Analysis of the crow lung transcriptome in response to infection with highly pathogenic H5N1 avian influenza virus

Vijayakumar, P.; Mishra, Anamika; Ranaware, P.B.; Kolte, Atul P.; Kulkarni, D. D.; Burt, David W.; Raut, Ashwin Ashok

doi:10.1016/j.gene.2015.01.016

Cited by 22 publications

(19 citation statements)

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“…RNA-seq analysis of the host response to human or avian influenza virus infection has been performed in the mouse, crow, chicken and swine and has provided insights into influenza disease pathogenesis [18–21]. RNA-seq offers a systematic approach for delineating gene expression changes at a given point in time [22], which may identify the key molecular events that are linked to the pathogenesis of influenza virus infection and provide a comprehensive analysis of the pharmacological effects of herbal components.…”

Section: Introductionmentioning

confidence: 99%

Transcriptome profiling of influenza A virus-infected lung epithelial (A549) cells with lariciresinol-4-β-D-glucopyranoside treatment

Zhou

Liang

et al. 2017

PLoS ONE

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The influenza A virus is an acute contagious pathogen that affects the human respiratory system and can cause severe lung disease and even death. Lariciresinol-4-β-D-glucopyranoside is a lignan that is extracted from Isatis indigotica, which is a medicinal herb plant that was commonly applied to treat infections, the common cold, fever and inflammatory diseases. Our previous study demonstrated that lariciresinol-4-β-D-glucopyranoside possesses anti-viral and anti-inflammatory properties. However, the comprehensive and detailed mechanisms that underlie the effect of lariciresinol-4-β-D-glucopyranoside interventions against influenza virus infection remain to be elucidated. In this study, we employed high-throughput RNA sequencing (RNA-seq) to investigate the transcriptomic responses of influenza A virus-infected lung epithelial (A549) cells with lariciresinol-4-β-D-glucopyranoside treatment. The transcriptome data show that infection with influenza A virus prompted the activation of 368 genes involved in RIG-I signalling, the inflammatory response, interferon α/β signalling and gene expression that was not affected by lariciresinol-4-β-D-glucopyranoside treatment. Lariciresinol-4-β-D-glucopyranoside exerted its pharmacological actions on the immune system, signal transduction, cell cycle and metabolism, which may be an underlying defense mechanism against influenza virus infection. In addition, 166 differentially expressed genes (DEGs) were uniquely expressed in lariciresinol-4-β-D-glucopyranoside-treated cells, which were concentrated in the cell cycle, DNA repair, chromatin organization, gene expression and biosynthesis domains. Among them, six telomere-associated genes were up-regulated by lariciresinol-4-β-D-glucopyranoside treatment, which have been implicated in telomere regulation and stability. Collectively, we employed RNA-seq analysis to provide comprehensive insight into the mechanism of lariciresinol-4-β-D-glucopyranoside against influenza virus infection.

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Section: Introductionmentioning

confidence: 99%

Transcriptome profiling of influenza A virus-infected lung epithelial (A549) cells with lariciresinol-4-β-D-glucopyranoside treatment

Zhou

Liang

et al. 2017

PLoS ONE

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“…This has been of particular interest in avian species that are known carriers of zoonotic diseases, as this gives an insight into how birds deal with these infections. A number of studies have used transcriptomics to study the immune response to infectious diseases such as avian influenza virus (AIV) in non-model species of birds (Huang et al 2013;Smith et al 2015;Vijayakumar et al 2015). A particular interest in understanding what makes a species resistant or susceptible to a certain infectious disease has further led to a number of comparative immunological studies between different species of birds.…”

