Genome analysis of the foxtail millet pathogen Sclerospora graminicola reveals the complex effector repertoire of graminicolous downy mildews
| Autor: | Joe Win, Satoshi Natsume, Akira Abe, Hiroki Yaegashi, Ryohei Terauchi, Hiroki Takagi, Hideko Kikuchi, Hiromasa Saitoh, Sophien Kamoun, Michie Kobayashi, Yukie Hiraka |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2017 |
| Předmět: |
0106 biological sciences
0301 basic medicine Heterozygote Setaria lcsh:QH426-470 lcsh:Biotechnology Setaria Plant Sclerospora graminicola 01 natural sciences Genome 03 medical and health sciences Genome Size Graminicola lcsh:TP248.13-248.65 Botany Genetics Whole genome sequence Illumina dye sequencing Plant Diseases Repetitive Sequences Nucleic Acid Whole genome sequencing Oomycete biology Proteins food and beverages Graminicolous downy mildew biology.organism_classification lcsh:Genetics 030104 developmental biology Oomycetes Jacalin-like lectin Setalia italica Effector Downy mildew Phyllody Plant Lectins Research Article 010606 plant biology & botany Biotechnology |
| Zdroj: | BMC Genomics, Vol 18, Iss 1, Pp 1-16 (2017) BMC Genomics |
| ISSN: | 1471-2164 |
| Popis: | Background Downy mildew, caused by the oomycete pathogen Sclerospora graminicola, is an economically important disease of Gramineae crops including foxtail millet (Setaria italica). Plants infected with S. graminicola are generally stunted and often undergo a transformation of flower organs into leaves (phyllody or witches’ broom), resulting in serious yield loss. To establish the molecular basis of downy mildew disease in foxtail millet, we carried out whole-genome sequencing and an RNA-seq analysis of S. graminicola. Results Sequence reads were generated from S. graminicola using an Illumina sequencing platform and assembled de novo into a draft genome sequence comprising approximately 360 Mbp. Of this sequence, 73% comprised repetitive elements, and a total of 16,736 genes were predicted from the RNA-seq data. The predicted genes included those encoding effector-like proteins with high sequence similarity to those previously identified in other oomycete pathogens. Genes encoding jacalin-like lectin-domain-containing secreted proteins were enriched in S. graminicola compared to other oomycetes. Of a total of 1220 genes encoding putative secreted proteins, 91 significantly changed their expression levels during the infection of plant tissues compared to the sporangia and zoospore stages of the S. graminicola lifecycle. Conclusions We established the draft genome sequence of a downy mildew pathogen that infects Gramineae plants. Based on this sequence and our transcriptome analysis, we generated a catalog of in planta-induced candidate effector genes, providing a solid foundation from which to identify the effectors causing phyllody. Electronic supplementary material The online version of this article (10.1186/s12864-017-4296-z) contains supplementary material, which is available to authorized users. |
| Databáze: | OpenAIRE |
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