Norovirus contamination and the glycosphingolipid biosynthesis pathway in Pacific oyster: A transcriptomics study
Noroviruses are the primary pathogens associated with shellfish-borne gastroenteritis outbreaks. These viruses remain stable in oysters, suggesting an active mechanism for virus concentration. In this study, a deep RNA sequencing technique was used to analyze the transcriptome profiles of Pacific oy...
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ftchinacasciocas:oai:ir.qdio.ac.cn:337002/137150 2023-05-15T15:59:00+02:00 Norovirus contamination and the glycosphingolipid biosynthesis pathway in Pacific oyster: A transcriptomics study Ma, Liping Su, Laijin Liu, Hui Zhao, Feng Zhou, Deqing Duan, Delin 2017-07-01 http://ir.qdio.ac.cn/handle/337002/137150 https://doi.org/10.1016/j.fsi.2017.04.023 英语 eng FISH & SHELLFISH IMMUNOLOGY http://ir.qdio.ac.cn/handle/337002/137150 doi:10.1016/j.fsi.2017.04.023 Crassostrea Gigas Norovirus Transcriptome Glycosphingolipid Biosynthesis Pathway Article 期刊论文 2017 ftchinacasciocas https://doi.org/10.1016/j.fsi.2017.04.023 2022-06-27T05:38:07Z Noroviruses are the primary pathogens associated with shellfish-borne gastroenteritis outbreaks. These viruses remain stable in oysters, suggesting an active mechanism for virus concentration. In this study, a deep RNA sequencing technique was used to analyze the transcriptome profiles of Pacific oysters at different time points after inoculation with norovirus (GII.4). We obtained a maximum of 65, 294, 698 clean sample reads. When aligned to the reference genome, the average mapping ratio of clean data was approximately 65%. In the samples harvested at 12, 24, and 48 h after contamination, 2,223, 2,990, and 2020 genes, respectively, were differentially expressed in contaminated and non-contaminated oyster digestive tissues, including 500, 1748, and 1039 up-regulated and 1723, 1242, and 981 down-regulated genes, respectively. In particular, FUT2 and B3GNT4, genes encoding the signaling components of glycosphingolipid biosynthesis, were significantly up-regulated in contaminated samples. In addition, we found up-regulation of some immune-and disease-related genes in the MHC I pathway (PA28, HSP 70, HSP90, CANX, BRp57, and CALR) and MHC II pathway (GILT, CTSBLS, RFX, and NFY), although NoVs did not cause diseases in the oysters. We detected two types of HBGA-like molecules with positive-to-negative ratios similar to type A and H1 HBGA-like molecules in digestive tissues that were significantly higher in norovirus-contaminated than in non-contaminated oysters. Thus, our transcriptome data analysis indicated that a human pathogen (GII.4 Norovirus) was likely concentrated in the digestive tissues of oysters via HBGA-like molecules that were synthesized by the glycosphingolipid biosynthesis pathway. The identified differentially expressed genes also provide potential candidates for functional analysis to identify genes involved in the accumulation of noroviruses in oysters. (C) 2017 Elsevier Ltd. All rights reserved. Article in Journal/Newspaper Crassostrea gigas Pacific oyster Institute of Oceanology, Chinese Academy of Sciences: IOCAS-IR Pacific Fish & Shellfish Immunology 66 26 34 |
institution |
Open Polar |
collection |
Institute of Oceanology, Chinese Academy of Sciences: IOCAS-IR |
op_collection_id |
ftchinacasciocas |
language |
English |
topic |
Crassostrea Gigas Norovirus Transcriptome Glycosphingolipid Biosynthesis Pathway |
spellingShingle |
Crassostrea Gigas Norovirus Transcriptome Glycosphingolipid Biosynthesis Pathway Ma, Liping Su, Laijin Liu, Hui Zhao, Feng Zhou, Deqing Duan, Delin Norovirus contamination and the glycosphingolipid biosynthesis pathway in Pacific oyster: A transcriptomics study |
