(* Corresponding author; § Equally contributed)

2025

Iimori Y, Morita T, Masuda T, Kitajima S, Kono N, Kageyama S, Galipon J, Sasaki AT, Kanai A (2024) SLFN11-mediated tRNA regulation induces cell death by disrupting proteostasis in response to DNA-damaging agents. bioRxiv, 10.1101/2025.01.08.632070.

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Yamamoto K. P, Takasuka K, Mori M, Masuda T, Kono N* (2025) Non-invasive molecular species identification using spider silk proteomics. Scientific Reports, in press

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Iwai H, Kurihara Y, Kono N, Hojo K. M, Yamaguchi K, Shigenobu S, Ozaki M, Koto A, Arakawa K  (2025) Genome Assembly of the temporary socially parasitic spiny ant Polyrhachis lamellidens and its host Camponotus japonicus. DNA Research, dsaf005. Article

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2024

Yamamoto T, Furukawa A, Zhou Y, Kono N, Kitajima S, Ohguchi H, Kawano Y, Ito S, Araki N, Ohtsuki S, Masuda T (2024) Increased CSN5 expression enhances the sensitivity to lenalidomide in multiple myeloma cells. iScience, 27(12):111399. Article

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Ishiwata C, Yamamoto K. P, Nakamura H, Tanikawa A, Kono N* (2024) The complete mitochondrial genome of Heptathela kimurai (Araneae: Heptathelidae). Mitochondrial DNA Part B, 9(8):1020-1023.

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Masui M, Yamamoto K. P, Kono N* (2024) Allorecognition behaviors in myxomycetes respond to intraspecies factors. Biology Open, 13(7):bio060358. Article

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Nakagawa K§, Ogino K§, Katoh KT, Kono N* (2024) Species Identification of livefood flightless fly (Torinido-shoujoubae) through DNA Barcoding. Ecology and Evolution, 14(7):e11622. Article

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2023

Fujiwara K, Maekawa M, Iimori Y, Ogawa A, Urano T, Kono N, Takeda H, Higashiyama S, Arita M, Murai J (2023) The crucial role of single-stranded DNA binding in enhancing sensitivity to DNA-damaging agents for Schlafen 11 and Schlafen 13. iScience, 26(12):108529.

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Iwai H, Kono N* (2023) Cuticular Hydrocarbon Profiling by Fractionation and GC‒MS in Socially Parasitic Ants. bio-protocol, 13(13):e4772.

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Nakamura H, Kono N*, Mori M, Masunaga H, Numata K, Arakawa K* (2023) Composition of Minor Ampullate Silk Makes Its Properties Different from Those of Major Ampullate Silk. Biomacromolecules, 24(5): 2042-2051.

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2022

Arakawa K§, Kono N§, Malay AD, Tateishi A, Ifuku N, Masunaga H, Sato R, Tsuchiya K, Ohtoshi R, Pedrazzoli D, Shinohara A, Ito Y, Nakamura H, Tanikawa A, Suzuki Y, Ichikawa T, Fujita S, Fujiwara M, Tomita M, Blamires SJ, Chuah JA, Craig H, Foong CP, Greco G, Guan J, Holland C, Kaplan DL, Sudesh K, Mandal BB, Norma-Rashid Y, Oktaviani NA, Preda RC, Pugno NM, Rajkhowa R, Wang X, Yazawa K, Zheng Z, Numata K (2022) 1000 spider silkomes: Linking sequences to silk physical properties. Science Advances, 8(41): eabo6043. Article

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Iwai H, Mori M, Tomita M, Kono N*, Arakawa K (2022) Molecular evidence of chemical disguise by the socially parasitic spiny ant Polyrhachis lamellidens (Hymenoptera: Formicidae) when invading a host colony. Front Ecol Evol, 10: 915517. Article

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Kurihara Y, Iwai H, Kono N*, Tomita M, Arakawa K (2022) Initial parasitic behaviour of the temporary social parasitic ant Polyrhachis lamellidens can be induced by host-like cuticles in laboratory environment. Biology Open, 11 (3): bio058956. Article

