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Published Papers(2023)

List of papers published by users January 1st, 2023 -- December 31st, 2023

Papers compiled at the end-of-year renewal in 2023

Supercomputer users in authors list(Japanese)Supercomputer users in authors listTitleJournal, Volume, Number, PagesPMIDDOI
1安井 康夫Yasuo YasuiChromosome-scale genome assembly of a Japanese chili pepper landrace, Capsicum annuum 'Takanotsume'.DNA Res. 2023 Feb 01; 30(1): dsac052.36566389doi: 10.1093/dnares/dsac052
2清水 元樹Motoki ShimizuIsolation of Pikps, an allele of Pik, from the aus rice cultivar Shoni.Genes Genet Syst. 2023 Feb 22; 97(5): 229-235.36624071doi: 10.1266/ggs.22-00002
3濱田 太立, 奥野 友介Motoharu Hamada, Yusuke OkunoGermline and somatic RUNX1 variants in a pediatric bone marrow failure cohort.Am J Hematol. 2023 May; 98(5): E102-E105.36740830doi: 10.1002/ajh.26874
4谷澤 靖洋YasuhiroTanizawaGenome Sequence and Analysis of Nicotiana benthamiana, the Model Plant for Interactions between Organisms.Plant Cell Physiol. 2023 Mar 01; 64(2): 248-257.36755428doi: 10.1093/pcp/pcac168
5村上 正志Masashi MurakamiEffect of light conditions on trophic level and gene expression of partially mycoheterotrophic orchid, Cymbidium goeringii.Plant Signal Behav. 2023 Dec 31; 18(1): 2180159.36800921doi: 10.1080/15592324.2023.2180159
6奥野 友介Yusuke OkunoJuvenile Hemochromatosis With Non-transfused Hemolytic Anemia Caused by a De Novo PIEZO1 Gene Mutation.J Pediatr Hematol Oncol. 2023 May 01; 45(4): e510-e513.36898020doi: 10.1097/MPH.0000000000002639
7石崎 公庸Kimitsune IshizakiAbscisic acid-mediated sugar responses are essential for vegetative desiccation tolerance in the liverwort Marchantia polymorpha.Physiol Plant. 2023 Mar; 175(2): e13898.36974502doi: 10.1111/ppl.13898
8谷澤 靖洋Yasuhiro TanizawaA leaf-emanated signal orchestrates grain size and number in response to maternal resources.Plant J. 2023 Jul; 115(1): 175-189.36994645doi: 10.1111/tpj.16219
9中川 草So NakagawaDynamic Evolution of Retroviral Envelope Genes in Egg-Laying Mammalian Genomes.Mol Biol Evol. 2023 May 02; 40(5): msad090.37062963doi: 10.1093/molbev/msad090
10田中 龍聖Ryusei TanakaDifferentially Expressed Genes Associated with Body Size Changes and Transposable Element Insertions between Caenorhabditis elegans and Its Sister Species, Caenorhabditis inopinata.Genome Biol Evol. 2023 Apr 06; 15(4): evad063.37071793doi: 10.1093/gbe/evad063
11松本 有樹修, 市原 知哉Akinobu Matsumoto, Kazuya IchiharaRPL3L-containing ribosomes determine translation elongation dynamics required for cardiac function.Nat Commun. 2023 Apr 20; 14(1): 2131.37080962doi: 10.1038/s41467-023-37838-6
12松本 有樹修, 市原 知哉Akinobu Matsumoto, Kazuya IchiharaThe ASC-1 complex promotes translation initiation by scanning ribosomes.EMBO J. 2023 Jun 15; 42(12): e112869.37092320doi: 10.15252/embj.2022112869
13今村 比呂志Hiroshi ImamuraGetting Smaller by Denaturation: Acid-Induced Compaction of Antibodies.J Phys Chem Lett. 2023 Apr 27; 14(16): 3898-3906.37093025doi: 10.1021/acs.jpclett.3c00258
14小林 寿美, 谷澤 靖洋, 遠野 雅徳Hisami Kobayashi, Yasuhiro Tanizawa, Masanori TohnoClostridium folliculivorans sp. nov., isolated from soil samples of an organic paddy in Japan.Int J Syst Evol Microbiol. 2023 Apr; 73(4):37103467doi: 10.1099/ijsem.0.005876
15岡田 萌子Moeko OkadaPhenotypic effects of Am genomes in nascent synthetic hexaploids derived from interspecific crosses between durum and wild einkorn wheat.PLoS One. 2023; 18(4): e0284408.37104480doi: 10.1371/journal.pone.0284408
16川崎 純菜Junna KawasakiFeline Foamy Virus Transmission in Tsushima Leopard Cats (Prionailurus bengalensis euptilurus) on Tsushima Island, Japan.Viruses. 2023 Mar 24; 15(4): 835.37112816doi: 10.3390/v15040835
17押木 守Mamoru OshikiOxygen tolerance and detoxification mechanisms of highly enriched planktonic anaerobic ammonium-oxidizing (anammox) bacteria.ISME Commun. 2023 May 03; 3(1): 45.37137967doi: 10.1038/s43705-023-00251-7
18石原 慎矢Ishihara ShinyaDetection of long terminal repeat loci derived from endogenous retrovirus in junglefowl using whole-genome sequencing.Sci Rep. 2023 May 06; 13(1): 7380.37149699doi: 10.1038/s41598-023-34520-1
19吉田 真明Masaaki YoshidaDeep ocean water alters the cholesterol and mineral metabolism of squid Todarodes pacificus and suppresses its weight loss.Sci Rep. 2023 May 10; 13(1): 7591.37164992doi: 10.1038/s41598-023-34443-x
20岩上 哲史Satoshi IwakamiTranscriptionally linked simultaneous overexpression of P450 genes for broad-spectrum herbicide resistance.Plant Physiol. 2023 Aug 03; 192(4): 3017-3029.37195199doi: 10.1093/plphys/kiad286
21飯塚 康介Kosuke IizukaSingularity response reveals entrainment properties in mammalian circadian clock.Nat Commun. 2023 May 17; 14(1): 2819.37198169doi: 10.1038/s41467-023-38392-x
