start-ver=1.4 cd-journal=joma no-vol=12 cd-vols= no-issue= article-no= start-page= end-page= dt-received= dt-revised= dt-accepted= dt-pub-year=2011 dt-pub=20110519 dt-online= en-article= kn-article= en-subject= kn-subject= en-title= kn-title=454 sequencing of pooled BAC clones on chromosome 3H of barley en-subtitle= kn-subtitle= en-abstract= kn-abstract=Background: Genome sequencing of barley has been delayed due to its large genome size (ca. 5,000Mbp). Among the fast sequencing systems, 454 liquid phase pyrosequencing provides the longest reads and is the most promising method for BAC clones. Here we report the results of pooled sequencing of BAC clones selected with ESTs genetically mapped to chromosome 3H. Results: We sequenced pooled barley BAC clones using a 454 parallel genome sequencer. A PCR screening system based on primer sets derived from genetically mapped ESTs on chromosome 3H was used for clone selection in a BAC library developed from cultivar "Haruna Nijo". The DNA samples of 10 or 20 BAC clones were pooled and used for shotgun library development. The homology between contig sequences generated in each pooled library and mapped EST sequences was studied. The number of contigs assigned on chromosome 3H was 372. Their lengths ranged from 1,230 bp to 58,322 bp with an average 14,891 bp. Of these contigs, 240 showed homology and colinearity with the genome sequence of rice chromosome 1. A contig annotation browser supplemented with query search by unique sequence or genetic map position was developed. The identified contigs can be annotated with barley cDNAs and reference sequences on the browser. Homology analysis of these contigs with rice genes indicated that 1,239 rice genes can be assigned to barley contigs by the simple comparison of sequence lengths in both species. Of these genes, 492 are assigned to rice chromosome 1. Conclusions: We demonstrate the efficiency of sequencing gene rich regions from barley chromosome 3H, with special reference to syntenic relationships with rice chromosome 1. en-copyright= kn-copyright= en-aut-name=SatoKazuhiro en-aut-sei=Sato en-aut-mei=Kazuhiro kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=1 ORCID= en-aut-name=MotoiYuka en-aut-sei=Motoi en-aut-mei=Yuka kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=2 ORCID= en-aut-name=YamajiNami en-aut-sei=Yamaji en-aut-mei=Nami kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=3 ORCID= en-aut-name=YoshidaHideya en-aut-sei=Yoshida en-aut-mei=Hideya kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=4 ORCID= affil-num=1 en-affil= kn-affil=Okayama Univ, Inst Plant Sci & Resources affil-num=2 en-affil= kn-affil=Okayama Univ, Inst Plant Sci & Resources affil-num=3 en-affil= kn-affil=Okayama Univ, Inst Plant Sci & Resources affil-num=4 en-affil= kn-affil=Okayama Univ, Inst Plant Sci & Resources END start-ver=1.4 cd-journal=joma no-vol=16 cd-vols= no-issue=2 article-no= start-page=81 end-page=89 dt-received= dt-revised= dt-accepted= dt-pub-year=2009 dt-pub=200904 dt-online= en-article= kn-article= en-subject= kn-subject= en-title= kn-title=Development of 5006 Full-Length CDNAs in Barley: A Tool for Accessing Cereal Genomics Resources en-subtitle= kn-subtitle= en-abstract= kn-abstract=A collection of 5006 full-length (FL) cDNA sequences was developed in barley. Fifteen mRNA samples from various organs and treatments were pooled to develop a cDNA library using the CAP trapper method. More than 60% of the clones were confirmed to have complete coding sequences, based on comparison with rice amino acid and UniProt sequences. Blastn homologies (E < 1E-5) to rice genes and Arabidopsis genes were 89 and 47%, respectively. Of the 5028 possible amino acid sequences derived from the 5006 FLcDNAs, 4032 (80.2%) were classified into 1678 GreenPhyl multigenic families. There were 555 cDNAs showing low homology to both rice and Arabidopsis. Gene ontology annotation by InterProScan indicated that many of these cDNAs (71%) have no known molecular functions and