http://www15.atwiki.jp/live96/ Welcome to Naoki Takata's Homepage ja 2011-04-02T14:31:29+09:00 http://www15.atwiki.jp/live96/pages/15.html &bold(){EDUCATION} 1999-2003 B.A. (Agriculture), Hokkaido University, Japan 2003-2005 M.A. (Agriculture), Hokkaido University, Japan 2006-2009 Ph.D. (Agriculture), Iwate University, Japan &bold(){EMPLOYMENT HISTORY} 2005 Nippon Paper Industries Co., Ltd., Japan 2009-2010 Postdoctoral fellow. Umeå Plant Science Centre (UPSC), Umeå University 2011- Postdoctoral fellow, Forest Bio-Research Center, Forestry and Forest Products Research Institute &bold(){FIELDS OF SPECIALIZATION} Plant Physiology, Tree Physiology; Molecular Biology, Molecular Phylogeny Research subject; Circadian Clock in Woody Plants &bold(){ACADEMIC APPOINTMENTS} 2003-2005 Teaching Assistant, Hokkaido University 2006-2007 Researching Assistant (21st Century COE Program), Iwate University 2007-2008 Teaching Assistant, Iwate University 2007 Credit of the course, Plant Sciences 865.3: Plant Abiotic Stress, in Saskatchewan, Canada. &bold(){FELLOWSHIPS} 2007-2009 Japan Society for the Promotion of Science Research Fellowship &bold(){CONTRIBUTION AS A REFREE} Theoretical and Applied Genetics (2) 2011-04-02T14:31:29+09:00 http://www15.atwiki.jp/live96/pages/14.html &bold(){REFEREED ARTICLES} +Johansson, M., McWatters, H.G., Bako, L., &u(){Takata, N.}, Gyula, P., Hall A., Somers, D.E., Millar, A.J. and Eriksson, M.E. (2011) [[Partners in time: EARLY BIRD associates with ZEITLUPE and regulates the speed of the Arabidopsis clock.>http://www.plantphysiol.org/cgi/content/abstract/pp.110.167155v1]] Plant Physiology, 155(4), 2108-2122. +Yamazaki, T., &u(){Takata, N.}, Uemura, M. and Kawamura, Y. (2010) [[Arabidopsis synaptotagmin SYT1, a type I signal-anchor protein, requires tandem C2 domains for delivery to the plasma membrane.>http://www.jbc.org/content/285/30/23165.abstract]] Journal of Biological Chemistry, 285(30), 23165-23176. +&u(){Takata, N.}, Saito, S., Saito, C. T. and Uemura, M. (2010) [[Phylogenetic footprint of the plant clock system in angiosperms: evolutionary processes of Pseudo-Response Regulators.>http://www.biomedcentral.com/1471-2148/10/126]] BMC Evolutionary Biology, 10, 126. +Fujikwa, S., Kasuga, J., &u(){Takata, N.} and Arakawa, K. (2009) [[Factors related to change of deep supercooling capability in xylem parenchyma cells of trees.>http://www.cabi.org/CABIPages/bk_BookDisplay.asp?PID=2151]] In: Gusta, L.V., Wisniewski, M. and Tanino, K. Editors, Plant Cold Hardiness: From the Laboratory to the Field, CABI Press, Wallingford, UK, 29–42. +&u(){Takata, N.}, Saito, S., Saito, C. T., Nanjo, T., Shinohara, K. and Uemura, M. (2009) [[Molecular phylogeny and expression of poplar circadian clock genes, LHY1 and LHY2.>http://www3.interscience.wiley.com/journal/121583577/abstract?CRETRY=1&SRETRY=0]] New Phytologist, 181(4), 808-819. +&u(){Takata, N.}, Kasuga, J., Takezawa, D., Arakawa, K. and Fujikawa, S. (2007) [[Gene expression associated with increased supercooling capability in xylem parenchyma cells of larch (Larix kaempferi).