Publications

2023

Yoshida, K., C. Rödelsperger, W. Röseler, M. Riebesell, S. Sun, T. Kikuchi and R. J. Sommer (2023). “Chromosome fusions repatterned recombination rate and facilitated reproductive isolation during Pristionchus nematode speciation.” Nature Ecology & Evolution 7(3): 424-439.

Sildever, S., N. Nishi, S. Tazawa, H. Kasai, J. Hirai, A. Shiomoto, T. Kikuchi, S. Katakura and S. Nagai (2023). “Eight years of weekly eDNA monitoring in the North‐Western Pacific.” Environmental DNA.

Sakaguchi, M., Y. Urbanczyk, T. Kikuchi and H. Urbanczyk (2023). “Grimontia kaedaensis sp. nov., isolated from the estuary of Kaeda river in Miyazaki, Japan.” International Journal of Systematic and Evolutionary Microbiology 73(6): 005946.

Lee, Y.-C., H.-H. Lee, H.-M. Ke, Y.-C. Liu, M.-C. Wang, Y.-C. Tseng, T. Kikuchi and I. J. Tsai (2023). “Single worm long read sequencing reveals genome diversity in free-living nematodes.” bioRxiv: 2023.2004. 2017.537128.

Lai, C. K., Y. C. Lee, H. M. Ke, M. R. Lu, W. A. Liu, H. H. Lee, Y. C. Liu, T. Yoshiga, T. Kikuchi and P. J. Chen (2023). “The Aphelenchoides genomes reveal substantial horizontal gene transfers in the last common ancestor of free‐living and major plant‐parasitic nematodes.” Molecular Ecology Resources 23(4): 905-919.

Kawahara, K., T. Inada, R. Tanaka, M. Dayi, T. Makino, S. Maruyama, T. Kikuchi, A. Sugimoto and M. Kawata (2023). “Differentially Expressed Genes Associated with Body Size Changes and Transposable Element Insertions between Caenorhabditis elegans and Its Sister Species, Caenorhabditis inopinata.” Genome biology and evolution 15(4): evad063.

Kaneko, C., A. Shinohara, T. Kikuchi, A. Tokuda, T. Irie, K. Yamada, N. Misawa and A. Yoshida (2023). “Distinctly different gut microbiota in Japanese badgers and Japanese raccoon dogs despite sharing similar food habits and environments.” Mammalian Biology: 1-11.

Iguchi, A., T. Takemura, Y. Ogura, T. T. H. Nguyen, T. Kikuchi, M. Okuno, A. Tokizawa, H. Iwashita, H. Q. A. Pham and T. H. Doan (2023). “Genomic characterization of endemic diarrheagenic Escherichia coli and Escherichia albertii from infants with diarrhea in Vietnam.” PLOS Neglected Tropical Diseases 17(4): e0011259.

2022

Yokogami, K., T. Kikuchi, T. Watanabe, Y. Nakatake, S. Yamashita, A. Mizuguchi and H. Takeshima (2022). “Methionine regulates self-renewal, pluripotency, and cell death of GIC through cholesterol—rRNA axis.” BMC cancer 22(1): 1351.

Sun, S., N. Kanzaki, M. Dayi, Y. Maeda, A. Yoshida, R. Tanaka and T. Kikuchi (2022). “The compact genome of Caenorhabditis niphades n. sp., isolated from a wood-boring weevil, Niphades variegatus.” BMC genomics 23(1): 1-11.

Sun, S., N. Kanzaki, M. Dayi, Y. Maeda, A. Yoshida, R. Tanaka and T. Kikuchi (2022). “The compact genome of a new Caenorhabditis species Caenorhabditis niphades n. sp., isolated from Niphades beetles.”

Suleiman, M., A. Kounosu, B. Murcott, M. Dayi, R. Pawluk, A. Yoshida, M. Viney, T. Kikuchi and V. L. Hunt (2022). “piRNA-like small RNAs target transposable elements in a Clade IV parasitic nematode.” Scientific Reports 12(1): 10156.

Shinya, R., S. Sun, M. Dayi, I. J. Tsai, A. Miyama, A. F. Chen, K. Hasegawa, I. Antoshechkin, T. Kikuchi and P. W. Sternberg (2022). “Possible stochastic sex determination in Bursaphelenchus nematodes.” Nature Communications 13(1): 2574.