22弓本 佳苗Kanae YumimotoMolecular evolution of Keap1 was essential for adaptation of vertebrates to terrestrial life.Sci Adv. 2023 May 19; 9(20): eadg2379.37205751doi: 10.1126/sciadv.adg2379
23細木 拓也Takuya HosokiPlate reduction in southern Japanese freshwater populations of threespine stickleback (Gasterosteus aculeatus).Ecol Evol. 2023 May; 13(5): e10077.37206690doi: 10.1002/ece3.10077
24加藤 有己Yuki KatoRNA editing of AZIN1 coding sites is catalyzed by ADAR1 p150 after splicing.J Biol Chem. 2023 Jul; 299(7): 104840.37209819doi: 10.1016/j.jbc.2023.104840
25奥野 友介Yusuke OkunoKLK11 ichthyosis: large truncal hyperkeratotic pigmented plaques underscore a distinct autosomal dominant disorder of cornification.Br J Dermatol. 2023 Jul 07; 189(1): 134-136.36689511doi: 10.1093/bjd/ljad082
26原 雄一郎, 工樂 樹洋Yuichiro Hara, Shigehiro KurakuThe impact of local genomic properties on the evolutionary fate of genes.Elife. 2023 May 24; 12: e82290.37223962doi: 10.7554/eLife.82290
27竹崎 直子Naoko TakezakiEffect of Different Types of Sequence Data on Palaeognath Phylogeny.Genome Biol Evol. 2023 Jun 01; 15(6): evad092.37227001doi: 10.1093/gbe/evad092
28佐藤 健吾Kengo SatoRecent trends in RNA informatics: a review of machine learning and deep learning for RNA secondary structure prediction and RNA drug discovery.Brief Bioinform. 2023 Jul 20; 24(4): bbad186.37232359doi: 10.1093/bib/bbad186
29Bui Hoang PhucBui Hoang PhucComparative genomics of two Vietnamese Helicobacter pylori strains, CHC155 from a non-cardia gastric cancer patient and VN1291 from a duodenal ulcer patient.Sci Rep. 2023 May 31; 13(1): 8869.37258611doi: 10.1038/s41598-023-35527-4
30Kartika Afrida FauziaKartika Afrida FauziaGenetic determinants of Biofilm formation of Helicobacter pylori using whole-genome sequencing.BMC Microbiol. 2023 Jun 01; 23(1): 159.37264297doi: 10.1186/s12866-023-02889-8
31角谷 徹仁Tetsuji KakutaniArms race between anti-silencing and RdDM in noncoding regions of transposable elements.EMBO Rep. 2023 Aug 03; 24(8): e56678.37272687doi: 10.15252/embr.202256678
32嶋田 誠Makoto ShimadaSplicing Modulators Are Involved in Human Polyglutamine Diversification via Protein Complexes Shuttling between Nucleus and Cytoplasm.Int J Mol Sci. 2023 Jun 01; 24(11): 9622.37298574doi: 10.3390/ijms24119622
33前野 慎太朗, 遠藤 明仁Shintaro Maeno, Akihito EndoSpore-forming properties and enhanced oxygen tolerance of butyrate-producing Anaerostipes spp.Anaerobe. 2023 Aug; 82: 102752.37301503doi: 10.1016/j.anaerobe.2023.102752
34関根 光太郎, 小野口 真広Kotaro Sekine, Masahiro OnoguchiTransposons contribute to the acquisition of cell type-specific cis-elements in the brain.Commun Biol. 2023 Jun 10; 6(1): 631.37301950doi: 10.1038/s42003-023-04989-7
35奥野 友介Yusuke OkunoHematological abnormalities in Jacobsen syndrome: cytopenia of varying severities and morphological abnormalities in peripheral blood and bone marrow.Haematologica. 2023 Dec 01; 108(12): 3438-3443.37317839doi: 10.3324/haematol.2022.282513
36鈴木 郁夫Ikuo SuzukiCo-culture system of human skin equivalents with mouse neural spheroids.J Biosci Bioeng. 2023 Sep; 136(3): 239-245.37344278doi: 10.1016/j.jbiosc.2023.05.008
37西山 智明Tomoaki NISHIYAMAExtensive Copy Number Variation Explains Genome Size Variation in the Unicellular Zygnematophycean Alga, Closterium peracerosum-strigosum-littorale Complex.Genome Biol Evol. 2023 Aug 01; 15(8): evad115.37348049doi: 10.1093/gbe/evad115
38中村 恭菜Yasuna NakamuraAlpha 7 nicotinic acetylcholine receptors signaling boosts cell-cell interactions in macrophages effecting anti-inflammatory and organ protection.Commun Biol. 2023 Jun 23; 6(1): 666.37353597doi: 10.1038/s42003-023-05051-2
39三宅 浩太郎, 加藤 有己Kotaro Miyake, Yuki KatoA cancer-associated METTL14 mutation induces aberrant m6A modification, affecting tumor growth.Cell Rep. 2023 Jul 25; 42(7): 112688.37355987doi: 10.1016/j.celrep.2023.112688
40内田 大賀, 新里 宙也Taiga Uchida, Chuya ShinzatoGenomic and transcriptomic analyses illuminate the molecular basis of the unique lifestyle of a tubeworm, Lamellibrachia satsuma.DNA Res. 2023 Aug 01; 30(4): dsad014.37358253doi: 10.1093/dnares/dsad014
41水口 洋平, 豊田 敦Yohei Minakuchi, Atsushi ToyodaExpanded male sex-determining region conserved during the evolution of homothallism in the green alga Volvox.iScience. 2023 Jun 16; 26(6): 106893.37720107doi: 10.1016/j.isci.2023.106893
42川久保 修佑Shusuke KawakuboTwo mutually exclusive evolutionary scenarios for allexiviruses that overcome host RNA silencing and autophagy by regulating viral CRP expression.PLoS Pathog. 2023 Jun; 19(6): e1011457.37379324doi: 10.1371/journal.ppat.1011457