>http://jxb.oxfordjournals.org/cgi/content/abstract/58/13/3731]] Journal of Experimental Botany, 58(13), 3731-3742. +Kasuga, J., &u(){Takata, N.}, Yamane, K., Kuroda, K., Arakawa, K. and Fujikawa, S. (2007) [[Larch (Larix kaempferi) xylem parenchyma cells respond to subfreezing temperature by deep supercooling.>http://www.ingentaconnect.com/content/cryo/cryo/2007/00000028/00000002/art00002?token=00501a44f58416a6f17e2a46762c47655d7d706a447b23566d7a673f7b2f27375f2a72752d70b244]] CryoLetters, 28(2), 77-81. +&u(){Takata, N.}, Minami, A., Arakawa, K., Takezawa, D. and Fujikawa, S. (2003) Identification of gene expressed in xylem ray parenchyma cells of Larix kaempferi that adapt to cold environment by deep supercooling. Cryobiology and Cryotechnology, 49, 191-194. (in Japanese) &bold(){OTHERS} +&u(){Takata, N.}, Takezawa, D., Minami, A., Arakawa, K., Fujikawa, S. (2003) Tissue-specific expressions of winter-induced genes associated with increased supercooling capability in xylem parenchyma cells of larch (Larix kaempferi). Proceeding of 35th Annual Meeting of The Hokkaido Blanch of The Japan Wood Research Society. Asahikawa, Japan. (in Japanese) 2011-04-02T14:29:32+09:00 http://www15.atwiki.jp/live96/pages/12.html *&bold(){Poplar Tools} ***Institute and Portal -[[Umea Plant Science Centre>http://www.upsc.se/]] -[[Populus Genome Portal>http://www.populusgenome.info/]] ***Genomic Database -[[JGI Populus trichocarpa>http://genome.jgi-psf.org/Poptr1_1/Poptr1_1.home.html]] -[[RepPop>http://csbl.bmb.uga.edu/~ffzhou/RepPop/]] ***Gene Expression Database -[[PopGenIE>http://www.popgenie.db.umu.se/popgenie/]] -[[Poplar eFP Browser>http://bar.utoronto.ca/efppop/cgi-bin/efpWeb.cgi]] -[[Diurnal Search Tool>http://diurnal.cgrb.oregonstate.edu/]] -[[Affymetrix>https://www.affymetrix.com/]] *&bold(){Genomic Database} ***General -[[NCBI Genome Project Home>http://www.ncbi.nlm.nih.gov/sites/entrez?db=genomeprj]] -[[JGI>http://genome.jgi-psf.org/]] -[[Chloroplast Genome Database>http://chloroplast.cbio.psu.edu/index.html]] -[[Plant DNA C-values Database>http://data.kew.org/cvalues/homepage.html]] ***Angiosperm/Eudicots -[[tair; Arabidopsis>http://www.arabidopsis.org/]] -[[SIGnAL; Arabidopsis>http://signal.salk.edu/]] -[[miyakogusa.jp; Lotus japonicus>http://www.kazusa.or.jp/lotus/index.html]] -[[Medicago Genomic Database>http://www.medicago.org/]] -[[Grape Genome Browser>http://www.genoscope.cns.fr/externe/GenomeBrowser/Vitis/]] ***Angiosperm/Monocots -[[Rice Annotation Project Database>http://rapdb.dna.affrc.go.jp/]] -[[JGI Sorghum>http://genome.jgi-psf.org/Sorbi1/Sorbi1.home.html]] *&bold(){Genomic Tools} ***General -[[EMBL-EBI>http://www.ebi.ac.uk/embl/]] -[[EMBnet>http://www.ch.embnet.org/]] -[[Gene Ontology>http://www.geneontology.org/]] ***Promoter -[[MotifSampler>http://homes.esat.kuleuven.be/~thijs/Work/MotifSampler.html]] -[[Gibbs Motif