2024-03-31
ENA first public
ERC000014
ENA-CHECKLIST
WASHINGTON UNIVERSITY SCHOOL OF MEDICINE
INSDC center name
public
INSDC status
ERS18102627
SRA accession
I10288_N0000051
Submitter Id
Terai region
broad-scale environmental context
2020
collection date
human
common name
Non-Japanese encephalitis CSF
description
CSF
environmental medium
Nepal
geographic location (country and/or sea)
+27.35
DD
geographic location (latitude)
+83.26
DD
geographic location (longitude)
Rupandehi district, Nepal
geographic location (region and locality)
N0000051
host subject id
Nextera DNA library construction (Illumina)
library construction method
349925
library reads sequenced
Fecal specimens were diluted in phosphate-buffered saline (PBS) at a 1:6 ratio and filtered through a 0.45-_m-pore-size membrane to enrich viruses
library screening strategy
subtropical savanna biome
local environmental context
sequence independent DNA and RNA amplification (SIA) was performed on the total nucleic acid with primers consisting of a base-balanced 16 nucleotide (nt) specific sequence upstream of a random 15-mer (15 Ns) for random priming Finkbeiner, S.R. et al. Metagenomic analysis of human diarrhea: viral detection and discovery. PLoS Pathog. 4, e1000011 (2008).
nucleic acid amplification
COBAS Ampliprep instrument (Roche)
nucleic acid extraction
Homo sapiens
organism
Gemykibivirus detection in acute encephalitis patients from Nepal
project name
200 mg stool
g
sample volume or weight for DNA extraction
Homo sapiens
scientific_name
MiSeq 2 _ 250 paired-end
sequencing method
M817_I10288_37940_Manandhar_N0000051_2020_NEB_26_ATGAGCATCT_S3
title