43安井 康夫Yasuo YasuiDevelopment and chromosomal characterization of interspecific hybrids between common buckwheat (Fagopyrum esculentum) and a related perennial species (F. cymosum).Breed Sci. 2023 Apr; 73(2): 230-236.37404347doi: 10.1270/jsbbs.22063
44Bui Hoang PhucBui Hoang PhucCorrigendum: 'Genome-wide association study of gastric cancer- and duodenal ulcer-derived Helicobacter pylori strains reveals discriminatory genetic variations and novel oncoprotein candidates'.Microb Genom. 2023 Jul; 9(7): mgen001062.37410636doi: 10.1099/mgen.0.001062
45岡 香織Kaori OkaCellular senescence induction leads to progressive cell death via the INK4a-RB pathway in naked mole-rats.EMBO J. 2023 Aug 15; 42(16): e111133.37431790doi: 10.15252/embj.2022111133
46足助 聡一郎Soichiro AsukeLoss of PWT7, Located on a Supernumerary Chromosome, Is Associated with Parasitic Specialization of Pyricularia oryzae on Wheat.Mol Plant Microbe Interact. 2023 Nov; 36(11): 716-725.37432132doi: 10.1094/MPMI-06-23-0078-R
47岡田 萌子Moeko OkadaA low-coverage 3' RNA-seq to detect homeolog expression in polyploid wheat.NAR Genom Bioinform. 2023 Sep; 5(3): lqad067.37448590doi: 10.1093/nargab/lqad067
48松波 雅俊Masatoshi MatsunamiDemographic history of Ryukyu islanders at the southern part of the Japanese Archipelago inferred from whole-genome resequencing data.J Hum Genet. 2023 Nov; 68(11): 759-767.37468573doi: 10.1038/s10038-023-01180-y
49大野 翔Sho OhnoBpCYP76AD15 is involved in betaxanthin biosynthesis in bougainvillea callus.Planta. 2023 Jul 20; 258(2): 47.37474871doi: 10.1007/s00425-023-04202-3
50西原 秀典Hidenori NishiharaKangaroo endogenous retrovirus (KERV) forms megasatellite DNA with a simple repetition pattern in which the provirus structure is retained.Virology. 2023 Sep; 586: 56-66.37487326doi: 10.1016/j.virol.2023.07.005
51中村 保一Yasukazu NakamuraLarge-scale epidemiological study on feline autosomal dominant polycystic kidney disease and identification of novel PKD1 gene variants.J Feline Med Surg. 2023 Jul; 25(7): 1098612X231185393.37489504doi: 10.1177/1098612X231185393
52Kartika Afrida FauziaKartika Afrida FauziaA single-nucleotide polymorphism in Helicobacter pylori promotes gastric cancer development.Cell Host Microbe. 2023 Aug 09; 31(8): 1345-1358.e6.37949252doi: 10.1016/j.chom.2023.06.016
53原 雄一郎, 川路 英哉Kawaji Hideya, Yuichiro HaraPLA2G2E-mediated lipid metabolism triggers brain-autonomous neural repair after ischemic stroke.Neuron. 2023 Oct 04; 111(19): 2995-3010.e9.37797578doi: 10.1016/j.neuron.2023.06.024
54草間 和哉Kazuya KusamaGlobal analyses and potential effects of extracellular vesicles on the establishment of conceptus implantation during the peri-implantation period.J Reprod Dev. 2023 Oct 20; 69(5): 246-253.37495510doi: 10.1262/jrd.2023-044
55佐藤 大気Daiki SatoGenomic adaptive potential to cold environments in the invasive red swamp crayfish.iScience. 2023 Aug 18; 26(8): 107267.37520695doi: 10.1016/j.isci.2023.107267
56安本 周平Shuhei YasumotoForeign DNA detection in genome-edited potatoes by high-throughput sequencing.Sci Rep. 2023 Aug 09; 13(1): 12246.37558681doi: 10.1038/s41598-023-38897-x
57Fawcett Jeffrey, 矢﨑 裕規, 竹内 直子, 大田 竜也, 安井 康夫Jeffrey Fawcett, Euki Yazaki, Naoko Takeuchi, Tatsuya Ota, Yasuo YasuiGenome sequencing reveals the genetic architecture of heterostyly and domestication history of common buckwheat.Nat Plants. 2023 Aug; 9(8): 1236-1251.37563460doi: 10.1038/s41477-023-01474-1
58丹野 広貴 遠藤 明仁Hiroki Tanno, Akihito EndoFaecalibacterium hominis Liu et al. 2023 is a later heterotypic synonym of Faecalibacterium duncaniae Sakamoto et al. 2022.Int J Syst Evol Microbiol. 2023 Aug; 73(8):37566461doi: 10.1099/ijsem.0.005995
59イワサキ タケシTakeshi IwasakiClinical significance of the expression of FOXP3 and TIGIT in Merkel cell carcinoma.Sci Rep. 2023 Aug 12; 13(1): 13114.37573372doi: 10.1038/s41598-023-40050-7
60工樂 樹洋Shigehiro KurakuElasmobranch genome sequencing reveals evolutionary trends of vertebrate karyotype organization.Genome Res. 2023 Sep; 33(9): 1527-1540.37591668doi: 10.1101/gr.276840.122
61石井 悠, 丸山 真一朗Yuu Ishii, Shinichiro MaruyamaEnvironmental pH signals the release of monosaccharides from cell wall in coral symbiotic alga.Elife. 2023 Aug 18; 12: e80628.37594170doi: 10.7554/eLife.80628
62小林 安文, 安井 康夫, 藤田 泰成Yasufumi Kobayashi, Yasui Yasuo, Yasunari FujitaPhosphate starvation response precedes abscisic acid response under progressive mild drought in plants.Nat Commun. 2023 Aug 19; 14(1): 5047.37598175doi: 10.1038/s41467-023-40773-1
63晝間 敬, 青木 誠志郎Hiruma Kei, Aoki SeishiroA fungal sesquiterpene biosynthesis gene cluster critical for mutualist-pathogen transition in Colletotrichum tofieldiae.Nat Commun. 2023 Sep 06; 14(1): 5288.37673872doi: 10.1038/s41467-023-40867-w
64越水 静Shizuka KoshimizuGenome and transcriptome analyses reveal genes involved in the formation of fine ridges on petal epidermal cells in Hibiscus trionum.DNA Res. 2023 Oct 01; 30(5): dsad019.37691489doi: 10.1093/dnares/dsad019