Sampler>http://bayesweb.wadsworth.org/gibbs/gibbs.html]] -[[PLACE>http://www.dna.affrc.go.jp/PLACE/]] -[[SoftBerry>http://linux1.softberry.com/berry.phtml]] -[[PlantCARE>http://bioinformatics.psb.ugent.be/webtools/plantcare/html/]] ***Prediction of Protein Localization -[[PSORT>http://psort.ims.u-tokyo.ac.jp/]] -[[SignalP>http://www.cbs.dtu.dk/services/SignalP/]] -[[NLStradamus>http://www.bar.utoronto.ca/~anguyenba/]] -[[NLSdb>http://cubic.bioc.columbia.edu/db/NLSdb/]] ***Gene Prediction -[[GENESCAN>http://genes.mit.edu/GENSCAN.html]] -[[LTR_FINDER: Finding LTR Retrotransposons>http://tlife.fudan.edu.cn/ltr_finder/]] ***Prediction of RNA/DNA Structure -[[RNA & DNA Folding>http://mfold.bioinfo.rpi.edu/]] ***Alignments and Assemble -[[WebLogo>http://weblogo.berkeley.edu/logo.cgi]] -[[CAP3 Sequence Assembly Program>http://pbil.univ-lyon1.fr/cap3.php]] *&bold(){Phylogeny} ***General -[[Darwin Online>http://darwin-online.org.uk/]] -[[Linnean Society of London>http://www.linnean.org/]] -[[Angiosperm Phylogeny Website>http://www.mobot.org/MOBOT/Research/APweb/]] ***Plant Comparative Genomics -[[CoGe; Comparative Genomics>http://synteny.cnr.berkeley.edu/CoGe/]] -[[Phytozome>http://www.phytozome.net/index.php]] -[[VISTA>http://genome.lbl.gov/vista/index.shtml]] ***Softwares -[[MEGA>http://www.megasoftware.net/index.html]] -[[PAUP>http://paup.csit.fsu.edu/]] -[[PhyML>http://atgc.lirmm.fr/phyml/]] -[[MrBayes>http://mrbayes.csit.fsu.edu/]] -[[PHYLIP>http://evolution.genetics.washington.edu/phylip.html]] -[[RAxML>http://www15.atwiki.jp/live96/?cmd=edit&wysiwyg=0]] -[[K-Estimator>http://www.biology.uiowa.edu/comeron/index_files/Page432.htm]] -[[DIVERGE 2.0>http://xgu.zool.iastate.edu/software.html]] *&bold(){Vectors and Seeds} ***Vecotrs -[[pGWBs>http://bio2.ipc.shimane-u.ac.jp/pgwbs/index.htm]] -[[pANDAs>http://bsw3.naist.jp/simamoto/pANDA/real/pANDA_top.htm]] -[[pGreens>http://www.pgreen.ac.uk/a_hom.htm]] -[[ALLIGATORs>http://www.isv.cnrs-gif.fr/jg/alligator/]] -[[BiFC vectors (pSCYCE/SPYCE, pVYCE/VYNE)>http://www.uni-muenster.de/Biologie.Botanik/agkudla/Plasmids.html]] -[[BiFC vectors (pSAT series)>http://www.bio.purdue.edu/people/faculty/gelvin/nsf/index.htm]] ***Seeds -[[ABRC>http://www.biosci.ohio-state.edu/pcmb/Facilities/abrc/index.html]] -[[GABI-Kat>http://www.gabi-kat.de/]] 2010-02-26T20:12:23+09:00 http://www15.atwiki.jp/live96/pages/19.html *Poplar Protocols ***Subculture and Transformation -[[Subculture]] -[[Stable Transformation by Agrobacterium>]] -[[Transient Transformation in Protoplasts>]] -[[Transient Transformation in Seedlings by Agro-Infiltration)>]] *** -[[]] ***Digital Northern -[[Poplar eFP Browser>http://www15.atwiki.jp/live96/pages/18.html]] -[[PopGenIE>]] -[[Diurnal Search Tool>]] 2009-10-25T04:52:12+09:00 http://www15.atwiki.jp/live96/pages/2.html **MENU -[[Top Page]] -[[Curriculum Vitae]] -[[Publications]] -[[Presentations]] -[[Blog>http://blog.livedoor.jp/live96door/]] -[[Links]] 2009-10-25T04:36:23+09:00 http://www15.atwiki.jp/live96/pages/18.html *Poplar eFP Browser 1. Access [[the Affymetrix homepage>http://www.affymetrix.com/]] 2. Make an online account and login 3. Access [[the