Section: Disease Studiesmentioning

confidence: 99%

Avian transcriptomics: opportunities and challenges

Jax

Kraus

2018

J Ornithol

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Recent developments in next-generation sequencing technologies have greatly facilitated the study of whole transcriptomes in model and non-model species. Studying the transcriptome and how it changes across a variety of biological conditions has had major implications for our understanding of how the genome is regulated in different contexts, and how to interpret adaptations and the phenotype of an organism. The aim of this review is to highlight the potential of these new technologies for the study of avian transcriptomics, and to summarise how transcriptomics has been applied in ornithology. A total of 81 peer-reviewed scientific articles that used transcriptomics to answer questions within a broad range of study areas in birds are used as examples throughout the review. We further provide a quick guide to highlight the most important points which need to be take into account when planning a transcriptomic study in birds, and discuss how researchers with little background in molecular biology can avoid potential pitfalls. Suggestions for further reading are supplied throughout. We also discuss possible future developments in the technology platforms used for ribonucleic acid sequencing. By summarising how these novel technologies can be used to answer questions that have long been asked by ornithologists, we hope to bridge the gap between traditional ornithology and genomics, and to stimulate more interdisciplinary research.

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“…Such a hypothesis of multiple immune pathways being involved in the responses of wild birds to EIDs is further supported by analyses of H5N1 HPAI‐infected jungle crow ( Corvus macrorhynchos ) lung transcriptomes at 6 dpi, which revealed significant differential expression of 2297 genes between infected and control individuals. Based on gene ontology analysis, the majority of differentially expressed genes were found to have immune‐associated functions, with other affected genes being involved in cellular metabolism, transcriptional and translational regulation, apoptosis and phagocytosis . Vijayakumar and colleagues expanded on these findings using Kyoto Encyclopaedia of Genes and Genomes (KEGG) pathway analysis to refine the specific crow immunological pathways affected by HPAI infection (Figure ).…”

Section: Immune Responses Of Wild Birds To Eidsmentioning

confidence: 99%

“…Based on gene ontology analysis, the majority of differentially expressed genes were found to have immune‐associated functions, with other affected genes being involved in cellular metabolism, transcriptional and translational regulation, apoptosis and phagocytosis . Vijayakumar and colleagues expanded on these findings using Kyoto Encyclopaedia of Genes and Genomes (KEGG) pathway analysis to refine the specific crow immunological pathways affected by HPAI infection (Figure ). For instance, crows showed altered expression of multiple innate immune signalling pathways that are involved in viral recognition and influence activation of adaptive responses such as rig‐1‐like receptor (RLR) and Nod‐like receptor (NLR) signalling pathways.…”

Section: Immune Responses Of Wild Birds To Eidsmentioning

confidence: 99%

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Immune responses of wild birds to emerging infectious diseases

Staley

Bonneaud

2015

Parasite Immunology

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Summary Over the past several decades, outbreaks of emerging infectious diseases (EIDs) in wild birds have attracted worldwide media attention, either because of their extreme virulence or because of alarming spillovers into agricultural animals or humans. The pathogens involved have been found to infect a variety of bird hosts ranging from relatively few species (e.g. Trichomonas gallinae) to hundreds of species (e.g. West Nile Virus). Here we review and contrast the immune responses that wild birds are able to mount against these novel pathogens. We discuss the extent to which these responses are associated with reduced clinical symptoms, pathogen load and mortality, or conversely, how they can be linked to worsened pathology and reduced survival. We then investigate how immune responses to EIDs can evolve over time in response to pathogen‐driven selection using the illustrative case study of the epizootic outbreak of Mycoplasma gallisepticum in wild North American house finches (Haemorhous mexicanus). We highlight the need for future work to take advantage of the substantial inter‐ and intraspecific variation in disease progression and outcome following infections with EID to elucidate the extent to which immune responses confer increased resistance through pathogen clearance or may instead heighten pathogenesis.

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Analysis of the crow lung transcriptome in response to infection with highly pathogenic H5N1 avian influenza virus

Cited by 22 publications

References 50 publications

Transcriptome profiling of influenza A virus-infected lung epithelial (A549) cells with lariciresinol-4-β-D-glucopyranoside treatment

Transcriptome profiling of influenza A virus-infected lung epithelial (A549) cells with lariciresinol-4-β-D-glucopyranoside treatment

Avian transcriptomics: opportunities and challenges

Immune responses of wild birds to emerging infectious diseases

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