65川久保 修佑Shusuke KawakuboHost-specific adaptation drove the coevolution of leek yellow stripe virus and Allium plants.Microbiol Spectr. 2023 Sep 14; 11(5): e0234023.37706684doi: 10.1128/spectrum.02340-23
66郷 康広Yasuhiro GoGhost introgression in ricefishes of the genus Adrianichthys in an ancient Wallacean lake.J Evol Biol. 2023 Oct; 36(10): 1484-1493.37737547doi: 10.1111/jeb.14223
67鄒 兆南, 沖 真弥Shinya Oki, Zhaonan ZouElucidating disease-associated mechanisms triggered by pollutants via the epigenetic landscape using large-scale ChIP-Seq data.Epigenetics Chromatin. 2023 Sep 25; 16(1): 34.37743474doi: 10.1186/s13072-023-00510-w
68北川 瑶子Yohko KitagawaZEB2 and MEIS1 independently contribute to hematopoiesis via early hematopoietic enhancer activation.iScience. 2023 Oct 20; 26(10): 107893.37771659doi: 10.1016/j.isci.2023.107893
69上野 将也, 小林 昌彦Masaya Ueno, Masahiko KobayashiTargeting cis-regulatory elements of FOXO family is a novel therapeutic strategy for induction of leukemia cell differentiation.Cell Death Dis. 2023 Sep 29; 14(9): 642.37773170doi: 10.1038/s41419-023-06168-2
70花田 耕介Kousuke HanadaExpression profiles in knock-down transgenic plants of high and low diversified duplicate genes in Arabidopsis thaliana.Genes Genet Syst. 2023 Nov 21; 98(5): 283-286.37779055doi: 10.1266/ggs.23-00019
71若宮 健, 河田 雅圭Takeshi Wakamiya, Masakado KawataGenetic differentiation and local adaptation of the Japanese honeybee, Apis cerana japonica.Ecol Evol. 2023 Oct; 13(10): e10573.37780082doi: 10.1002/ece3.10573
72石崎 公庸Kimitsune IshizakiPhosphatidic acid phosphohydrolase modulates glycerolipid synthesis in Marchantia polymorpha and is crucial for growth under both nutrient-replete and -deficient conditions.Planta. 2023 Oct 04; 258(5): 92.37792042doi: 10.1007/s00425-023-04247-4
73下川 瑛太, 西浜 竜一Eita Shimokawa, Ryuichi NishihamaHarnessing Deep Learning to Analyze Cryptic Morphological Variability of Marchantia polymorpha.Plant Cell Physiol. 2023 Dec 06; 64(11): 1343-1355.37797211doi: 10.1093/pcp/pcad117
74望月 孝子, 谷澤 靖洋, 中村 保一Takako Mochizuki, Yasuhiro Tanizawa, Yasukazu NakamuraA practical assembly guideline for genomes with various levels of heterozygosity.Brief Bioinform. 2023 Sep 22; 24(6): bbad337.37798248doi: 10.1093/bib/bbad337
75Fujihara ChiharuFujihara ChiharuOmics-Based Mathematical Modeling Unveils Pathogenesis of Periodontitis in an Experimental Murine Model.J Dent Res. 2023 Dec; 102(13): 1468-1477.37800405doi: 10.1177/00220345231196530
76田原 沙絵子, 土屋 貴穂, 尾崎 遼Saeko Tahara, Takaho Tsuchiya, Haruka OzakiTranscription factor-binding k-mer analysis clarifies the cell type dependency of binding specificities and cis-regulatory SNPs in humans.BMC Genomics. 2023 Oct 07; 24(1): 597.37805453doi: 10.1186/s12864-023-09692-9
77鎌田 真由美Mayumi KamadaNetwork-based prediction approach for cancer-specific driver missense mutations using a graph neural network.BMC Bioinformatics. 2023 Oct 10; 24(1): 383.37817080doi: 10.1186/s12859-023-05507-6
78中川 草, 片山 俊明So Nakagawa, Toshiaki KatayamaSARS-CoV-2 HaploGraph: visualization of SARS-CoV-2 haplotype spread in Japan.Genes Genet Syst. 2023 Nov 21; 98(5): 221-237.37839865doi: 10.1266/ggs.23-00085
79郷 康広Yasuhiro GoThe admixed brushtail possum genome reveals invasion history in New Zealand and novel imprinted genes.Nat Commun. 2023 Oct 17; 14(1): 6364.37848431doi: 10.1038/s41467-023-41784-8
80森 秀世, 大矢 恵代, 稲垣 宗一, 角谷 徹仁Shusei Mori, Satoyo Oya, Soichi Inagaki, Tetsuji KakutaniCotranscriptional demethylation induces global loss of H3K4me2 from active genes in Arabidopsis.EMBO J. 2023 Dec 01; 42(23): e113798.37849386doi: 10.15252/embj.2023113798
81新里 宙也Chuya ShinzatoGenes possibly related to symbiosis in early life stages of Acropora tenuis inoculated with Symbiodinium microadriaticum.Commun Biol. 2023 Oct 18; 6(1): 1027.37853100doi: 10.1038/s42003-023-05350-8
82粟津 暁紀Akinori AwazuPossibilities of skin coat color-dependent risks and risk factors of squamous cell carcinoma and deafness of domestic cats inferred via RNA-seq data.Genes Cells. 2023 Dec; 28(12): 893-905.37864512doi: 10.1111/gtc.13076
83久米 慶太郎Keitaro KumeTranscriptome data sets of free-living diplomonads, Trepomonas sp. and Hexamita sp.Microbiol Resour Announc. 2023 Dec 14; 12(12): e0050623.37909738doi: 10.1128/MRA.00506-23
84押木 守Mamoru OshikiGrowth of the Nitrosomonas europaea cells in the biofilm and planktonic growth mode: Responses of extracellular polymeric substances production and transcriptome.J Biosci Bioeng. 2023 Dec; 136(6): 430-437.37925312doi: 10.1016/j.jbiosc.2023.10.002
