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Items: 1 to 50 of 321

1.

Assembling the genome of the African wild rice Oryza longistaminata by exploiting synteny in closely related Oryza species.

Reuscher S, Furuta T, Bessho-Uehara K, Cosi M, Jena KK, Toyoda A, Fujiyama A, Kurata N, Ashikari M.

Commun Biol. 2018 Oct 5;1:162. doi: 10.1038/s42003-018-0171-y. eCollection 2018.

2.

An Evolutionarily Conserved Mesodermal Enhancer in Vertebrate Zic3.

Odaka YS, Tohmonda T, Toyoda A, Aruga J.

Sci Rep. 2018 Oct 8;8(1):14954. doi: 10.1038/s41598-018-33235-y.

3.

Anisogamy evolved with a reduced sex-determining region in volvocine green algae.

Hamaji T, Kawai-Toyooka H, Uchimura H, Suzuki M, Noguchi H, Minakuchi Y, Toyoda A, Fujiyama A, Miyagishima SY, Umen JG, Nozaki H.

Commun Biol. 2018 Mar 8;1:17. doi: 10.1038/s42003-018-0019-5. eCollection 2018.

4.

Repeated inversions within a pannier intron drive diversification of intraspecific colour patterns of ladybird beetles.

Ando T, Matsuda T, Goto K, Hara K, Ito A, Hirata J, Yatomi J, Kajitani R, Okuno M, Yamaguchi K, Kobayashi M, Takano T, Minakuchi Y, Seki M, Suzuki Y, Yano K, Itoh T, Shigenobu S, Toyoda A, Niimi T.

Nat Commun. 2018 Sep 21;9(1):3843. doi: 10.1038/s41467-018-06116-1.

5.

Lactobacillus paragasseri sp. nov., a sister taxon of Lactobacillus gasseri, based on whole-genome sequence analyses.

Tanizawa Y, Tada I, Kobayashi H, Endo A, Maeno S, Toyoda A, Arita M, Nakamura Y, Sakamoto M, Ohkuma M, Tohno M.

Int J Syst Evol Microbiol. 2018 Nov;68(11):3512-3517. doi: 10.1099/ijsem.0.003020. Epub 2018 Sep 18.

PMID:
30226464
6.

Control of directionality of chromatin folding for the inter- and intra-domain contacts at the Tfap2c-Bmp7 locus.

Tsujimura T, Takase O, Yoshikawa M, Sano E, Hayashi M, Takato T, Toyoda A, Okano H, Hishikawa K.

Epigenetics Chromatin. 2018 Sep 14;11(1):51. doi: 10.1186/s13072-018-0221-1.

7.

Draft genome of Dugesia japonica provides insights into conserved regulatory elements of the brain restriction gene nou-darake in planarians.

An Y, Kawaguchi A, Zhao C, Toyoda A, Sharifi-Zarchi A, Mousavi SA, Bagherzadeh R, Inoue T, Ogino H, Fujiyama A, Chitsaz H, Baharvand H, Agata K.

Zoological Lett. 2018 Aug 29;4:24. doi: 10.1186/s40851-018-0102-2. eCollection 2018.

8.

Reduced fucosylation in the distal intestinal epithelium of mice subjected to chronic social defeat stress.

Omata Y, Aoki R, Aoki-Yoshida A, Hiemori K, Toyoda A, Tateno H, Suzuki C, Takayama Y.

Sci Rep. 2018 Sep 4;8(1):13199. doi: 10.1038/s41598-018-31403-8.

9.

Functional divergence of a heterochromatin-binding protein during stickleback speciation.

Yoshida K, Ishikawa A, Toyoda A, Shigenobu S, Fujiyama A, Kitano J.

Mol Ecol. 2018 Aug 17. doi: 10.1111/mec.14841. [Epub ahead of print]

PMID:
30117211
10.

Endoribonuclease ENDU-2 regulates multiple traits including cold tolerance via cell autonomous and nonautonomous controls in Caenorhabditis elegans.

Ujisawa T, Ohta A, Ii T, Minakuchi Y, Toyoda A, Ii M, Kuhara A.

Proc Natl Acad Sci U S A. 2018 Aug 28;115(35):8823-8828. doi: 10.1073/pnas.1808634115. Epub 2018 Aug 13.

PMID:
30104389
11.

Exploring the Limits and Causes of Plastid Genome Expansion in Volvocine Green Algae.

Gaouda H, Hamaji T, Yamamoto K, Kawai-Toyooka H, Suzuki M, Noguchi H, Minakuchi Y, Toyoda A, Fujiyama A, Nozaki H, Smith DR.