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2021

Kono N, Ohtoshi R, Malay AD, Mori M, Masunaga H, Yoshida Y, Nakamura H, Numata K, Arakawa K (2021) Darwin’s bark spider shares a spidroin repertoire with Caerostris extrusa but achieves extraordinary silk toughness through gene expression. Open Biology, 11(12):210242. Article

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Kono N, Nakamura H, Ohtoshi R, Arakawa K (2021), Transcriptomic data during development of a two-spotted cricket Gryllus bimaculatus. Data Brief, 38:107388. Article

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Kono N*, Nakamura H, Arakawa K (2021), The complete mitochondrial genome of Trichonephila clavipes (Araneae: Araneidae). Mitochondrial DNA Part B, 6(10):2986-2988. Article

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Iwai H, Kurihara Y, Kono N*, Tomita M, Arakawa K (2021), The evidence of temporary social parasitism by Polyrhachis lamellidens (Hymenoptera, Formicidae) in a Camponotus obscuripes colony (Hymenoptera, Formicidae). Insectes Sociaux, 68:375-382. Article "Mymecological News Blog"

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Kono N, Nakamura H, Mori M, Yoshida Y, Ohtoshi R, Malay AD, Pedrazzoli-Moran AD, Tomita M, Numata K, Arakawa K (2021) Multicomponent nature underlies the extraordinary mechanical properties of spider dragline silk. Proc Natl Acad Sci U S A, 118(31):e2107065118. Article - PNAS highlight

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Kono N*, Nakamura H, Tateishi A, Numata K, Arakawa K (2021) The balance of crystalline and amorphous regions in the fibroin structure underpins the tensile strength of bagworm silk. Zoological Letters, 7(1):11. Article

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Arakawa K, Mori M, Kono N, Suzuki T, Gotoh T, Shimano S (2021) Proteomic evidence for the silk fibroin genes of spider mites (Order Trombidiformes: Family Tetranychidae). Journal of Proteomics, 239:104195. Article

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Fujiwara M, Kono N, Hirayama A, Malay AD, Nakamura H, Ohtoshi R, Numata K, Tomita M, Arakawa K (2021) Xanthurenic Acid Is the Main Pigment of Trichonephila clavata Gold Dragline Silk. Biomolecules, 11(4):563. Article

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Berger AC, Brewer SM, Kono N, Nakamura H, Arakawa K, Kennedy RS, Wood MH, Adams AS, Gillespie GR (2021) Shifts in morphology, gene expression, and selection underlie web loss in Hawaiian Tetragnatha spiders. BMC Ecology and Evolution, 21(1):48. Article

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2020

Malay A, Suzuki T, Katashima T, Kono N, Arakawa K, Numata K (2020) Spider silk self-assembly via modular liquid-liquid phase separation and nanofibrillation. Science Advances, 6(45):eabb6030. Article

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Kono N*, Nakamura H, Mori M, Tomita M, Arakawa K (2020) Spidroin profiling of cribellate spiders provides insight into the evolution of spider prey capture strategies. Scientific Reports, 10(1):15721. Article

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2019

Masuda T§, Kono N§*, Tomita M, Arakawa K (2019) Strand-specific Single-stranded DNA Sequencing (4S-seq) of E. coli genomes, Bio-protocol, 9(15): e3329. Article

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Kono N, Nakamura H, Ohtoshi R, Pedrazzoli-Moran AD, Shinohara A, Yoshida Y, Fujiwara M, Mori M, Tomita M, Arakawa K (2019) Orb-weaving spider Araneus ventricosus genome elucidates the spidroin gene catalogue, Scientific Reports, 9(1):8380. Article

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Kono N, Nakamura H, Ohtoshi R, Tomita M, Numata K, Arakawa K (2019) The bagworm genome reveals a unique fibroin gene that provides high tensile strength, Communications Biology, 2:148. Article

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Kono N, Arakawa K (2019) Nanopore sequencing: review of potential applications in functional genomics, Development Growth and Differentiation, 61(5):316-326. Article

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Ii MK, Kono N, Paulino-Lima IG, Tomita M, Rothschild LJ, Arakawa K (2019) Complete genome sequence of Arthrobacter sp. Strain MN05-02, a UV-resistant bacterium from a manganese deposit in the Sonoran Desert, Journal of Genomics, 7:18-25. Article

