Jiandong Shi1,2,3, Ningzhu Hu1,2,3, Ling Mo1,2, Zhaoping Zeng1,2, Jing Sun1,2,3, Yunzhang Hu1,2,3. 1. Institute of Medical Biology, Chinese Academy of Medical Sciences and Peking Union Medical College, Kunming, China. 2. Yunnan Key Laboratory of Vaccine Research and Development of Severe Infectious Disease, Kunming, China. 3. Yunnan Provincial Key Laboratory of Vector-borne Diseases Control and Research, Pu'er, China.
Abstract
BACKGROUND/AIMS: Circular RNAs (circRNAs), a new class of regulators of gene expression, are involved in diverse physiological and pathogenic processes. However, their role in cellular responses to virus infection is yet unclear. METHODS: A human lung fibroblast cell line was infected or mock infected by herpes simplex virus 1 (HSV-1). Deep RNA sequencing was used to profile the global changes in circRNAs, genes, and miRNAs following HSV-1 infection. Altered circRNAs, genes, and miRNAs were validated using quantitative reverse transcription polymerase chain reaction (RT-qPCR). An integration analysis of circRNAs, genes, and miRNAs was applied to investigate the putative function of the dysregulated circRNAs. RESULTS: A total of 536 circRNAs, 3,885 genes, and 207 miRNAs were significantly dysregulated after HSV-1 infection. An integration analysis of circRNAs, genes, and miRNAs revealed the alleged involvement of dysregulated circRNAs in cellular responses to HSV-1 infection via the circRNA-miRNA-gene regulatory axis. These genes regulated by circRNAs were enriched to NOD-like receptor/JAK-STAT signaling pathway, and pathways of apoptosis, cell cycle progression, and cell death, all of which may be implicated in the viral pathogenesis and cellular immunity. CONCLUSIONS: These data present a comprehensive view for circRNAs induced by HSV-1 and their interplay with miRNAs and genes during HSV-1 infection, thus offering new insights into the mechanisms of interactions between HSV-1 and the host.
BACKGROUND/AIMS: Circular RNAs (circRNAs), a new class of regulators of gene expression, are involved in diverse physiological and pathogenic processes. However, their role in cellular responses to virus infection is yet unclear. METHODS: A human lung fibroblast cell line was infected or mock infected by herpes simplex virus 1 (HSV-1). Deep RNA sequencing was used to profile the global changes in circRNAs, genes, and miRNAs following HSV-1 infection. Altered circRNAs, genes, and miRNAs were validated using quantitative reverse transcription polymerase chain reaction (RT-qPCR). An integration analysis of circRNAs, genes, and miRNAs was applied to investigate the putative function of the dysregulated circRNAs. RESULTS: A total of 536 circRNAs, 3,885 genes, and 207 miRNAs were significantly dysregulated after HSV-1 infection. An integration analysis of circRNAs, genes, and miRNAs revealed the alleged involvement of dysregulated circRNAs in cellular responses to HSV-1 infection via the circRNA-miRNA-gene regulatory axis. These genes regulated by circRNAs were enriched to NOD-like receptor/JAK-STAT signaling pathway, and pathways of apoptosis, cell cycle progression, and cell death, all of which may be implicated in the viral pathogenesis and cellular immunity. CONCLUSIONS: These data present a comprehensive view for circRNAs induced by HSV-1 and their interplay with miRNAs and genes during HSV-1 infection, thus offering new insights into the mechanisms of interactions between HSV-1 and the host.
Authors: Wen Cai Zhang; Julie M Wells; Kin-Hoe Chow; He Huang; Min Yuan; Tanvi Saxena; Mary Ann Melnick; Katerina Politi; John M Asara; Daniel B Costa; Carol J Bult; Frank J Slack Journal: Nat Metab Date: 2019-04-08
Authors: Avi Srivastava; Laraib Malik; Hirak Sarkar; Mohsen Zakeri; Fatemeh Almodaresi; Charlotte Soneson; Michael I Love; Carl Kingsford; Rob Patro Journal: Genome Biol Date: 2020-09-07 Impact factor: 13.583