title: Comparative transcriptome analysis of microsclerotia development in Nomuraea rileyi.
abstract: BACKGROUND
  Nomuraea rileyi is used as an environmental-friendly biopesticide. However, mass production and commercialization of this organism are limited due to its fastidious growth and sporulation requirements. When cultured in amended medium, we found that N. rileyi could produce microsclerotia bodies, replacing conidiophores as the infectious agent. However, little is known about the genes involved in microsclerotia development. In the present study, the transcriptomes were analyzed using next-generation sequencing technology to find the genes involved in microsclerotia development.
  
  
  RESULTS
  A total of 4.69 Gb of clean nucleotides comprising 32,061 sequences was obtained, and 20,919 sequences were annotated (about 65%). Among the annotated sequences, only 5928 were annotated with 34 gene ontology (GO) functional categories, and 12,778 sequences were mapped to 165 pathways by searching against the Kyoto Encyclopedia of Genes and Genomes pathway (KEGG) database. Furthermore, we assessed the transcriptomic differences between cultures grown in minimal and amended medium. In total, 4808 sequences were found to be differentially expressed; 719 differentially expressed unigenes were assigned to 25 GO classes and 1888 differentially expressed unigenes were assigned to 161 KEGG pathways, including 25 enrichment pathways. Subsequently, we examined the up-regulation or uniquely expressed genes following amended medium treatment, which were also expressed on the enrichment pathway, and found that most of them participated in mediating oxidative stress homeostasis. To elucidate the role of oxidative stress in microsclerotia development, we analyzed the diversification of unigenes using quantitative reverse transcription-PCR (RT-qPCR).
  
  
  CONCLUSIONS
  Our findings suggest that oxidative stress occurs during microsclerotia development, along with a broad metabolic activity change. Our data provide the most comprehensive sequence resource available for the study of N. rileyi. We believe that the transcriptome datasets will serve as an important public information platform to accelerate studies on N. rileyi microsclerotia.
authors.affiliation: Genetic Engineering Research Centre, School of Life Science, Chongqing University, Chongqing 400030, China.
authors.forename: Zhangyong
authors.initials: Z
authors.lastname: Song
authors.forename: Youping
authors.initials: Y
authors.lastname: Yin
authors.forename: Shasha
authors.initials: S
authors.lastname: Jiang
authors.forename: Juanjuan
authors.initials: J
authors.lastname: Liu
authors.forename: Huan
authors.initials: H
authors.lastname: Chen
authors.forename: Zhongkang
authors.initials: Z
authors.lastname: Wang
mesh_terms: D003470:Culture Media; D020869:Gene Expression Profiling; D005800:Genes, Fungal / Q000235:genetics; D059014:High-Throughput Nucleotide Sequencing; D025301:Hyphae / Q000235:genetics* / Q000254:growth & development*; D006999:Hypocreales / Q000235:genetics* / Q000254:growth & development*; D058977:Molecular Sequence Annotation; D015854:Up-Regulation / Q000235:genetics
chemical_list: D003470:Culture Media