A novel method for genome-wide profiling of dynamic host-pathogen interactions using 3′ end enriched RNA-seq

Abstract Marek’s disease is a contagious lymphoproliferative disease of chickens and typical model of viral oncogenesis. Mapping changes or different states over the course of infection for both host and pathogen would provide important insights into dynamic host-pathogen interactions. Here we intro...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Jie Li, Liangliang He, Yun Zhang, Chunyi Xue, Yongchang Cao
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/72f480e519e84a0b90fb5bbc938675c4
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:72f480e519e84a0b90fb5bbc938675c4
record_format	dspace
spelling	oai:doaj.org-article:72f480e519e84a0b90fb5bbc938675c42021-12-02T11:51:01ZA novel method for genome-wide profiling of dynamic host-pathogen interactions using 3′ end enriched RNA-seq10.1038/s41598-017-08700-92045-2322https://doaj.org/article/72f480e519e84a0b90fb5bbc938675c42017-08-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-08700-9https://doaj.org/toc/2045-2322Abstract Marek’s disease is a contagious lymphoproliferative disease of chickens and typical model of viral oncogenesis. Mapping changes or different states over the course of infection for both host and pathogen would provide important insights into dynamic host-pathogen interactions. Here we introduced 3′ end enriched RNA-seq as a novel method to study host-pathogen interactions in chicken embryo fibroblasts cells challenged with Marek’s disease virus. The method allowed accurate profiling of gene expression and alternative polyadenylation sites for host and pathogen simultaneously. We totally identified 476 differentially expressed genes and 437 APA switching genes in host, including switching in tandem 3′ UTRs and switching between coding region and 3′ UTR. Most of these genes were related to innate immunity, apoptosis and metabolism, but two sets of genes overlapped a little, suggesting two complementary mechanisms in gene regulation during MDV infection. In summary, our results provided a relatively comprehensive insight into dynamic host-pathogen interactions in regulation of gene transcription during infection of Marek’s disease virus and suggested that 3′ end enriched RNA-seq was a promising method to investigate global host-pathogen interactions.Jie LiLiangliang HeYun ZhangChunyi XueYongchang CaoNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-10 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Jie Li Liangliang He Yun Zhang Chunyi Xue Yongchang Cao A novel method for genome-wide profiling of dynamic host-pathogen interactions using 3′ end enriched RNA-seq
description	Abstract Marek’s disease is a contagious lymphoproliferative disease of chickens and typical model of viral oncogenesis. Mapping changes or different states over the course of infection for both host and pathogen would provide important insights into dynamic host-pathogen interactions. Here we introduced 3′ end enriched RNA-seq as a novel method to study host-pathogen interactions in chicken embryo fibroblasts cells challenged with Marek’s disease virus. The method allowed accurate profiling of gene expression and alternative polyadenylation sites for host and pathogen simultaneously. We totally identified 476 differentially expressed genes and 437 APA switching genes in host, including switching in tandem 3′ UTRs and switching between coding region and 3′ UTR. Most of these genes were related to innate immunity, apoptosis and metabolism, but two sets of genes overlapped a little, suggesting two complementary mechanisms in gene regulation during MDV infection. In summary, our results provided a relatively comprehensive insight into dynamic host-pathogen interactions in regulation of gene transcription during infection of Marek’s disease virus and suggested that 3′ end enriched RNA-seq was a promising method to investigate global host-pathogen interactions.
format	article
author	Jie Li Liangliang He Yun Zhang Chunyi Xue Yongchang Cao
author_facet	Jie Li Liangliang He Yun Zhang Chunyi Xue Yongchang Cao
author_sort	Jie Li
title	A novel method for genome-wide profiling of dynamic host-pathogen interactions using 3′ end enriched RNA-seq
title_short	A novel method for genome-wide profiling of dynamic host-pathogen interactions using 3′ end enriched RNA-seq
title_full	A novel method for genome-wide profiling of dynamic host-pathogen interactions using 3′ end enriched RNA-seq
title_fullStr	A novel method for genome-wide profiling of dynamic host-pathogen interactions using 3′ end enriched RNA-seq
title_full_unstemmed	A novel method for genome-wide profiling of dynamic host-pathogen interactions using 3′ end enriched RNA-seq
title_sort	novel method for genome-wide profiling of dynamic host-pathogen interactions using 3′ end enriched rna-seq
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/72f480e519e84a0b90fb5bbc938675c4
work_keys_str_mv	AT jieli anovelmethodforgenomewideprofilingofdynamichostpathogeninteractionsusing3endenrichedrnaseq AT lianglianghe anovelmethodforgenomewideprofilingofdynamichostpathogeninteractionsusing3endenrichedrnaseq AT yunzhang anovelmethodforgenomewideprofilingofdynamichostpathogeninteractionsusing3endenrichedrnaseq AT chunyixue anovelmethodforgenomewideprofilingofdynamichostpathogeninteractionsusing3endenrichedrnaseq AT yongchangcao anovelmethodforgenomewideprofilingofdynamichostpathogeninteractionsusing3endenrichedrnaseq AT jieli novelmethodforgenomewideprofilingofdynamichostpathogeninteractionsusing3endenrichedrnaseq AT lianglianghe novelmethodforgenomewideprofilingofdynamichostpathogeninteractionsusing3endenrichedrnaseq AT yunzhang novelmethodforgenomewideprofilingofdynamichostpathogeninteractionsusing3endenrichedrnaseq AT chunyixue novelmethodforgenomewideprofilingofdynamichostpathogeninteractionsusing3endenrichedrnaseq AT yongchangcao novelmethodforgenomewideprofilingofdynamichostpathogeninteractionsusing3endenrichedrnaseq
_version_	1718395171342647296

A novel method for genome-wide profiling of dynamic host-pathogen interactions using 3′ end enriched RNA-seq

Ejemplares similares