title: Cassava (Manihot esculenta) transcriptome analysis in response to infection by the fungus Colletotrichum gloeosporioides using an oligonucleotide-DNA microarray.
abstract: Cassava anthracnose disease (CAD), caused by the fungus Colletotrichum gloeosporioides f. sp. Manihotis, is a serious disease of cassava (Manihot esculenta) worldwide. In this study, we established a cassava oligonucleotide-DNA microarray representing 59,079 probes corresponding to approximately 30,000 genes based on original expressed sequence tags and RNA-seq information from cassava, and applied it to investigate the molecular mechanisms of resistance to fungal infection using two cassava cultivars, Huay Bong 60 (HB60, resistant to CAD) and Hanatee (HN, sensitive to CAD). Based on quantitative real-time reverse transcription PCR and expression profiling by the microarray, we showed that the expressions of various plant defense-related genes, such as pathogenesis-related (PR) genes, cell wall-related genes, detoxification enzyme, genes related to the response to bacterium, mitogen-activated protein kinase (MAPK), genes related to salicylic acid, jasmonic acid and ethylene pathways were higher in HB60 compared with HN. Our results indicated that the induction of PR genes in HB60 by fungal infection and the higher expressions of defense response-related genes in HB60 compared with HN are likely responsible for the fungal resistance in HB60. We also showed that the use of our cassava oligo microarray could improve our understanding of cassava molecular mechanisms related to environmental responses and development, and advance the molecular breeding of useful cassava plants.
authors.affiliation: Plant Genomic Network Research Team, RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan.
authors.forename: Yoshinori
authors.initials: Y
authors.lastname: Utsumi
authors.affiliation: Plant Genomic Network Research Team, RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan.
authors.forename: Maho
authors.initials: M
authors.lastname: Tanaka
authors.affiliation: Integrated Genome Informatics Research Unit, RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan.
authors.forename: Atsushi
authors.initials: A
authors.lastname: Kurotani
authors.affiliation: Integrated Genome Informatics Research Unit, RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan.
authors.forename: Takuhiro
authors.initials: T
authors.lastname: Yoshida
authors.affiliation: Gene Discovery Research Group, RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan.|Biomass Research Platform Team, RIKEN Biomass Engineering Program, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan.
authors.forename: Keiichi
authors.initials: K
authors.lastname: Mochida
authors.affiliation: Plant Genomic Network Research Team, RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan.
authors.forename: Akihiro
authors.initials: A
authors.lastname: Matsui
authors.affiliation: Agrobiodiversity Research Area, International Center for Tropical Agriculture (CIAT), Km 17 Recta Cali-Palmira, Apartado Aéreo 6713, Cali, Colombia.
authors.forename: Manabu
authors.initials: M
authors.lastname: Ishitani
authors.affiliation: Institute of Molecular Biosciences, Mahidol University, Salaya, Nakhon Pathom, 73170, Thailand.
authors.forename: Supajit
authors.initials: S
authors.lastname: Sraphet
authors.affiliation: Institute of Molecular Biosciences, Mahidol University, Salaya, Nakhon Pathom, 73170, Thailand.
authors.forename: Sukhuman
authors.initials: S
authors.lastname: Whankaew
authors.affiliation: Department of Biotechnology, Faculty of Science, Mahidol University, Phayathai, Bangkok, 10400, Thailand.
authors.forename: Thipa
authors.initials: T
authors.lastname: Asvarak
authors.affiliation: Department of Biotechnology, Faculty of Science, Mahidol University, Phayathai, Bangkok, 10400, Thailand.
authors.forename: Jarunya
authors.initials: J
authors.lastname: Narangajavana
authors.affiliation: Institute of Molecular Biosciences, Mahidol University, Salaya, Nakhon Pathom, 73170, Thailand.
authors.forename: Kanokporn
authors.initials: K
authors.lastname: Triwitayakorn
authors.affiliation: Integrated Genome Informatics Research Unit, RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan. tetsuya.sakurai@riken.jp.|Research and Education Faculty, Multidisciplinary Science Cluster, Interdisciplinary Science Unit, 200 Otsu, Monobe, Nankoku, Kochi, 783-8502, Japan. tetsuya.sakurai@riken.jp.
authors.forename: Tetsuya
authors.initials: T
authors.lastname: Sakurai
authors.affiliation: Plant Genomic Network Research Team, RIKEN Center for Sustainable Resource Science, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan. motoaki.seki@riken.jp.|Core Research for Evolutional Science and Technology (CREST), Japan Science and Technology (JST), 4-1-8 Honcho, Kawaguchi, Saitama, 332-0012, Japan. motoaki.seki@riken.jp.|Kihara Institute for Biological Research, Yokohama City University, 641-12 Maioka-cho, Totsuka-ku, Yokohama, Kanagawa, 244-0813, Japan. motoaki.seki@riken.jp.
authors.forename: Motoaki
authors.initials: M
authors.lastname: Seki
mesh_terms: D020231:Colletotrichum / Q000502:physiology*; D003517:Cyclopentanes / Q000378:metabolism; D005030:Ethylenes / Q000378:metabolism; D020869:Gene Expression Profiling / Q000379:methods*; D018506:Gene Expression Regulation, Plant; D063990:Gene Ontology; D017343:Genes, Plant; D002365:Manihot / Q000235:genetics* / Q000382:microbiology*; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D054883:Oxylipins / Q000378:metabolism; D010935:Plant Diseases / Q000235:genetics* / Q000382:microbiology*; D060888:Real-Time Polymerase Chain Reaction; D015203:Reproducibility of Results; D020156:Salicylic Acid / Q000378:metabolism; D015398:Signal Transduction / Q000235:genetics; D015854:Up-Regulation / Q000235:genetics
chemical_list: D003517:Cyclopentanes; D005030:Ethylenes; D054883:Oxylipins; C011006:jasmonic acid; C036216:ethylene; D020156:Salicylic Acid
keywords: Cassava; Cassava anthracnose disease; Detoxification; Disease resistance; Transcriptome