85前原 秀紀, 土屋 貴穂Hideki Maehahra, Takaho TsuchiyaDNA hypomethylation characterizes genes encoding tissue-dominant functional proteins in liver and skeletal muscle.Sci Rep. 2023 Nov 05; 13(1): 19118.37926704doi: 10.1038/s41598-023-46393-5
86布施 直之Naoyuki FuseNeural control of redox response and microbiota-triggered inflammation in Drosophila gut.Front Immunol. 2023; 14: 1268611.37965334doi: 10.3389/fimmu.2023.1268611
87國枝 武和Takekazu KuniedaConsiderations on the TardiVec-based analyses of tissue specificity and desiccation-induced supramolecular structure of target proteins.Proc Natl Acad Sci U S A. 2023 Nov 28; 120(48): e2312563120.37983508doi: 10.1073/pnas.2312563120
88石黒 健介Kensuke IshiguroGlycosylated queuosines in tRNAs optimize translational rate and post-embryonic growth.Cell. 2023 Dec 07; 186(25): 5517-5535.e24.37992713doi: 10.1016/j.cell.2023.10.026
89福島 健児Kenji FukushimaSubgenome dominance shapes novel gene evolution in the decaploid pitcher plant Nepenthes gracilis.Nat Plants. 2023 Dec; 9(12): 2000-2015.37996655doi: 10.1038/s41477-023-01562-2
90原田 亮Ryo HaradaGleaning Euglenozoa-specific DNA polymerases in public single-cell transcriptome data.Protist. 2023 Dec; 174(6): 125997.38039844doi: 10.1016/j.protis.2023.125997
91加藤 柊也, 平瀬 祥太朗Shuya Kato, Shotaro HiraseGenomic landscape of introgression from the ghost lineage in a gobiid fish uncovers the generality of forces shaping hybrid genomes.Mol Ecol. 2023 Dec 04; null:38047388doi: 10.1111/mec.17216
92矢原 耕史Koji YaharaNational genomic surveillance integrating standardized quantitative susceptibility testing clarifies antimicrobial resistance in Enterobacterales.Nat Commun. 2023 Dec 05; 14(1): 8046.38278812doi: 10.1038/s41467-023-43516-4
93河合 洋介Yosuke KawaiExploring the genetic diversity of the Japanese population: Insights from a large-scale whole genome sequencing analysis.PLoS Genet. 2023 Dec; 19(12): e1010625.38060463doi: 10.1371/journal.pgen.1010625
94市原 知哉Kazuya IchiharaMechanistic dissection of premature translation termination induced by acidic residues-enriched nascent peptide.Cell Rep. 2023 Dec 26; 42(12): 113569.38071619doi: 10.1016/j.celrep.2023.113569
95岡田 航輝, 根本 理子Kouki Okada, Michiko NemotoNuclear Transformation of the Marine Pennate Diatom Nitzschia sp. Strain NIES-4635 by Multi-Pulse Electroporation.Mar Biotechnol (NY). 2023 Dec; 25(6): 1208-1219.38071657doi: 10.1007/s10126-023-10273-w
96玉川 克典Katsunori TamagawaTranscriptomic signatures associated with underlying rapid changes in the early phase brain of bi-directional sex change in Trimma okinawae.R Soc Open Sci. 2023 Dec; 10(12): 231450.38077214doi: 10.1098/rsos.231450
97小出 陽平Yohei KoideDifferent contributions of PROG1 and TAC1 to the angular kinematics of the main culm and tillers of wild rice (Oryza rufipogon).Planta. 2023 Dec 12; 259(1): 19.38085356doi: 10.1007/s00425-023-04300-2
98近藤 伸二Shinji KondoBRD9 determines the cell fate of hematopoietic stem cells by regulating chromatin state.Nat Commun. 2023 Dec 15; 14(1): 8372.38102116doi: 10.1038/s41467-023-44081-6
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101佐藤 杏香, 五十川 祐一郎Kyoka Sato, Yuichiro IkagawaGenome Sequencing Unveils Nomadic Traits of Lactiplantibacillus plantarum in Japanese Post-Fermented Tea.Curr Microbiol. 2023 Dec 28; 81(1): 52.38155273doi: 10.1007/s00284-023-03566-9
102松田 知成Tomonari MatsudaPrediction of antigen-responding VHH antibodies by tracking the evolution of antibody along the time course of immunization.Front Immunol. 2023; 14: 1335462.38292485doi: 10.3389/fimmu.2023.1335462
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107 花原 望Nozomi HanaharaPositive selection on ADAM10 builds species recognition in the synchronous spawning coral Acropora.Front Cell Dev Biol. 2023; 11: 1171495.37152284doi: 10.3389/fcell.2023.1171495
108辺 遍, 齋藤 裕Bian Bian, Yutaka SaitoVeloPro: A pipeline integrating Ribo-seq and AlphaFold deciphers association patterns between translation velocity and protein structure features.Imeta. 2023 Nov; 2(4): e148.38868219doi: 10.1002/imt2.148
109阿部 陽Akira AbeUpcycling rice yield trial data using a weather-driven crop growth model.Commun Biol. 2023 Jul 21; 6(1): 764.37479731doi: 10.1038/s42003-023-05145-x
110阿部 陽Akira AbeWhole-genome analysis of recombinant inbred rice lines reveals a quantitative trait locus on chromosome 3 with genotype-by-environment interaction effects.G3 (Bethesda). 2023 Jun 01; 13(6): jkad082.37052949doi: 10.1093/g3journal/jkad082
111田崎 啓介Keisuke TasakiProduction of yellow-flowered gentian plants by genetic engineering of betaxanthin pigments.New Phytol. 2023 Nov; 240(3): 1177-1188.37606277doi: 10.1111/nph.19218
112夏目 俊, 阿部 陽Satoshi Natsume, Akira AbeV-primer: software for the efficient design of genome-wide InDel and SNP markers from multi-sample variant call format (VCF) genotyping data.Breed Sci. 2023 Sep; 73(4): 415-420.38106505doi: 10.1270/jsbbs.23018
