogens. In India, an association of Pteropus medius bats with the Nipah virus was reported in the past. It is suspected that the recently emerged severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) also has its association with bats. To assess the presence of CoVs in bats, we performed identification and characterization of bat CoV (BtCoV) in P. medius and Rousettus species from representative States in India, collected during 2018 and 2019. Methods: Representative rectal swab (RS) and throat swab specimens of Pteropus and Rousettus spp. bats were screened for CoVs using a pan-CoV reverse transcription-polymerase chain reaction (RT-PCR) targeting the RNA-dependent RNA polymerase ( RdRp ) gene. A single-step RT-PCR was performed on the RNA extracted from the bat specimens. Next-generation sequencing (NGS) was performed on a few representative bat specimens that were tested positive. Phylogenetic analysis was carried out on the partial sequences of RdRp gene sequences retrieved from both the bat species and complete viral genomes recovered from Rousettus spp. Results: Bat samples from the seven States were screened, and the RS specimens of eight Rousettus spp. and 21 Pteropus spp. were found positive for CoV RdRp gene. Among these, by Sanger sequencing, partial RdRp sequences could be retrieved from three Rousettus and eight Pteropus bat specimens. Phylogenetic analysis of the partial RdRp region demonstrated distinct subclustering of the BtCoV sequences retrieved from these Rousettus and Pteropus spp. bats. NGS led to the recovery of four sequences covering approximately 94.3 per cent of the whole genome of the BtCoVs from Rousettus bats. Three BtCoV sequences had 93.69 per cent identity to CoV BtRt-BetaCoV/GX2018. The fourth BtCoV sequence was 96.8 per cent identical to BtCoV HKU9-1. Interpretation & conclusions: This study was a step towards understanding the CoV circulation in Indian bats. Detection of potentially pathogenic CoVs in Indian bats stresses the need for enhanced screening for novel viruses in them. One Health approach with collaborative activities by the animal health and human health sectors in these surveillance activities shall be of use to public health. This would help in the development of diagnostic assays for novel viruses with outbreak potential and be useful in disease inter...

show abstract

Section: Methodsmentioning

confidence: 99%

“…In brief, the RNA library preparation involved fragmentation, adenylation, adapter ligation and amplification. The amplified libraries were quantified using KAPA Library Quantification Kit (KapaBiosystems, Roche, Switzerland) as per the manufacturer's protocol and further loaded onto the Illumina Miniseq NGS platform (Illumina, USA) 22 23 .…”

Section: Methodsmentioning

confidence: 99%

Detection of coronaviruses in Pteropus & Rousettus species of bats from different States of India

Yadav

Shete-Aich

Nyayanit

et al. 2020

Indian Journal of Medical Research

View full text Add to dashboard Cite

show abstract

“…Next-generation sequencing was performed on SARS-CoV-2 positive clinical samples (100 μl) included in the study and the tissue culture fluid (50 μl) of virus isolates at PID-3 as described earlier 14 15 . Reference-based mapping as implemented in the CLC genomics workbench 11.0 (CLC, Qiagen) was used to retrieve the sequence of the SARS-CoV-2.…”

mentioning

confidence: 99%

First isolation of SARS-CoV-2 from clinical samples in India

Sarkale

Patil

Yadav

et al. 2020

Indian Journal of Medical Research

112

View full text Add to dashboard Cite

“…Unknown: No clear information on the risk assessment available. SFTS, severe fever thrombocytopenia syndrome; EEV, equine encephalosis virus; CCHFs, Crimean-Congo hemorrhagic fevers; KFD, kyasanur forest disease; JE, Japanese encephalitis; LCMV, lymphocytic choriomeningitis virus; CMV, cytomegalovirus; VZV, varicella-zoster virus; RSV, respiratory syncytial virus; HBV, hepatitis-B virus Source : Refs 51022232425262728293031323334353637383940414243444546474849505152535455…”

Section: Nosocomial Transmission and Emerging Infectionsmentioning

confidence: 99%

Emerging/re-emerging viral diseases & new viruses on the Indian horizon

Mourya

Yadav²,

Ullas³

et al. 2019

Indian Journal of Medical Research

116

View full text Add to dashboard Cite

Infectious diseases remain as the major causes of human and animal morbidity and mortality leading to significant healthcare expenditure in India. The country has experienced the outbreaks and epidemics of many infectious diseases. However, enormous successes have been obtained against the control of major epidemic diseases, such as malaria, plague, leprosy and cholera, in the past. The country's vast terrains of extreme geo-climatic differences and uneven population distribution present unique patterns of distribution of viral diseases. Dynamic interplays of biological, socio-cultural and ecological factors, together with novel aspects of human-animal interphase, pose additional challenges with respect to the emergence of infectious diseases. The important challenges faced in the control and prevention of emerging and re-emerging infectious diseases range from understanding the impact of factors that are necessary for the emergence, to development of strengthened surveillance systems that can mitigate human suffering and death. In this article, the major emerging and re-emerging viral infections of public health importance have been reviewed that have already been included in the Integrated Disease Surveillance Programme.

show abstract

Complete genome sequencing of Kaisodi virus isolated from ticks in India belonging to Phlebovirus genus, family Phenuiviridae

Cited by 41 publications

References 27 publications

Detection of coronaviruses in Pteropus & Rousettus species of bats from different States of India

Detection of coronaviruses in Pteropus & Rousettus species of bats from different States of India

First isolation of SARS-CoV-2 from clinical samples in India

Emerging/re-emerging viral diseases & new viruses on the Indian horizon

Contact Info

Product

Resources

About