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Title: Genome analysis of the foxtail millet pathogen Sclerospora graminicola reveals the complex effector repertoire of graminicolous downy mildews
Authors: Kobayashi, Michie
Hiraka, Yukie
Abe, Akira
Yaegashi, Hiroki
Natsume, Satoshi
Kikuchi, Hideko
Takagi, Hiroki
Saitoh, Hiromasa
Win, Joe
Kamoun, Sophien
Terauchi, Ryohei  kyouindb  KAKEN_id  orcid (unconfirmed)
Author's alias: 小林, 光智衣
平賀, 幸江
阿部, 陽
八重樫, 弘樹
夏目, 俊
高木, 宏樹
齋藤, 宏昌
寺内, 良平
Keywords: Sclerospora graminicola
Graminicolous downy mildew
Whole genome sequence
Jacalin-like lectin
Setalia italica
Issue Date: 22-Nov-2017
Publisher: Springer Nature
Journal title: BMC Genomics
Volume: 18
Thesis number: 897
Abstract: 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.
Rights: © The Author(s). 2017. This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (, which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver ( applies to the data made available in this article, unless otherwise stated.
DOI(Published Version): 10.1186/s12864-017-4296-z
PubMed ID: 29166857
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