Metagenomic analysis of wastewater phageome from a University Hospital in Turkey

Phage DNA analysis gives opportunity to understand living ecosystem of the environment where the samples are taken. In the present study, we analyzed phage DNA obtained from wastewater sample of university hospital sewage. After filtration, long high-speed centrifugation was done to collect phages....

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Bibliographic Details
Published in:Archives of microbiology 2022-06, Vol.204 (6), p.353-353, Article 353
Main Authors: Salih, Hanife, Karaynir, Abdulkerim, Yalcin, Melis, Oryasin, Erman, Holyavkin, Can, Basbulbul, Gamze, Bozdogan, Bulent
Format: Article
Language:English
Subjects:
Antibiotic resistance
Antibiotics
Bacteriophages - genetics
Biochemistry
Biomedical and Life Sciences
Biotechnology
Carbohydrate metabolism
Carbohydrates
Cell Biology
Centrifugation
Chloroform
Deoxyribonucleic acid
DNA
Ecology
Ecosystem
Genera
Genes
Genetic testing
Hospitals
Humans
Life Sciences
Metagenomics
Microbial Ecology
Microbiology
Microorganisms
Nucleotides
Original Paper
Orthology
Phages
Phenols
Podoviridae
Podoviridae - genetics
Sewage
Subsystems
Turkey
Virome
Waste Water
Wastewater
Wastewater analysis
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Summary:Phage DNA analysis gives opportunity to understand living ecosystem of the environment where the samples are taken. In the present study, we analyzed phage DNA obtained from wastewater sample of university hospital sewage. After filtration, long high-speed centrifugation was done to collect phages. DNA was extracted from pellet by phenol chloroform extraction and used for NGS sequencing. The host profile, taxonomic and functional analyses were performed using MG-RAST, and ResFinder program was used for resistance gene detection. High amounts of reads belong to bacteriophage groups (~ 95%) from our DNA sample were obtained and all bacteriophage reads were found belonging to Caudovirales order and Myoviridae (56%), Siphoviridae (43%), and Podoviridae (0.02%) families. The most common host genera were Escherichia (88.20%), Salmonella (5.49%) and Staphylococcus (5.19%). SEED subsystems hits were mostly structural parts and KEGG Orthology hits were nucleotide- and carbohydrate metabolism-related genes. No anti-microbial resistance genes were detected. Our bacteriophage DNA purification method is favorable for phage metagenomic studies. Dominance of coliphages may explain infrequent Podoviridae . Dominancy of structural genes and auxiliary genes is probably due to abundance of lytic phages in our sample. Absence of antibiotic resistance genes even in hospital environment phages indicates that phages are not important carrier of resistance genes.
ISSN:0302-8933
1432-072X
DOI:10.1007/s00203-022-02962-2