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117佐久間 敦丈Atsuhiro SakumaExpression of type 1 vomeronasal receptors in the olfactory organ of the African lungfish, Protopterus dolloi.Acta Histochem. 2023 Oct; 125(7): 152078.37540956doi: 10.1016/j.acthis.2023.152078
118西井 かなえKanae NishiiTarget capture and genome skimming for plant diversity studies.Appl Plant Sci. 2023; 11(4): e11537.37601316doi: 10.1002/aps3.11537
119門田 有希Yuki MondenA target cultivar-specific identification system based on the chromatographic printed array strip method for eight prominent Japanese citrus cultivars.Breed Sci. 2023 Apr; 73(2): 146-157.37404354doi: 10.1270/jsbbs.22065
120比嘉 綱己Tsunaki HigaAblation of p57+ Quiescent Cancer Stem Cells Suppresses Recurrence after Chemotherapy of Intestinal Tumors.Cancer Res. 2023 May 02; 83(9): 1393-1409.36880956doi: 10.1158/0008-5472.CAN-22-2578
121木下 恭兵, 秋山 泰身Kyouhei Kinoshita, Taishin AkiyamaAcute irradiation causes a long-term disturbance in the heterogeneity and gene expression profile of medullary thymic epithelial cells.Front Immunol. 2023; 14: 1186154.38022666doi: 10.3389/fimmu.2023.1186154
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123宮原 平Taira MiyaharaA Thermophile-Fermented Compost Modulates Intestinal Cations and the Expression of a Juvenile Hormone-Binding Protein Gene in the Female Larvae of Hercules Beetle Dynastes hercules (Coleoptera: Scarabaeidae).Insects. 2023 Nov 27; 14(12): 910.38132584doi: 10.3390/insects14120910
124Ludivine FierroLudivine FierroMature mRNA processing that deletes 3' end sequences directs translational activation and embryonic development.Sci Adv. 2023 Nov 24; 9(47): eadg6532.38000026doi: 10.1126/sciadv.adg6532
125喜瀬 浩輝Kise HirokiA new hexactinellid-sponge-associated zoantharian (Porifera, Hexasterophora) from the northwestern Pacific Ocean.Zookeys. 2023; 1156: 71-85.37234793doi: 10.3897/zookeys.1156.96698
126濱田 麻友子Mayuko HamadaFbxl4 Regulates the Photic Entrainment of Circadian Locomotor Rhythms in the Cricket Gryllus bimaculatus.Zoolog Sci. 2023 Feb; 40(1): 53-63.36744710doi: 10.2108/zs220047
127福島 健児Kenji FukushimaTranscriptomic heterochrony and completely cleistogamous flower development in the mycoheterotrophic orchid Gastrodia.New Phytol. 2023 Jan; 237(1): 323-338.36110047doi: 1111/nph.18495
128川崎 純菜Junna KawasakiLarge-scale investigation of zoonotic viruses in the era of high-throughput sequencing.Microbiol Immunol. 2023 Jan; 67(1): 1-13.36259224doi: 1111/1348-0421.13033
129花田 耕介Kousuke HanadaA de novo gene originating from the mitochondria controls floral transition in Arabidopsis thaliana.Plant Mol Biol. 2023 Jan; 111(1-2): 189-203.36306001doi: 1007/s11103-022-01320-6
130鈴木 郁夫Ikuo SuzukiCROCCP2 acts as a human-specific modifier of cilia dynamics and mTOR signaling to promote expansion of cortical progenitors.Neuron. 2023 Jan 04; 111(1): 65-80.e6.36334595doi: 1016/j.neuron.2022.doi: 018
131火原 日美子Himiko HibaraCOXPRESdb v8: an animal gene coexpression database navigating from a global view to detailed investigations.Nucleic Acids Res. 2023 Jan 06; 51(D1): D80-D87.36350658doi: 1093/nar/gkac983
132近藤 文哉Fumiya KondoGenetic analysis of pungency deficiency in Japanese chili pepper 'Shishito' (Capsicum annuum) revealed its unique heredity and brought the discovery of two genetic loci involved with the reduction of pungency.Mol Genet Genomics. 2023 Jan; 298(1): 201-212.36374297doi: 1007/s00438-022-01975-2
133田村 啓太, 谷澤 靖洋, 坊農 秀雅Keita Tamura, Yasuhiro Tanizawa, Hidemasa BonoA highly contiguous genome assembly of red perilla (Perilla frutescens) domesticated in Japan.DNA Res. 2023 Feb 01; 30(1): dsac044.36383440doi: 1093/dnares/dsac044
134岩切 淳一Junichi IwakiriRemarkable improvement in detection of readthrough downstream-of-gene transcripts by semi-extractable RNA-sequencing.RNA. 2023 Feb; 29(2): 170-177.36384963doi: 1261/rna.079469.122
135濱田 麻友子Mayuko HamadaDe novo transcriptome analysis of the centrohelid Raphidocystis contractilis to identify genes involved in microtubule-based motility.J Eukaryot Microbiol. 2023 Mar; 70(2): e12955.36409155doi: 1111/jeu.12955
136櫻井 望Nozomu SakuraiThe Thing Metabolome Repository family (XMRs): comparable untargeted metabolome databases for analyzing sample-specific unknown metabolites.Nucleic Acids Res. 2023 Jan 06; 51(D1): D660-D677.36417935doi: 1093/nar/gkac1058
137諏訪 和大Kazuhiro SuwaDNA Data Bank of Japan (DDBJ) update report 2022.Nucleic Acids Res. 2023 Jan 06; 51(D1): D101-D105.36420889doi: 1093/nar/gkac1083
138杉原 由利子, 鈴木 啓道Yuriko Sugihara, Hiromichi SuzukiRecent advances in the molecular understanding of medulloblastoma.Cancer Sci. 2023 Mar; 114(3): 741-749.36520034doi: 1111/cas.15691