Genome Biol Evol. 2018 Sep 1;10(9):2248-2254. doi: 10.1093/gbe/evy175.

12.

The Chara Genome: Secondary Complexity and Implications for Plant Terrestrialization.

Nishiyama T, Sakayama H, de Vries J, Buschmann H, Saint-Marcoux D, Ullrich KK, Haas FB, Vanderstraeten L, Becker D, Lang D, Vosolsobě S, Rombauts S, Wilhelmsson PKI, Janitza P, Kern R, Heyl A, Rümpler F, Villalobos LIAC, Clay JM, Skokan R, Toyoda A, Suzuki Y, Kagoshima H, Schijlen E, Tajeshwar N, Catarino B, Hetherington AJ, Saltykova A, Bonnot C, Breuninger H, Symeonidi A, Radhakrishnan GV, Van Nieuwerburgh F, Deforce D, Chang C, Karol KG, Hedrich R, Ulvskov P, Glöckner G, Delwiche CF, Petrášek J, Van de Peer Y, Friml J, Beilby M, Dolan L, Kohara Y, Sugano S, Fujiyama A, Delaux PM, Quint M, Theißen G, Hagemann M, Harholt J, Dunand C, Zachgo S, Langdale J, Maumus F, Van Der Straeten D, Gould SB, Rensing SA.

Cell. 2018 Jul 12;174(2):448-464.e24. doi: 10.1016/j.cell.2018.06.033.

PMID:
30007417
13.

The prehistoric peopling of Southeast Asia.

McColl H, Racimo F, Vinner L, Demeter F, Gakuhari T, Moreno-Mayar JV, van Driem G, Gram Wilken U, Seguin-Orlando A, de la Fuente Castro C, Wasef S, Shoocongdej R, Souksavatdy V, Sayavongkhamdy T, Saidin MM, Allentoft ME, Sato T, Malaspinas AS, Aghakhanian FA, Korneliussen T, Prohaska A, Margaryan A, de Barros Damgaard P, Kaewsutthi S, Lertrit P, Nguyen TMH, Hung HC, Minh Tran T, Nghia Truong H, Nguyen GH, Shahidan S, Wiradnyana K, Matsumae H, Shigehara N, Yoneda M, Ishida H, Masuyama T, Yamada Y, Tajima A, Shibata H, Toyoda A, Hanihara T, Nakagome S, Deviese T, Bacon AM, Duringer P, Ponche JL, Shackelford L, Patole-Edoumba E, Nguyen AT, Bellina-Pryce B, Galipaud JC, Kinaston R, Buckley H, Pottier C, Rasmussen S, Higham T, Foley RA, Lahr MM, Orlando L, Sikora M, Phipps ME, Oota H, Higham C, Lambert DM, Willerslev E.

Science. 2018 Jul 6;361(6397):88-92. doi: 10.1126/science.aat3628.

PMID:
29976827
14.

Molecular Characterization of Eye Pigmentation-Related ABC Transporter Genes in the Ladybird Beetle Harmonia axyridis Reveals Striking Gene Duplication of the white Gene.

Tsuji T, Gotoh H, Morita S, Hirata J, Minakuchi Y, Yaginuma T, Toyoda A, Niimi T.

Zoolog Sci. 2018 Jun;35(3):260-267. doi: 10.2108/zs170166.

PMID:
29882491
15.

Naturally occurring a loss of a giant plasmid from Mycobacterium ulcerans subsp. shinshuense makes it non-pathogenic.

Nakanaga K, Ogura Y, Toyoda A, Yoshida M, Fukano H, Fujiwara N, Miyamoto Y, Nakata N, Kazumi Y, Maeda S, Ooka T, Goto M, Tanigawa K, Mitarai S, Suzuki K, Ishii N, Ato M, Hayashi T, Hoshino Y.

Sci Rep. 2018 May 29;8(1):8218. doi: 10.1038/s41598-018-26425-1.

16.

The genomic landscape at a late stage of stickleback speciation: High genomic divergence interspersed by small localized regions of introgression.

Ravinet M, Yoshida K, Shigenobu S, Toyoda A, Fujiyama A, Kitano J.

PLoS Genet. 2018 May 23;14(5):e1007358. doi: 10.1371/journal.pgen.1007358. eCollection 2018 May.

17.

Development of an in vitro photosafety evaluation method utilizing intracellular ROS production in THP-1 cells.

Toyoda A, Itagaki H.

J Toxicol Sci. 2018;43(4):247-256. doi: 10.2131/jts.43.247.

18.

Development of Implantable Wireless Sensor Nodes for Animal Husbandry and MedTech Innovation.