topic_facet |
Crassostrea Gigas Norovirus Transcriptome Glycosphingolipid Biosynthesis Pathway |
description |
Noroviruses are the primary pathogens associated with shellfish-borne gastroenteritis outbreaks. These viruses remain stable in oysters, suggesting an active mechanism for virus concentration. In this study, a deep RNA sequencing technique was used to analyze the transcriptome profiles of Pacific oysters at different time points after inoculation with norovirus (GII.4). We obtained a maximum of 65, 294, 698 clean sample reads. When aligned to the reference genome, the average mapping ratio of clean data was approximately 65%. In the samples harvested at 12, 24, and 48 h after contamination, 2,223, 2,990, and 2020 genes, respectively, were differentially expressed in contaminated and non-contaminated oyster digestive tissues, including 500, 1748, and 1039 up-regulated and 1723, 1242, and 981 down-regulated genes, respectively. In particular, FUT2 and B3GNT4, genes encoding the signaling components of glycosphingolipid biosynthesis, were significantly up-regulated in contaminated samples. In addition, we found up-regulation of some immune-and disease-related genes in the MHC I pathway (PA28, HSP 70, HSP90, CANX, BRp57, and CALR) and MHC II pathway (GILT, CTSBLS, RFX, and NFY), although NoVs did not cause diseases in the oysters. We detected two types of HBGA-like molecules with positive-to-negative ratios similar to type A and H1 HBGA-like molecules in digestive tissues that were significantly higher in norovirus-contaminated than in non-contaminated oysters. Thus, our transcriptome data analysis indicated that a human pathogen (GII.4 Norovirus) was likely concentrated in the digestive tissues of oysters via HBGA-like molecules that were synthesized by the glycosphingolipid biosynthesis pathway. The identified differentially expressed genes also provide potential candidates for functional analysis to identify genes involved in the accumulation of noroviruses in oysters. (C) 2017 Elsevier Ltd. All rights reserved. |
format |
Article in Journal/Newspaper |
author |
Ma, Liping Su, Laijin Liu, Hui Zhao, Feng Zhou, Deqing Duan, Delin |
author_facet |
Ma, Liping Su, Laijin Liu, Hui Zhao, Feng Zhou, Deqing Duan, Delin |
author_sort |
Ma, Liping |
title |
Norovirus contamination and the glycosphingolipid biosynthesis pathway in Pacific oyster: A transcriptomics study |
title_short |
Norovirus contamination and the glycosphingolipid biosynthesis pathway in Pacific oyster: A transcriptomics study |
title_full |
Norovirus contamination and the glycosphingolipid biosynthesis pathway in Pacific oyster: A transcriptomics study |
title_fullStr |
Norovirus contamination and the glycosphingolipid biosynthesis pathway in Pacific oyster: A transcriptomics study |
title_full_unstemmed |
Norovirus contamination and the glycosphingolipid biosynthesis pathway in Pacific oyster: A transcriptomics study |
title_sort |
norovirus contamination and the glycosphingolipid biosynthesis pathway in pacific oyster: a transcriptomics study |
publishDate |
2017 |
url |
http://ir.qdio.ac.cn/handle/337002/137150 https://doi.org/10.1016/j.fsi.2017.04.023 |
geographic |
Pacific |
geographic_facet |
Pacific |
genre |
Crassostrea gigas Pacific oyster |
genre_facet |
Crassostrea gigas Pacific oyster |
op_relation |
FISH & SHELLFISH IMMUNOLOGY http://ir.qdio.ac.cn/handle/337002/137150 doi:10.1016/j.fsi.2017.04.023 |
op_doi |
https://doi.org/10.1016/j.fsi.2017.04.023 |
container_title |
Fish & Shellfish Immunology |
container_volume |
66 |
container_start_page |
26 |
op_container_end_page |
34 |
_version_ |
1766394786204352512 |