may be unique to barley. The cDNAs showed high homology to Barley 1 GeneChip oligo probes (81%) and the wheat gene index (84%). The high homology between FLcDNAs (27%) and mapped barley expressed sequence tag enabled assigning linkage map positions to 151-233 FLcDNAs on each of the seven barley chromosomes. These comprehensive barley FLcDNAs provide strong platform to connect preexisting genomic and genetic resources and accelerate gene identification and genome analysis in barley and related species. en-copyright= kn-copyright= en-aut-name=SatoKazuhiro en-aut-sei=Sato en-aut-mei=Kazuhiro kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=1 ORCID= en-aut-name=Shin-ITadasu en-aut-sei=Shin-I en-aut-mei=Tadasu kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=2 ORCID= en-aut-name=SekiMotoaki en-aut-sei=Seki en-aut-mei=Motoaki kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=3 ORCID= en-aut-name=ShinozakiKazuo en-aut-sei=Shinozaki en-aut-mei=Kazuo kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=4 ORCID= en-aut-name=YoshidaHideya en-aut-sei=Yoshida en-aut-mei=Hideya kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=5 ORCID= en-aut-name=TakedaKazuyoshi en-aut-sei=Takeda en-aut-mei=Kazuyoshi kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=6 ORCID= en-aut-name=YamazakiYukiko en-aut-sei=Yamazaki en-aut-mei=Yukiko kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=7 ORCID= en-aut-name=ConteMatthieu en-aut-sei=Conte en-aut-mei=Matthieu kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=8 ORCID= en-aut-name=KoharaYuji en-aut-sei=Kohara en-aut-mei=Yuji kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=9 ORCID= affil-num=1 en-affil= kn-affil=Okayama Univ, Bioresources Res Inst affil-num=2 en-affil= kn-affil=Natl Inst Genet affil-num=3 en-affil= kn-affil=RIKEN, Plant Sci Ctr affil-num=4 en-affil= kn-affil=RIKEN, Plant Sci Ctr affil-num=5 en-affil= kn-affil=Okayama Univ, Bioresources Res Inst affil-num=6 en-affil= kn-affil=Okayama Univ, Bioresources Res Inst affil-num=7 en-affil= kn-affil=Natl Inst Genet affil-num=8 en-affil= kn-affil=Int Rice Res Inst, Crop Res Informat Lab affil-num=9 en-affil= kn-affil=Natl Inst Genet en-keyword=full-length cDNA kn-keyword=full-length cDNA en-keyword=Hordeum vulgare kn-keyword=Hordeum vulgare en-keyword=mRNA kn-keyword=mRNA en-keyword=gene ontology kn-keyword=gene ontology END start-ver=1.4 cd-journal=joma no-vol=52 cd-vols= no-issue=2 article-no= start-page=215 end-page=220 dt-received= dt-revised= dt-accepted= dt-pub-year=2006 dt-pub=20062 dt-online= en-article= kn-article= en-subject= kn-subject= en-title= kn-title=Role of membrane transport of water and glycerol in the freeze tolerance of the rice stem borer, Chilo suppressalis Walker (Lepidoptera: Pyralidae) en-subtitle= kn-subtitle= en-abstract= kn-abstract=

Overwintering larvae of the rice stem borer, Chilo suppressalis accumulate glycerol and are freezing tolerant to about -25°C. However, non-diapausing larvae cannot accumulate glycerol and are killed by freezing. We compared the extent of tissue damage, the effects of glycerol concentration, and the transport of glycerol and water in fat body tissues from these larvae at selected freezing temperatures. Tissues from overwintering larvae, but not non-diapausing larvae, survive when frozen at -20°C with 0.25M glycerol, but the protection afforded by glycerol is offset by the water-channel inhibitor mercuric chloride. Glycerol in higher concentration (0.75M) affords some protection even to the fat body of non-diapausing larvae. Radiotracer assays of overwintering larvae show that water leaves the tissues during freezing while glycerol enters, and that mercuric chloride disrupts this process. Transport is also disrupted after lethal freezing at -35°C. Therefore, membrane transport of water and glycerol is involved in the avoidance of freezing injury to fat body cells of the rice stem borer, apparently by mediating the replacement of water with glycerol in freezing-tolerant tissues.