Lu J, Zhang L, Zhang D, Matsumoto S, Hiroshima H, Maeda R, Sato M, Toyoda A, Gotoh T, Ohkohchi N.

Sensors (Basel). 2018 Mar 26;18(4). pii: E979. doi: 10.3390/s18040979.

19.

Abnormal nuclear morphology is independent of longevity in a zmpste24-deficient fish model of Hutchinson-Gilford progeria syndrome (HGPS).

Tonoyama Y, Shinya M, Toyoda A, Kitano T, Oga A, Nishimaki T, Katsumura T, Oota H, Wan MT, Yip BWP, Helen MOL, Chisada S, Deguchi T, Au DWT, Naruse K, Kamei Y, Taniguchi Y.

Comp Biochem Physiol C Toxicol Pharmacol. 2018 Jul;209:54-62. doi: 10.1016/j.cbpc.2018.03.006. Epub 2018 Mar 19.

20.

Construction of a simple evaluation system for the intestinal absorption of an orally administered medicine using Bombyx mori larvae.

Ichino F, Bono H, Nakazato T, Toyoda A, Fujiyama A, Iwabuchi K, Sato R, Tabunoki H.

Drug Discov Ther. 2018;12(1):7-15. doi: 10.5582/ddt.2018.01004.

21.

Time-Course Transcriptomics Analysis Reveals Key Responses of Submerged Deepwater Rice to Flooding.

Minami A, Yano K, Gamuyao R, Nagai K, Kuroha T, Ayano M, Nakamori M, Koike M, Kondo Y, Niimi Y, Kuwata K, Suzuki T, Higashiyama T, Takebayashi Y, Kojima M, Sakakibara H, Toyoda A, Fujiyama A, Kurata N, Ashikari M, Reuscher S.

Plant Physiol. 2018 Apr;176(4):3081-3102. doi: 10.1104/pp.17.00858. Epub 2018 Feb 23.

PMID:
29475897
22.

Effects of non-purified and semi-purified commercial diets on behaviors, plasma corticosterone levels, and cecum microbiome in C57BL/6J mice.

Toyoda A, Shimonishi H, Sato M, Usuda K, Ohsawa N, Nagaoka K.

Neurosci Lett. 2018 Mar 23;670:36-40. doi: 10.1016/j.neulet.2018.01.025. Epub 2018 Feb 20.

PMID:
29355696
23.

Mining of the Uncharacterized Cytochrome P450 Genes Involved in Alkaloid Biosynthesis in California Poppy Using a Draft Genome Sequence.

Hori K, Yamada Y, Purwanto R, Minakuchi Y, Toyoda A, Hirakawa H, Sato F.

Plant Cell Physiol. 2018 Feb 1;59(2):222-233. doi: 10.1093/pcp/pcx210.

24.

Draft Sequencing of the Heterozygous Diploid Genome of Satsuma (Citrus unshiu Marc.) Using a Hybrid Assembly Approach.

Shimizu T, Tanizawa Y, Mochizuki T, Nagasaki H, Yoshioka T, Toyoda A, Fujiyama A, Kaminuma E, Nakamura Y.

Front Genet. 2017 Dec 5;8:180. doi: 10.3389/fgene.2017.00180. eCollection 2017.

25.

CRISPR/Cas9-based knockouts reveal that CpRLP1 is a negative regulator of the sex pheromone PR-IP in the Closterium peracerosum-strigosum-littorale complex.

Kanda N, Ichikawa M, Ono A, Toyoda A, Fujiyama A, Abe J, Tsuchikane Y, Nishiyama T, Sekimoto H.

Sci Rep. 2017 Dec 19;7(1):17873. doi: 10.1038/s41598-017-18251-8.

26.

Evolution of sequence-specific anti-silencing systems in Arabidopsis.

Hosaka A, Saito R, Takashima K, Sasaki T, Fu Y, Kawabe A, Ito T, Toyoda A, Fujiyama A, Tarutani Y, Kakutani T.

Nat Commun. 2017 Dec 18;8(1):2161. doi: 10.1038/s41467-017-02150-7.

27.

Enhancer adoption caused by genomic insertion elicits interdigital Shh expression and syndactyly in mouse.

Mouri K, Sagai T, Maeno A, Amano T, Toyoda A, Shiroishi T.

Proc Natl Acad Sci U S A. 2018 Jan 30;115(5):1021-1026. doi: 10.1073/pnas.1713339115. Epub 2017 Dec 18.

28.

Molecular insights into the non-recombining nature of the spinach male-determining region.

Kudoh T, Takahashi M, Osabe T, Toyoda A, Hirakawa H, Suzuki Y, Ohmido N, Onodera Y.