Affymetrix NetAffx homepage>http://www.affymetrix.com/analysis/index.affx]] 4. Search an Affymetrix ID of the appropriate poplar gene 5. Copy the Affymetrix ID 6. Access [[Poplar eFP Browser>http://bar.utoronto.ca/efppop/cgi-bin/efpWeb.cgi]] 7. Paste the Affymetrix ID in the column of Poplar Probeset 8. Press "Go" (When you need expression values, click on the button "Click Here for Table of Expression Values" below) 2009-10-25T04:31:05+09:00 http://www15.atwiki.jp/live96/pages/16.html &bold(){ORAL PRESENTATIONS} &italic(){INTERNATIONAL CONFFERENCE} +&u(){Takata, N.}, Kasuga, J., Yamane, K., Arakawa, K. and ○Fujikawa, S. Functional roles of genes specifically expressed in association with enhanced deep supercooling capability of larch (Larix kaempferi) xylem parenchyma cells. Plant and Microbe Adaptations to Cold Meeting, Salsomaggiore Terme, Italy. (May, 2006). +○&u(){Takata, N.}, and Uemura, M. Characterization of circadian clock genes in poplar under ambient and low temperatures. 8th International Plant Cold Hardiness Seminar, Saskatchewan, Canada. (August, 2007). +Kasuga, J., &u(){Takata, N.}, Arakawa, K. and ○Fujikawa, S. Factors related to fluctuation of deep supercooling capability in xylem parenchyma cells of trees. 8th International Plant Cold Hardiness Seminar, Saskatchewan, Canada. (August, 2007). &italic(){DOMESTIC CONFFERENCE IN JAPAN} +○&u(){Takata, N.}, Takezawa, D., Minami, A. and Fujikawa, S. Gene expressions in larch (Larix kaempferi) xylem parenchyma cells responding to subfreezing temperature by deep supercooling. 53th Annual Meeting of The Japan Wood Research Society, Fukuoka, Japan. (March, 2003). +○&u(){Takata, N.}, Minami, A., Arakawa, K., Takezawa, D. and Fujikawa, S. Identification of gene expressed in xylem ray parenchyma cells of Larix kaempferi that adapt to cold environment by deep supercooling. 49th Annual Meeting of Japanese Society for Cryobiology and Cryotechnology, Sapporo, Japan. (May, 2003). +○&u(){Takata, N.}, Takezawa, D., Minami, A., Arakawa, K., Fujikawa, S. Tissue-specific expressions of winter-induced genes associated with increased supercooling capability in xylem parenchyma cells of larch (Larix kaempferi). 35th Annual Meeting of The Hokkaido Blanch of The Japan Wood Research Society, Asahikawa, Japan. (October, 2003). +○&u(){Takata, N.}, Takezawa, D., Arakawa, K. and Fujikawa S. Identification and expression analyses of genes that are induced during winter in xylem ray parenchyma cells of Larix kaempferi. 55th Annual Meeting of The Japan Wood Research Society, Kyoto, Japan. (March, 2005). +○Sunadome, M., &u(){Takata, N.}, Fujikawa, S. and Arakawa, K.　Functional analyses of galactinol synthase isolated from larch (Larix kaempferi) xylem parenchyma cells.　 56th Annual Meeting of The Japan Wood Research Society, Akita, Japan. (August, 2006). +○Sunadome, M., Uede, N., &u(){Takata, N.}, Kasuga, J., Fujikawa, S. and Arakawa, K. The study of cold acclimation mechanism in hybrid aspen seedlings. 57th Annual Meeting of The Japan Wood Research Society, Hiroshima, Japan. (August, 2007). +○&u(){Takata, N.