Cargando…

Illumina high-throughput sequencing for the genome of emerging fowl adenovirus D species and C species simultaneously

In recent years, clinical cases of inclusion body hepatitis (IBH) and hydropericardium syndrome (HPS) have been emerging and increasing in chicken flocks worldwide. Mixed infections with 2 or more fowl adenovirus (FAdV) serotypes were common in these cases. Herein, we collected a clinical sample tha...

Descripción completa

Detalles Bibliográficos
Autores principales: Cui, Ning, Lu, Mei, Sun, Shiping, Sun, Shouli, Xu, Chuantian, Su, Shuai, Hrabchenko, Nataliia, Huang, Qinghua
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9706605/
https://www.ncbi.nlm.nih.gov/pubmed/36436374
http://dx.doi.org/10.1016/j.psj.2022.102295
_version_ 1784840540619014144
author Cui, Ning
Lu, Mei
Sun, Shiping
Sun, Shouli
Xu, Chuantian
Su, Shuai
Hrabchenko, Nataliia
Huang, Qinghua
author_facet Cui, Ning
Lu, Mei
Sun, Shiping
Sun, Shouli
Xu, Chuantian
Su, Shuai
Hrabchenko, Nataliia
Huang, Qinghua
author_sort Cui, Ning
collection PubMed
description In recent years, clinical cases of inclusion body hepatitis (IBH) and hydropericardium syndrome (HPS) have been emerging and increasing in chicken flocks worldwide. Mixed infections with 2 or more fowl adenovirus (FAdV) serotypes were common in these cases. Herein, we collected a clinical sample that was positive for FAdV from 40-day-old broilers with IBH and HPS symptoms in Shandong province of China and determined the complete genome of FAdVs on the Illumina HiSeq4000 platform. The results showed that the sample contained 2 FAdV strains of D species and C species and named SD1763-1 and SD1763-2 respectively. The genome of SD1763-1 strain was 43,913 nt in length, with a G+C content of 53.51%, whereas SD1763-2 strain was 43,721 nt in length, with a G+C content of 54.87%. Sequence alignment and phylogenetic analysis revealed that strain SD1763-1 was clustered together with serotype 2/11 of FAdV-D, and SD1763-2 was clustered together with FAdV-4. There is no recombination between the genomes of the 2 viruses of FAdV-D and FAdV-C in the present study. This is the first report of obtaining 2 genomic sequences of FAdV strains simultaneously by direct use of deep sequencing in one clinical individual chicken sample, which provided direct evidence for mixed infections of adenovirus serotypes in the clinic and enriched the genome data to explore the geographic biomarkers and virulence signatures of the genus Aviadenovirus.
format Online
Article
Text
id pubmed-9706605
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher Elsevier
record_format MEDLINE/PubMed
spelling pubmed-97066052022-11-30 Illumina high-throughput sequencing for the genome of emerging fowl adenovirus D species and C species simultaneously Cui, Ning Lu, Mei Sun, Shiping Sun, Shouli Xu, Chuantian Su, Shuai Hrabchenko, Nataliia Huang, Qinghua Poult Sci IMMUNOLOGY, HEALTH AND DISEASE In recent years, clinical cases of inclusion body hepatitis (IBH) and hydropericardium syndrome (HPS) have been emerging and increasing in chicken flocks worldwide. Mixed infections with 2 or more fowl adenovirus (FAdV) serotypes were common in these cases. Herein, we collected a clinical sample that was positive for FAdV from 40-day-old broilers with IBH and HPS symptoms in Shandong province of China and determined the complete genome of FAdVs on the Illumina HiSeq4000 platform. The results showed that the sample contained 2 FAdV strains of D species and C species and named SD1763-1 and SD1763-2 respectively. The genome of SD1763-1 strain was 43,913 nt in length, with a G+C content of 53.51%, whereas SD1763-2 strain was 43,721 nt in length, with a G+C content of 54.87%. Sequence alignment and phylogenetic analysis revealed that strain SD1763-1 was clustered together with serotype 2/11 of FAdV-D, and SD1763-2 was clustered together with FAdV-4. There is no recombination between the genomes of the 2 viruses of FAdV-D and FAdV-C in the present study. This is the first report of obtaining 2 genomic sequences of FAdV strains simultaneously by direct use of deep sequencing in one clinical individual chicken sample, which provided direct evidence for mixed infections of adenovirus serotypes in the clinic and enriched the genome data to explore the geographic biomarkers and virulence signatures of the genus Aviadenovirus. Elsevier 2022-10-29 /pmc/articles/PMC9706605/ /pubmed/36436374 http://dx.doi.org/10.1016/j.psj.2022.102295 Text en © 2022 Published by Elsevier Inc. on behalf of Poultry Science Association Inc. https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
spellingShingle IMMUNOLOGY, HEALTH AND DISEASE
Cui, Ning
Lu, Mei
Sun, Shiping
Sun, Shouli
Xu, Chuantian
Su, Shuai
Hrabchenko, Nataliia
Huang, Qinghua
Illumina high-throughput sequencing for the genome of emerging fowl adenovirus D species and C species simultaneously
title Illumina high-throughput sequencing for the genome of emerging fowl adenovirus D species and C species simultaneously
title_full Illumina high-throughput sequencing for the genome of emerging fowl adenovirus D species and C species simultaneously
title_fullStr Illumina high-throughput sequencing for the genome of emerging fowl adenovirus D species and C species simultaneously
title_full_unstemmed Illumina high-throughput sequencing for the genome of emerging fowl adenovirus D species and C species simultaneously
title_short Illumina high-throughput sequencing for the genome of emerging fowl adenovirus D species and C species simultaneously
title_sort illumina high-throughput sequencing for the genome of emerging fowl adenovirus d species and c species simultaneously
topic IMMUNOLOGY, HEALTH AND DISEASE
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9706605/
https://www.ncbi.nlm.nih.gov/pubmed/36436374
http://dx.doi.org/10.1016/j.psj.2022.102295
work_keys_str_mv AT cuining illuminahighthroughputsequencingforthegenomeofemergingfowladenovirusdspeciesandcspeciessimultaneously
AT lumei illuminahighthroughputsequencingforthegenomeofemergingfowladenovirusdspeciesandcspeciessimultaneously
AT sunshiping illuminahighthroughputsequencingforthegenomeofemergingfowladenovirusdspeciesandcspeciessimultaneously
AT sunshouli illuminahighthroughputsequencingforthegenomeofemergingfowladenovirusdspeciesandcspeciessimultaneously
AT xuchuantian illuminahighthroughputsequencingforthegenomeofemergingfowladenovirusdspeciesandcspeciessimultaneously
AT sushuai illuminahighthroughputsequencingforthegenomeofemergingfowladenovirusdspeciesandcspeciessimultaneously
AT hrabchenkonataliia illuminahighthroughputsequencingforthegenomeofemergingfowladenovirusdspeciesandcspeciessimultaneously
AT huangqinghua illuminahighthroughputsequencingforthegenomeofemergingfowladenovirusdspeciesandcspeciessimultaneously