Mol Genet Genomics. 2018 Apr;293(2):557-568. doi: 10.1007/s00438-017-1405-2. Epub 2017 Dec 8.

PMID:
29222702
29.

Effect of methyl p-hydroxybenzoate on the culture of mammalian cell.

Tani H, Takeshita JI, Aoki H, Nakamura K, Abe R, Toyoda A, Endo Y, Miyamoto S, Gamo M, Torimura M, Sato H.

Drug Discov Ther. 2017;11(5):276-280. doi: 10.5582/ddt.2017.01054.

30.

Complete Genome Sequence of Super Biofilm-Elaborating Staphylococcus aureus Isolated in Japan.

Yu L, Hisatsune J, Hirakawa H, Mizumachi E, Toyoda A, Yahara K, Sugai M.

Genome Announc. 2017 Oct 12;5(41). pii: e01043-17. doi: 10.1128/genomeA.01043-17.

31.

Chromosomal Aneuploidy Improves the Brewing Characteristics of Sake Yeast.

Kadowaki M, Fujimaru Y, Taguchi S, Ferdouse J, Sawada K, Kimura Y, Terasawa Y, Agrimi G, Anai T, Noguchi H, Toyoda A, Fujiyama A, Akao T, Kitagaki H.

Appl Environ Microbiol. 2017 Dec 1;83(24). pii: e01620-17. doi: 10.1128/AEM.01620-17. Print 2017 Dec 15.

32.

Genomic structure and evolution of the mating type locus in the green seaweed Ulva partita.

Yamazaki T, Ichihara K, Suzuki R, Oshima K, Miyamura S, Kuwano K, Toyoda A, Suzuki Y, Sugano S, Hattori M, Kawano S.

Sci Rep. 2017 Sep 15;7(1):11679. doi: 10.1038/s41598-017-11677-0.

33.

Development of a modified 3T3 Neutral Red Uptake Phototoxicity Test protocol for evaluation of poorly water-soluble substances.

Toyoda A, Sugiyama M, Furihata S, Nishizumi K, Omori T, Itagaki H.

J Toxicol Sci. 2017;42(5):569-577. doi: 10.2131/jts.42.569.

34.

Genomic Characteristics of Bifidobacterium thermacidophilum Pig Isolates and Wild Boar Isolates Reveal the Unique Presence of a Putative Mobile Genetic Element with tetW for Pig Farm Isolates.

Tsuchida S, Maruyama F, Ogura Y, Toyoda A, Hayashi T, Okuma M, Ushida K.

Front Microbiol. 2017 Aug 15;8:1540. doi: 10.3389/fmicb.2017.01540. eCollection 2017.

35.

Effects of combined treatment with fermented soybean (natto) intake and exercise on bone metabolism in ovariectomized rats.

Kawano M, Itomine I, Monma M, Asakawa K, Toyoda A, Miyaguchi Y.

SAGE Open Med. 2017 Aug 14;5:2050312117725643. doi: 10.1177/2050312117725643. eCollection 2017.

36.

Identification of RNA biomarkers for chemical safety screening in mouse embryonic stem cells using RNA deep sequencing analysis.

Tani H, Takeshita JI, Aoki H, Nakamura K, Abe R, Toyoda A, Endo Y, Miyamoto S, Gamo M, Sato H, Torimura M.

PLoS One. 2017 Jul 27;12(7):e0182032. doi: 10.1371/journal.pone.0182032. eCollection 2017.

37.

Speech-like orofacial oscillations in stump-tailed macaque (Macaca arctoides) facial and vocal signals.

Toyoda A, Maruhashi T, Malaivijitnond S, Koda H.

Am J Phys Anthropol. 2017 Oct;164(2):435-439. doi: 10.1002/ajpa.23276. Epub 2017 Jul 6.

PMID:
28681947
38.

High-dose intravenous lipid emulsion affecting successful initiation of continuous venovenous hemofiltration and extracorporeal membrane oxygenation.

Sin JH, Tom A, Toyoda A, Roy N, Hayes BD.

Clin Toxicol (Phila). 2018 Feb;56(2):149-150. doi: 10.1080/15563650.2017.1341633. Epub 2017 Jul 6. No abstract available.

PMID:
28681624
39.

Genome-wide association study and genomic prediction in citrus: Potential of genomics-assisted breeding for fruit quality traits.

Minamikawa MF, Nonaka K, Kaminuma E, Kajiya-Kanegae H, Onogi A, Goto S, Yoshioka T, Imai A, Hamada H, Hayashi T, Matsumoto S, Katayose Y, Toyoda A, Fujiyama A, Nakamura Y, Shimizu T, Iwata H.