139笠原 雅弘, 西山 智明Masahiro Kasahara, Tomoaki NishiyamaA divergent RWP-RK transcription factor determines mating type in heterothallic Closterium.New Phytol. 2023 Mar; 237(5): 1636-1651.36533897doi: 1111/nph.18662
140吉田 直史Naofumi YoshidaDoes selection occur at the intermediate zone of two insufficiently isolated populations? A whole-genome analysis along an altitudinal gradient.J Plant Res. 2023 Mar; 136(2): 183-199.36547771doi: 1007/s10265-022-01429-1
141五味 良太Ryota GomiDevelopment of two microbial source tracking markers for detection of wastewater-associated Escherichia coli isolates.Sci Total Environ. 2023 Mar 15; 864: 160952.36549531doi: 1016/j.scitotenv.2022.160952
142武藤 吉徳Yoshinori MutoIdentification of cfxA gene variants and susceptibility patterns in β-lactamase-producing Prevotella strains.Anaerobe. 2023 Feb; 79: 102688.36580990doi: 1016/j.anaerobe.2022.102688
143井原 邦夫Kunio IiharaTwo Trk/Ktr/HKT-type potassium transporters, TrkG and TrkH, perform distinct functions in Escherichia coli K-12.J Biol Chem. 2023 Feb; 299(2): 102846.36586436doi: 10.1016/j.jbc.2022.102846
144池中 亮裕Akihiro IkenakaSMN promotes mitochondrial metabolic maturation during myogenesis by regulating the MYOD-miRNA axis.Life Sci Alliance. 2023 Mar; 6(3): e202201457.36604149doi: 26508/lsa.202201457
145福島 健児Kenji FukushimaDetecting macroevolutionary genotype-phenotype associations using error-corrected rates of protein convergence.Nat Ecol Evol. 2023 Jan; 7(1): 155-170.36604553doi: 1038/s41559-022-01932-7
146新村 芳人Yoshihito NiimuraGenetic variation in the human olfactory receptor OR5AN1 associates with the perception of musks.Chem Senses. 2023 Jan 01; 48: bjac037.36625229doi: 1093/chemse/bjac037
147今野 直輝, 岩崎 渉Naoki Konno, Wataru IwasakiMachine learning enables prediction of metabolic system evolution in bacteria.Sci Adv. 2023 Jan 13; 9(2): eadc9130.36630500doi: 1126/sciadv.adc9130
148中川 草So NakagawaPotentially reduced fusogenicity of syncytin-2 in New World monkeys.FEBS Open Bio. 2023 Mar; 13(3): 459-467.36647789doi: 1002/2211-5463.13555
149瀬川 高弘Takahiro SegawaEvolution of snow algae, from cosmopolitans to endemics, revealed by DNA analysis of ancient ice.ISME J. 2023 Apr; 17(4): 491-501.36650274doi: 1038/s41396-023-01359-3
150鄒 兆南, 沖 真弥Zhaonan Zou, Shinya OkiCross-ancestry genome-wide analysis of atrial fibrillation unveils disease biology and enables cardioembolic risk prediction.Nat Genet. 2023 Feb; 55(2): 187-197.36653681doi: 1038/s41588-022-01284-9
151阿部 陽Akira AbeDisentangling the complex gene interaction networks between rice and the blast fungus identifies a new pathogen effector.PLoS Biol. 2023 Jan; 21(1): e3001945.36656825doi: 1371/journal.pbio.3001945
152郷 康広Yasuhiro GoGene expression profiling of the masticatory muscle tendons and Achilles tendons under tensile strain in the Japanese macaque Macaca fuscata.PLoS One. 2023; 18(1): e0280649.36656905doi: 1371/journal.pone.0280649
153齋藤 裕,来見田 遥一Yutaka Saito, Yoichi KurumidaSelection of target-binding proteins from the information of weakly enriched phage display libraries by deep sequencing and machine learning.MAbs. 2023; 15(1): 2168470.36683172doi: 1080/19420862.2023.2168470
154湯山 育子,久米 慶太郎Ikuko Yuyama, Keitaro KumeDraft Genome Sequence of Aduncisulcus paluster, a Free-Living Microaerophilic Eukaryote Belonging to the Fornicata.Microbiol Resour Announc. 2023 Feb 16; 12(2): e0053922.36695596doi: 1128/mra.00539-22
155齋藤 裕Yutaka SaitoEngineering the Substrate Specificity of Toluene Degrading Enzyme XylM Using Biosensor XylS and Machine Learning.ACS Synth Biol. 2023 Feb 17; 12(2): 572-582.36734676doi: 1021/acssynbio.2c00577
156生田 達也Tatsuya IkutaIdentification and Functional Characterization of Fungal Chalcone Synthase and Chalcone Isomerase.J Nat Prod. 2023 Feb 24; 86(2): 398-405.36762727doi: 1021/acs.jnatprod.2c01027
157佐藤 あやのAyano SatohFucosyltransferase 8 (FUT8) and core fucose expression in oxidative stress response.PLoS One. 2023; 18(2): e0281516.36780470doi: 1371/journal.pone.0281516
158喜瀬 浩輝Hiroki KiseEvolutionary patterns of host switching, lifestyle mode, and the diversification history in symbiotic zoantharians.Mol Phylogenet Evol. 2023 May; 182: 107732.36781031doi: 1016/j.ympev.2023.107732
159室 智大Tomohiro MuroTwo Complete Genomes of Male-Killing Wolbachia Infecting Ostrinia Moth Species Illuminate Their Evolutionary Dynamics and Association with Hosts.Microb Ecol. 2023 Feb 2236810610doi: 1007/s00248-023-02198-7
160中川 草So NakagawaGenomic diversity of SARS-CoV-2 can be accelerated by mutations in the nsp14 gene.iScience. 2023 Mar 17; 26(3): 106210.36811085doi: 10.1016/j.isci.2023.106210