} and Uemura, M.　Molecular phylogeny of circadian clock genes in Populus lineages. 58th Annual Meeting of The Japan Wood Research Society, Tsukuba, Japan. (March, 2008). +○&u(){Takata, N.} and Uemura, M. Molecular phylogeny of circadian clock genes in angiosperm. 49th Annual Meeting of the Japanese Society of Plant Physiologists, Sapporo, Japan. (March, 2008). &bold(){POSTER PRESENTATIONS} &italic(){INTERNATIONAL CONFFERENCE} +○&u(){Takata, N.}, Arakawa, K., Takezawa, D. and Fujikawa, S. Identification and expression analyses of genes expressed in xylem ray parenchyma cells of Larix kaempferi that respond to cold environment by deep supercooling. 7th International Plant Cold Hardiness Seminar, Sapporo, Japan. (July, 2004). +○&u(){Takata, N.}, Nanjo, T., Shinohara, K. and Uemura, M. Genomic approach to central oscillator of circadian clock in Populus nigra. Iwate Plant Science Symposium 2006, Morioka, Japan. (October, 2006). +○&u(){Takata, N.} and Uemura, M. Molecular Phylogeny of Circadian Clock Genes (LHY/CCA1s and PRRs) in Populus, Arabidopsis and Oryza. 16th Federation of European Societies of Plant Biology, Tampere, Finland. (August, 2008) +○&u(){Takata, N.} and Uemura, M. Evolutionary footprint of plant clock system in angiosperms. 2008 IU-UGAS/IU-GSA/IU-COE Joint Symposium -The Effect of Climate Change on Biological Systems in Cold Regions-, Morioka, Japan. (October, 2008) &italic(){DOMESTIC CONFFERENCE IN JAPAN} +○&u(){Takata, N.}, Nanjo, T., Shinohara, K. and Uemura, M. Expression and phylogenetic analyses of circadian clock genes in Populus nigra. 48th Annual Meeting of the Japanese Society of Plant Physiologists, Matsuyama, Japan. (March, 2007). +○Ohmiya, Y., &u(){Takata, N.} and Hayashi, T. Two poplar cellulases, PopCel1 and PopCel2 are coexpressed during cell expansion in developing guard cells. 49th Annual Meeting of the Japanese Society of Plant Physiologists, Sapporo, Japan. (March, 2008). +○&u(){Takata, N.} Ohmiya, Y. and Uemura, M. Evolutionary and functional approach to poplar circadian clock system. 59th Annual Meeting of The Japan Wood Research Society, Matsumoto, Japan. (March, 2009). &bold(){OTHER PRESENTATIONS} +Invited talk in the Mizusawa High School. "Fairyland of trees." (September 30th, 2008) 2009-09-20T22:43:38+09:00 http://www15.atwiki.jp/live96/pages/1.html *Welcome to Naoki Takata's Homepage -[[Curriculum Vitae>http://www15.atwiki.jp/live96/?page=Curriculum%20Vitae]] -[[Publications>http://www15.atwiki.jp/live96/?page=Publications]] -[[Presentations>http://www15.atwiki.jp/live96/pages/16.html]] -[[Blog>http://blog.livedoor.jp/live96door/]] -[[Links>http://www15.atwiki.jp/live96/pages/12.html]] #ref(http://image.blog.livedoor.jp/live96door/imgs/8/7/87b29b47.JPG) 2009-07-03T19:49:20+09:00 http://www15.atwiki.jp/live96/pages/13.html [[http://blog.livedoor.jp/live96door/]] 2009-02-28T04:27:13+09:00 http://www15.atwiki.jp/live96/pages/3.html **更新履歴 #recent(20) &link_editmenu2(text=ここを編集) 2009-02-28T03:44:56+09:00