Changes in maize transcriptome in response to maize Iranian mosaic virus infection

• Published in: PloS one 2018-04, Vol.13 (4), p.e0194592-e0194592
• Main Authors: Ghorbani, Abozar, Izadpanah, Keramatollah, Dietzgen, Ralf G
• Format: Article
• Language: English
• Subjects: Adenosine triphosphate; Adenosylmethionine; Adenosylmethionine decarboxylase; Analysis; Barley; Binding; Biology and Life Sciences; Complementary DNA; Corn; Data processing; Deoxyribonucleic acid; Disease control; DNA; Endonuclease; Fatty acids; Flowers & plants; Food; Gene expression; Gene Expression Profiling; Gene Expression Regulation, Plant; Gene Ontology; Genes; Genetic aspects; Genetics; Genomics; Heat shock proteins; High-Throughput Nucleotide Sequencing; Host-virus relationships; Hydrophobicity; Infections; Leaves; Leucine; Metabolic pathways; Metabolism; Molecular Sequence Annotation; Nucleotide sequence; Nucleotides; Oryza; Oryza sativa; Pathways; Plant diseases; Plant Diseases - genetics; Plant Diseases - virology; Plant Leaves - virology; Plant virus diseases; Plant viruses; Proteasome 26S; Protein kinase; Proteins; Research and Analysis Methods; Rhabdoviridae; Rhabdoviridae infections; Ribonucleic acid; Rice; RNA; RNA Interference; RNA-mediated interference; Signal Transduction; Signaling; Studies; Tobacco; Transcriptome; Trends; Up-Regulation; Virology; Viruses; Zea mays; Zea mays - genetics; Zea mays - virology
• ISSN: 1932-6203; 1932-6203
• DOI: 10.1371/journal.pone.0194592

Maize Iranian mosaic virus (MIMV, genus Nucleorhabdovirus, family Rhabdoviridae) causes an economically important disease in maize and other gramineous crops in Iran. MIMV negative-sense RNA genome sequence of 12,426 nucleotides has recently been completed. Maize Genetics and Genomics database shows that 39,498 coding genes and 4,976 non-coding genes of maize have been determined, but still some transcripts could not be annotated. The molecular host cell responses of maize to MIMV infection including differential gene expression have so far not been elucidated. Complementary DNA libraries were prepared from total RNA of MIMV-infected and mock-inoculated maize leaves and sequenced using Illumina HiSeq 2500. Cleaned raw transcript reads from MIMV-infected maize were mapped to reads from uninfected maize and to a maize reference genome. Differentially expressed transcripts were characterized by gene ontology and biochemical pathway analyses. Transcriptome data for selected genes were validated by real-time quantitative PCR. Approximately 42 million clean reads for each treatment were obtained. In MIMV-infected maize compared to uninfected plants, 1689 transcripts were up-regulated and 213 transcripts were down-regulated. In response to MIMV infection, several pathways were activated in maize including immune receptor signaling, metabolic pathways, RNA silencing, hormone-mediated pathways, protein degradation, protein kinase and ATP binding activity, and fatty acid metabolism. Also, several transcripts including those encoding hydrophobic protein RCI2B, adenosylmethionine decarboxylase NAC transcription factor and nucleic acid binding, leucine-rich repeat, heat shock protein, 26S proteasome, oxidoreductases and endonuclease activity protein were up-regulated. These data will contribute to the identification of genes and pathways involved in plant-virus interactions that may serve as future targets for improved disease control.