en-copyright= kn-copyright= en-aut-name=IzumiYohei en-aut-sei=Izumi en-aut-mei=Yohei kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=1 ORCID= en-aut-name=SonodaShoji en-aut-sei=Sonoda en-aut-mei=Shoji kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=2 ORCID= en-aut-name=YoshidaHideya en-aut-sei=Yoshida en-aut-mei=Hideya kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=3 ORCID= en-aut-name=DanksaHugh V en-aut-sei=Danksa en-aut-mei=Hugh V kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=4 ORCID= en-aut-name=TsumukiHisaaki en-aut-sei=Tsumuki en-aut-mei=Hisaaki kn-aut-name= kn-aut-sei= kn-aut-mei= aut-affil-num=5 ORCID= affil-num=1 en-affil= kn-affil=Okayama University affil-num=2 en-affil= kn-affil=Okayama University affil-num=3 en-affil= kn-affil=Okayama University affil-num=4 en-affil= kn-affil=Canadian Museum of Nature, Ottawa, Canada affil-num=5 en-affil= kn-affil=Okayama University en-keyword=Freeze tolerance kn-keyword=Freeze tolerance en-keyword=Glycerol kn-keyword=Glycerol en-keyword=Water kn-keyword=Water en-keyword=Membrane transport kn-keyword=Membrane transport en-keyword=Chilo suppressalis kn-keyword=Chilo suppressalis END start-ver=1.4 cd-journal=joma no-vol=4 cd-vols= no-issue=1 article-no= start-page=73 end-page=78 dt-received= dt-revised= dt-accepted= dt-pub-year=1996 dt-pub=1996 dt-online= en-article= kn-article= en-subject= kn-subject= en-title=オオムギのアブラムシ抵抗性とグラミン：EDTA法による解析 kn-title=Gramine and Resistance of Barley to Aphids : Analysis of EDTA Exdates from Barley Leaves en-subtitle= kn-subtitle= en-abstract=オオムギのアブラムシ抵抗性要因物質の一つ、グラミンは幼苗に多量に存在している。アブラムシ口針切断法とEDTA法を用いて、アブラムシが吸汁するオオムギの師管液にグラミンが存在しているかどうか検討した。幼苗に寄生しているアブラムシの口針をレーザ光線を用いて切断したが、師管液は得られなかった。オオムギ葉を切断しEDTA溶液に浸し、切り口から液中に浸潤してくる成分は師管液に非常に類似したものといわれている。このEDTA法により得られた浸潤液のグラミンと糖の含量を時間を追って測定したところ、グラミンが師管液中に存在する可能性を示唆する結果を得た。 kn-abstract=Young leaves of barley contain a large amount of gramine, which is one of the factors involved in the resistance of barley against aphids. Using stylectomy by laser beam and EDTA-exudate method, we tried to determine if gramine exists in phloem sap which aphids ingest mainly. Phloem sap was not obtained by laser stylectomy using aphids feeding on young leaves. Components of exudates from cut leaves of barley in EDTA solution are known to be very similar to phloem sap. The time course of sucrose and gramine content of EDTA exudates from barley leaves suggested the existence of gramine in phloem sap. en-copyright= kn-copyright= en-aut-name=YoshidaHideya en-aut-sei=Yoshida en-aut-mei=Hideya kn-aut-name=吉田英哉 kn-aut-sei=吉田 kn-aut-mei=英哉 aut-affil-num=1 ORCID= en-aut-name=TsumukiHisaaki en-aut-sei=Tsumuki en-aut-mei=Hisaaki kn-aut-name=積木久明 kn-aut-sei=積木 kn-aut-mei=久明 aut-affil-num=2 ORCID= en-aut-name=KawadaKazuo en-aut-sei=Kawada en-aut-mei=Kazuo kn-aut-name=河田和雄 kn-aut-sei=河田 kn-aut-mei=和雄 aut-affil-num=3 ORCID= en-aut-name=KanehisaKatsuo en-aut-sei=Kanehisa en-aut-mei=Katsuo kn-aut-name=兼久勝夫 kn-aut-sei=兼久 kn-aut-mei=勝夫 aut-affil-num=4 ORCID= affil-num=1 en-affil= kn-affil=岡山大学 affil-num=2 en-affil= kn-affil=岡山大学 affil-num=3 en-affil= kn-affil=岡山大学 affil-num=4 en-affil= kn-affil=岡山大学 en-keyword=Barley kn-keyword=Barley en-keyword=Resistance to aphids kn-keyword=Resistance to aphids en-keyword=Gramine kn-keyword=Gramine en-keyword=EDTA kn-keyword=EDTA en-keyword=Localization kn-keyword=Localization END