FN Archimer Export Format
PT J
TI Looking into sewage: how far can metagenomics help to detect human enteric viruses?
BT 
AF SCHAEFFER, Julien
   DESDOUITS, Marion
   BESNARD, Alban
   LE GUYADER, Soizick
AS 1:1;2:1;3:1;4:1;
FF 1:PDG-RBE-MASAE-LSEM;2:PDG-RBE-MASAE-LSEM;3:PDG-RBE-SGMM-LSEM;4:PDG-RBE-MASAE-LSEM;
C1 Ifremer, Laboratoire de Microbiologie, U. Microbiologie Aliment Santé et Environnement, Nantes, France
C2 IFREMER, FRANCE
SI NANTES
SE PDG-RBE-MASAE-LSEM
   PDG-RBE-SGMM-LSEM
IN WOS Ifremer UPR
   DOAJ
IF 5.2
TC 2
UR https://archimer.ifremer.fr/doc/00834/94622/102017.pdf
   https://archimer.ifremer.fr/doc/00834/94622/102018.xlsx
LA English
DT Article
DE ;sewage;human viruses;method;metagenomics;public health;molecular epidemiology
AB The impact of human sewage on environmental and food contamination constitutes an important safety issue. Indeed, human sewage reflects the microbiome of the local population, and a variety of human viruses can be detected in wastewater samples. Being able to describe the diversity of viruses present in sewage will provide information on the health of the surrounding population health and will help to prevent further transmission. Metagenomic developments, allowing the description of all the different genomes present in a sample, are very promising tools for virome analysis. However, looking for human enteric viruses with short RNA genomes which are present at low concentrations is challenging. In this study we demonstrate the benefits of performing technical replicates to improve viral identification by increasing contig length, and the set-up of quality criteria to increase confidence in results. Our approach was able to effectively identify some virus sequences and successfully describe the viral diversity. The method yielded full genomes either for norovirus, enterovirus and rotavirus, even if, for these segmented genomes, combining genes remain a difficult issue. Developing reliable viromic methods is important as wastewater sample analysis provides an important tool to prevent further virus transmission by raising alerts in case of viral outbreaks or emergence. 
PY 2023
PD APR
SO Frontiers In Microbiology
SN 1664-302X
PU Frontiers Media
VL 14
UT 000983763700001
DI 10.3389/fmicb.2023.1161674
ID 94622
ER

EF