title: NAC transcription factor family genes are differentially expressed in rice during infections with Rice dwarf virus, Rice black-streaked dwarf virus, Rice grassy stunt virus, Rice ragged stunt virus, and Rice transitory yellowing virus.
abstract: Expression levels of the NAC gene family were studied in rice infected with Rice dwarf virus (RDV), Rice black-streaked dwarf virus (RBSDV), Rice grassy stunt virus (RGSV), Rice ragged stunt virus (RRSV), and Rice transitory yellowing virus (RTYV). Microarray analysis showed that 75 (68%) OsNAC genes were differentially regulated during infection with RDV, RBSDV, RGSV, and RRSV compared with the control. The number of OsNAC genes up-regulated was highest during RGSV infection, while the lowest number was found during RTYV infection. These phenomena correlate with the severity of the syndromes induced by the virus infections. Most of the genes in the NAC subgroups NAC22, SND, ONAC2, ANAC34, and ONAC3 were down-regulated for all virus infections. These OsNAC genes might be related to the health stage maintenance of the host plants. Interestingly, most of the genes in the subgroups TIP and SNAC were more highly expressed during RBSDV and RGSV infections. These results suggested that OsNAC genes might be related to the responses induced by the virus infection. All of the genes assigned to the TIP subgroups were highly expressed during RGSV infection when compared with the control. For RDV infection, the number of activated genes was greatest during infection with the S-strain, followed by the D84-strain and the O-strain, with seven OsNAC genes up-regulated during infection by all three strains. The Os12g03050 and Os11g05614 genes showed higher expression during infection with four of the five viruses, and Os11g03310, Os11g03370, and Os07g37920 genes showed high expression during at least three viral infections. We identified some duplicate genes that are classified as neofunctional and subfunctional according to their expression levels in different viral infections. A number of putative cis-elements were identified, which may help to clarify the function of these key genes in network pathways.
authors.affiliation: Plant Genome Research Unit, Agrogenomics Research Center, National Institute of Agrobiological Sciences Tsukuba, Japan ; Faculty of Science, Centre for Research for Biotechnology for Agriculture, Institute of Biological Sciences, University of Malaya Kuala Lumpur, Malaysia ; Post Harvest Technology, School of Food Science and Technology, University Malaysia Terengganu Kuala Terengganu, Malaysia ; Department of Agronomy and Agricultural Extension, Faculty of Agriculture, University of Rajshahi Rajshahi, Bangladesh.
authors.forename: Mohammed
authors.initials: M
authors.lastname: Nuruzzaman
authors.affiliation: Plant Genome Research Unit, Agrogenomics Research Center, National Institute of Agrobiological Sciences Tsukuba, Japan.
authors.forename: Akhter M
authors.initials: AM
authors.lastname: Sharoni
authors.affiliation: Plant Genome Research Unit, Agrogenomics Research Center, National Institute of Agrobiological Sciences Tsukuba, Japan ; Research Team for Vector-Borne Plant Pathogens, National Agricultural Research Center Tsukuba, Japan.
authors.forename: Kouji
authors.initials: K
authors.lastname: Satoh
authors.affiliation: Faculty of Science, Centre for Research for Biotechnology for Agriculture, Institute of Biological Sciences, University of Malaya Kuala Lumpur, Malaysia.
authors.forename: Mohammad Rezaul
authors.initials: MR
authors.lastname: Karim
authors.affiliation: Faculty of Science, Centre for Research for Biotechnology for Agriculture, Institute of Biological Sciences, University of Malaya Kuala Lumpur, Malaysia.
authors.forename: Jennifer A
authors.initials: JA
authors.lastname: Harikrishna
authors.affiliation: Research Team for Vector-Borne Plant Pathogens, National Agricultural Research Center Tsukuba, Japan.
authors.forename: Takumi
authors.initials: T
authors.lastname: Shimizu
authors.affiliation: Research Team for Vector-Borne Plant Pathogens, National Agricultural Research Center Tsukuba, Japan.
authors.forename: Takahide
authors.initials: T
authors.lastname: Sasaya
authors.affiliation: Research Team for Vector-Borne Plant Pathogens, National Agricultural Research Center Tsukuba, Japan.
authors.forename: Toshihiro
authors.initials: T
authors.lastname: Omura
authors.affiliation: Department of Agronomy and Agricultural Extension, Faculty of Agriculture, University of Rajshahi Rajshahi, Bangladesh.
authors.forename: Mohammad A
authors.initials: MA
authors.lastname: Haque
authors.affiliation: Post Harvest Technology, School of Food Science and Technology, University Malaysia Terengganu Kuala Terengganu, Malaysia.
authors.forename: Sayed M Z
authors.initials: SM
authors.lastname: Hasan
authors.affiliation: Centre for Fundamental and Liberal Education, School of Science and Food Technology, Universiti Malaysia Terengganu Kuala Terengganu, Malaysia.
authors.forename: Aziz
authors.initials: A
authors.lastname: Ahmad
authors.affiliation: Plant Genome Research Unit, Agrogenomics Research Center, National Institute of Agrobiological Sciences Tsukuba, Japan.
authors.forename: Shoshi
authors.initials: S
authors.lastname: Kikuchi
keywords: NAC transcription factors; cis-element; differential gene expression; gene duplication; virus infections