Project description:Purpose: we targeted the transcription profile of two types of SfAV-1a genes, first, we targeted, core genes that occur in several ascovirus species, second, we targeted, genes predicted by in silico analysis to have metabolic functions likely involved in synthesizing viral vesicle membranes, the distinguishing feature of ascovirus cytopathology. Overall design: Method: we used a wild type strain of the Spodoptera frugiperda ascovirus-1a (SfAV-1a), the type species for the family Ascoviridae. This strain was used to infect 3rd instar caterpillars of Spodoptera frugiperda, and all transcriptome data were derived from this developmental stage using the HiSeq2500 sequencer (Illumina) in the UCR Core Facility in the Institute for Integrative Genome Biology, in duplicate. The RT-qPCR used for validation using the iQ™ SYBR® Green Supermix (BIORAD).
Project description:MicroRNAs (miRNAs) as small non-coding RNAs play important roles in many biological processes such as development, cell signalling and immune response. Studies also suggest that miRNAs are important in host–virus interactions where the host limits virus infection by differentially expressing miRNAs that target essential viral genes. Here, we identified conserved and new miRNAs from Spodoptera frugiperda cells (Sf9) using a combination of deep sequencing and bioinformatics as well as experimental approaches. S. frugiperda miRNAs share common features of miRNAs in other organisms, such as uracil (U) at the 59 end of miRNA. The 59 ends of the miRNAs were more conserved than the 39 ends, revealing evolutionary protection of the seed region in miRNAs. The predominant miRNAs were found to be conserved among arthropods. The majority of homologous miRNAs were found in Bombyx mori, with 76 of the 90 identified miRNAs. We found that seed shifting and arm switching have happened in this insect’s miRNAs. Expression levels of the majority of miRNAs changed following baculovirus infection. Results revealed that baculovirus infection mainly led to an overall suppression of cellular miRNAs. We found four different genes being regulated by sfr-miR-184 at the post-transcriptional level. The data presented here further support conservation of miRNAs in insects and other organisms. In addition, the results reveal a differential expression of host miRNAs upon baculovirus infection, suggesting their potential roles in host–virus interactions. Seed shifting and arm switching happened during evolution of miRNAs in different insects and caused miRNA diversification, which led to changes in the target repository of miRNAs. Identification of miRNA and other small non coding RNA in NPV infected Sf9 cells
Project description:This SuperSeries is composed of the following subset Series: GSE16775: Effect of HdIV or MdBV injection on the Spodoptera frugiperda hemocyte transcriptome GSE16776: Effect of HdIV or MdBV injection on the Spodoptera frugiperda fat body transcriptome Refer to individual Series
Project description:Comparison of the effects of 2 polydnaviruses (HdIV vs MdBV) injection on L5 Spodoptera frugiperda larvae hemocytes transcriptome. Overall design: The experimental design is as follows: 3 biological replicates with dye swap. Each treatment (HdIV or MdBv) is compared to control treatment (PBS).