161張 歓Huan ZhangAn immune-suppressing protein in human endogenous retroviruses.Bioinform Adv. 2023; 3(1): vbad013.36818731doi: 1093/bioadv/vbad013
162Fauzia KartikaFauzia KartikaMutations Related to Antibiotics Resistance in Helicobacter pylori Clinical Isolates from Bangladesh.Antibiotics (Basel). 2023 Jan 31; 12(2): 279.36830189doi: 3390/antibiotics12020279
163望月 孝子,坂本 美佳,谷澤 靖洋Mochizuki Takako, Mika Sakamoto, Yasuhiro TanizawaBest Practices for Comprehensive Annotation of Neuropeptides of Gryllus bimaculatus.Insects. 2023 Jan 25; 14(2): 121.36835690doi: 3390/insects14020121
164佐藤 行人Yukuto SatoMitoFish, MitoAnnotator, and MiFish Pipeline: Updates in 10 Years.Mol Biol Evol. 2023 Mar 04; 40(3): msad035.36857197doi: 1093/molbev/msad035
165山口 陽子Yoko YamaguchiPhylogenetic and functional properties of hagfish neurohypophysial hormone receptors distinct from their jawed vertebrate counterparts.Gen Comp Endocrinol. 2023 May 15; 336: 114257.36868365doi: 1016/j.ygcen.2023.114257
165山口 陽子Yoko YamaguchiPhylogenetic and functional properties of hagfish neurohypophysial hormone receptors distinct from their jawed vertebrate counterparts.Gen Comp Endocrinol. 2023 May 15; 336: 114257.36868365doi: 1016/j.ygcen.2023.114257
166横森 類Rui YokomoriCase report: Genomic analysis of a therapy-related chronic myelomonocytic leukemia with KMT2A rearrangement that progressed to acute myeloid leukemia with acute promyelocytic leukemia-like features.Front Oncol. 2023; 13: 1116418.36874114doi: 3389/fonc.2023.1116418
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168安河内 彦輝Yoshiki YasukchiCold-induced vasodilation response in a Japanese cohort: insights from cold-water immersion and genome-wide association studies.J Physiol Anthropol. 2023 Mar 08; 42(1): 2.36890596doi: 1186/s40101-023-00319-2
169佐久間 敦丈Atsuhiro SakumaType 1 vomeronasal receptor expression in juvenile and adult lungfish olfactory organ.Zoological Lett. 2023 Mar 10; 9(1): 6.36895049doi: 1186/s40851-023-00202-z
170木下 有羽Yu KinoshitaUpregulation of tandem duplicated BoFLC1 genes is associated with the non-flowering trait in Brassica oleracea var. capitata.Theor Appl Genet. 2023 Mar 10; 136(3): 41.36897379doi: 1007/s00122-023-04311-3
171三科 興平Kohei MishinaWheat Ym2 originated from Aegilops sharonensis and confers resistance to soil-borne Wheat yellow mosaic virus infection to the roots.Proc Natl Acad Sci U S A. 2023 Mar 14; 120(11): e2214968120.36897977doi: 1073/pnas.2214968120
172西田 奈央Nao NishidaPrediction Model with HLA-A*33:03 Reveals Number of Days to Develop Liver Cancer from Blood Test.Int J Mol Sci. 2023 Mar 01; 24(5): 4761.36902191doi: 3390/ijms24054761
173植野 和子Kazuko UenoGenome-Wide Association Study and Transcriptome of Japanese Patients with Developmental Dysplasia of the Hip Demonstrates an Association with the Ferroptosis Signaling Pathway.Int J Mol Sci. 2023 Mar 06; 24(5): 5019.36902448doi: 3390/ijms24055019
174草間 和哉Kazuya KusamaExpression of NFIL3 and CEBPA regulated by IFNT induced-PGE2 in bovine endometrial stromal cells during the pre-implantation period.Front Endocrinol (Lausanne). 2023; 14: 1075030.36923228doi: 3389/fendo.2023.1075030
175吉武 和敏Kazutoshi YoshitakePilot study of a comprehensive resource estimation method from environmental DNA using universal D-loop amplification primers.Funct Integr Genomics. 2023 Mar 22; 23(2): 96.36947319doi: 1007/s10142-023-01013-3
176石橋 知彦Tomohiko IshibashiGut dysbiosis is associated with aortic aneurysm formation and progression in Takayasu arteritis.Arthritis Res Ther. 2023 Mar 24; 25(1): 46.36964623doi: 1186/s13075-023-03031-9
177宮原 平Taira MiyaharaOmics Profiles of Non-GM Tubers from Transgrafted Potato with a GM Scion.Food Saf (Tokyo). 2023 Mar; 11(1): 1-20.36970308doi: 14252/foodsafetyfscj.D-22-00010
178張 再軍Zaijun ZhangDeep Learning of Phase-Contrast Images of Cancer Stem Cells Using a Selected Dataset of High Accuracy Value Using Conditional Generative Adversarial Networks.Int J Mol Sci. 2023 Mar 10; 24(6): 5323.36982398doi: 3390/ijms24065323
179丹野 広貴, 遠藤 明仁Hiroki Tanno, Akihito EndoNew gene markers for classification and quantification of Faecalibacterium spp. in the human gut.FEMS Microbiol Ecol. 2023 Apr 07; 99(5): fiad035.36990641doi: 1093/femsec/fiad035
180熊谷 雄太郎, 齋藤 裕Yutaro Kumagai, Yutaka SaitoA Multiomics Atlas of Brown Adipose Tissue Development Over Time.Endocrinology. 2023 Apr 17; 164(6): bqad064.37083724doi: 1210/endocr/bqad064
181小木曽 映里Eri OgisoUnique Salt-Tolerance-Related QTLs, Evolved in Vigna riukiuensis (Na+ Includer) and V. nakashimae (Na+ Excluder), Shed Light on the Development of Super-Salt-Tolerant Azuki Bean (V. angularis) Cultivars.Plants (Basel). 2023 Apr 17; 12(8): 1680.37111908doi: 3390/plants12081680
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