Sci Rep. 2017 Jul 5;7(1):4721. doi: 10.1038/s41598-017-05100-x.

40.

Reduction in chromosome mobility accompanies nuclear organization during early embryogenesis in Caenorhabditis elegans.

Arai R, Sugawara T, Sato Y, Minakuchi Y, Toyoda A, Nabeshima K, Kimura H, Kimura A.

Sci Rep. 2017 Jun 16;7(1):3631. doi: 10.1038/s41598-017-03483-5.

41.

Social defeat models in animal science: What we have learned from rodent models.

Toyoda A.

Anim Sci J. 2017 Jul;88(7):944-952. doi: 10.1111/asj.12809. Epub 2017 Apr 24. Review.

42.

Effects of Diet Quality and Psychosocial Stress on the Metabolic Profiles of Mice.

Goto T, Tomonaga S, Toyoda A.

J Proteome Res. 2017 May 5;16(5):1857-1867. doi: 10.1021/acs.jproteome.6b00859. Epub 2017 Apr 3.

PMID:
28332841
43.

Discovery and Complete Genome Sequence of a Bacteriophage from an Obligate Intracellular Symbiont of a Cellulolytic Protist in the Termite Gut.

Pramono AK, Kuwahara H, Itoh T, Toyoda A, Yamada A, Hongoh Y.

Microbes Environ. 2017 Jun 24;32(2):112-117. doi: 10.1264/jsme2.ME16175. Epub 2017 Mar 17.

44.

DNApod: DNA polymorphism annotation database from next-generation sequence read archives.

Mochizuki T, Tanizawa Y, Fujisawa T, Ohta T, Nikoh N, Shimizu T, Toyoda A, Fujiyama A, Kurata N, Nagasaki H, Kaminuma E, Nakamura Y.

PLoS One. 2017 Feb 24;12(2):e0172269. doi: 10.1371/journal.pone.0172269. eCollection 2017.

45.

Gene-body chromatin modification dynamics mediate epigenome differentiation in Arabidopsis.

Inagaki S, Takahashi M, Hosaka A, Ito T, Toyoda A, Fujiyama A, Tarutani Y, Kakutani T.

EMBO J. 2017 Apr 13;36(8):970-980. doi: 10.15252/embj.201694983. Epub 2017 Jan 18.

46.

Identification of functional enolase genes of the silkworm Bombyx mori from public databases with a combination of dry and wet bench processes.

Kikuchi A, Nakazato T, Ito K, Nojima Y, Yokoyama T, Iwabuchi K, Bono H, Toyoda A, Fujiyama A, Sato R, Tabunoki H.

BMC Genomics. 2017 Jan 13;18(1):83. doi: 10.1186/s12864-016-3455-y.

47.

Different contributions of local- and distant-regulatory changes to transcriptome divergence between stickleback ecotypes.

Ishikawa A, Kusakabe M, Yoshida K, Ravinet M, Makino T, Toyoda A, Fujiyama A, Kitano J.

Evolution. 2017 Mar;71(3):565-581. doi: 10.1111/evo.13175. Epub 2017 Feb 2.

PMID:
28075479
48.

An acid-tolerant ammonia-oxidizing γ-proteobacterium from soil.

Hayatsu M, Tago K, Uchiyama I, Toyoda A, Wang Y, Shimomura Y, Okubo T, Kurisu F, Hirono Y, Nonaka K, Akiyama H, Itoh T, Takami H.

ISME J. 2017 May;11(5):1130-1141. doi: 10.1038/ismej.2016.191. Epub 2017 Jan 10.

49.

Complete genome sequence and expression profile of the commercial lytic enzyme producer Lysobacter enzymogenes M497-1.

Takami H, Toyoda A, Uchiyama I, Itoh T, Takaki Y, Arai W, Nishi S, Kawai M, Shin-Ya K, Ikeda H.

DNA Res. 2017 Apr 1;24(2):169-177. doi: 10.1093/dnares/dsw055.

50.

Extremely Low Genomic Diversity of Rickettsia japonica Distributed in Japan.

Akter A, Ooka T, Gotoh Y, Yamamoto S, Fujita H, Terasoma F, Kida K, Taira M, Nakadouzono F, Gokuden M, Hirano M, Miyashiro M, Inari K, Shimazu Y, Tabara K, Toyoda A, Yoshimura D, Itoh T, Kitano T, Sato MP, Katsura K, Mondal SI, Ogura Y, Ando S, Hayashi T.

Genome Biol Evol. 2017 Jan 1;9(1):124-133. doi: 10.1093/gbe/evw304.

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