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Ohshima Y§, Kono N§, Yokota Y, Watanabe S, Sasaki I, Ishioka N, Sakashita T, Arakawa K (2019) Anti-tumor Effects and Potential Therapeutic Response Biomarkers in α-Emitting meta-211At-Astato-Benzylguanidine Therapy for Malignant Pheochromocytoma Explored by RNA-sequencing, Theranostics, 9(6):1538-1549. Article

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2018

Kono N*, Tomita M, Arakawa K (2018) Accelerated laboratory evolution reveals the influence of replication on the GC skew in Escherichia coli. Genome Biology and Evolution, 10(11):3110-3117. Article

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Arakawa K, Kono N, Ohtoshi R, Nakamura H, Tomita M (2018) The complete mitochondrial genome of Eumeta variegata (Lepidoptera: Psychidae), Mitochondrial DNA Part B, 3(2):812-813. Article

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Itaya M, Sato M, Hasegawa M, Kono N, Tomita M, Kaneko S (2018) Far rapid synthesis of giant DNA in the Bacillus subtilis genome by a conjugation transfer system. Scientific Reports, 8(1):8792. Article

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2017

Kono N*, Tomita M, Arakawa K (2017) eRP arrangement: a strategy for assembled genomic contig rearrangement based on replication profiling in bacteria. BMC Genomics 18(1):784. Article

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2016

Kono N, Nakamura H, Ito Y, Tomita M, Arakawa K (2016) Evaluation of the impact of RNA preservation methods of spiders for de novo transcriptome assembly. Molecular Ecology Resources, 16(3):662-672. Article

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2015

Kanoh Y, Matsumoto S, Fukatsu R, Kakusho N, Kono N, Renard-Guillet C, Masuda K, Iida K, Nagasawa K, Shirahige K, Masai H (2015) Rif1 binds to G quadruplexes and suppresses replication over long distances. Nature Structural & Molecular Biology, 22(11), 889-897. Article

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2014

Kono N*, Arakawa K, Sato M, Yoshikawa H, Tomita M, Itaya M (2014) Undesigned selection for replication termination of bacterial chromosomes. Journal of Molecular Biology, 426(16), 2918-2927. Article

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2013

Hisano Y, Ota S, Arakawa K, Muraki M, Kono N, Oshita K, Sakuma T, Tomita M, Yamamoto T, Okada Y, Kawahara A (2013) Quantitative assay for TALEN activity at endogenous genomic loci. Biology Open, 2 (4): 363–367.. Article

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pre-2012

Kono N, Arakawa K, Tomita M (2012) Validation of Bacterial Replication Termination Models Using Simulation of Genomic Mutations. PLoS One, 7(4), e34526. Article

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Toya Y, Kono N, Arakawa K, Tomita M (2011) Metabolic flux analysis and visualization. Journal of Proteome Research, 10(8), 3313-3323. Article

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Kono N, Arakawa K, Tomita M (2011) Comprehensive prediction of chromosome dimer resolution sites in bacterial genomes. BMC Genomics, 12(1), 19. Article

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Kono N, Arakawa K, Ogawa R, Kido N, Oshita K, Ikegami K, Tamaki S, Tomita M (2009) Pathway Projector: Web-Based Zoomable Pathway Browser Using KEGG Atlas and Google Maps API. PLoS One, 4(11), e7710. Article

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Arakawa K, Tamaki S, Kono N, Kido N, Ikegami K, Ogawa R, Tomita M (2009) Genome Projector: zoomable genome map with multiple views. BMC Bioinformatics, 10(1), 31. Article

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Tamaki S, Arakawa K, Kono N, Tomita M (2007) Restauro-G: A Rapid Genome Re-Annotation System for Comparative Genomics. Genomics Proteomics Bioinformatics, 5(1), 53-58. Article

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Kono N, Arakawa K, Tomita M (2006) MEGU: Pathway mapping web-service based on KEGG and SVG. In Silico Biology, 6(6), 621-655. Article

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Arakawa K, Kono N, Yamada Y, Mori H, Tomita M (2005) KEGG-based pathway visualization tool for complex omics data. In Silico Biology, 5, 0039. Article