Murase, K., E. Arakawa, H. Izumiya, A. Iguchi, T. Takemura, T. Kikuchi, I. Nakagawa, N. R. Thomson, M. Ohnishi and M. Morita (2022). “Genomic dissection of the Vibrio cholerae O-serogroup global reference strains: reassessing our view of diversity and plasticity between two chromosomes.” Microbial Genomics 8(8).

Lai, C., Y. Lee, H. Ke, M. Lu, W. Liu, H. Lee, Y. Liu, T. Yoshiga, T. Kikuchi and P. Chen (2022). “The Aphelenchoides genomes reveal major events of horizontal gene transfers in clade IV nematodes.”

Horoiwa, M., T. Nakamura, H. Yuasa, R. Kajitani, Y. Ameda, T. Sasaki, H. Taninaka, T. Kikuchi, T. Yamakita and A. Toyoda (2022). “Integrated population genomic analysis and numerical simulation to estimate larval dispersal of Acanthaster cf. solaris between Ogasawara and other Japanese regions.” Frontiers in Marine Science 8: 1972.

Broitman-Maduro, G., S. Sun, T. Kikuchi and M. F. Maduro (2022). “The GATA factor ELT-3 specifies endoderm in Caenorhabditis angaria in an ancestral gene network.” Development 149(21): dev200984.

2021

Tsubokawa, D., T. Kikuchi, J. M. Lee, T. Kusakabe, Y. Yamamoto and H. Maruyama (2021). “Venestatin from parasitic helminths interferes with receptor for advanced glycation end products (RAGE)-mediated immune responses to promote larval migration.” PLoS pathogens 17(6): e1009649.

Taninaka, H., D. Maggioni, D. Seveso, D. Huang, A. Townsend, Z. T. Richards, S.-L. Tang, N. Wada, T. Kikuchi and H. Yuasa (2021). “Phylogeography of blue corals (genus Heliopora) across the Indo-West Pacific.” Frontiers in Marine Science 8: 926.

Takata, K., F. Iwase, A. Iguchi, H. Yuasa, H. Taninaka, N. Iwasaki, K. Uda, T. Suzuki, M. Nonaka and T. Kikuchi (2021). “Genome-Wide SNP Data Revealed Notable Spatial Genetic Structure in the Deep-Sea Precious Coral Corallium japonicum.” Frontiers in Marine Science 8: 667481.

Nguyen, T. T. H., T. Kikuchi, T. Tokunaga, S. Iyoda and A. Iguchi (2021). “Diversity of the tellurite resistance gene operon in Escherichia coli.” Frontiers in Microbiology 12: 681175.

Murase, K., C. Aikawa, T. Nozawa, A. Nakatake, K. Sakamoto, T. Kikuchi and I. Nakagawa (2021). “Biological effect of Streptococcus pyogenes-released extracellular vesicles on human monocytic cells, induction of cytotoxicity, and inflammatory response.” Frontiers in Cellular and Infection Microbiology: 674.

Mokodongan, D. F., H. Taninaka, L. Sara, T. Kikuchi, H. Yuasa, Y. Suyama and N. Yasuda (2021). “Spatial Autocorrelation Analysis Using MIG-seq Data Indirectly Estimated the Gamete and Larval Dispersal Range of the Blue Coral, Heliopora coerulea, Within Reefs.” Frontiers in Marine Science 8: 702977.

Kikuchi, T., M. Dayi, V. L. Hunt, K. Ishiwata, A. Toyoda, A. Kounosu, S. Sun, Y. Maeda, Y. Kondo and B. A. de Noya (2021). “Genome of the fatal tapeworm Sparganum proliferum uncovers mechanisms for cryptic life cycle and aberrant larval proliferation.” Communications Biology 4(1): 649.

Dayi, M., N. Kanzaki, S. Sun, T. Ide, R. Tanaka, H. Masuya, K. Okabe, H. Kajimura and T. Kikuchi (2021). “Additional description and genome analyses of Caenorhabditis auriculariae representing the basal lineage of genus Caenorhabditis.” Scientific Reports 11(1): 6720.

2020

Sun, S., R. Shinya, M. Dayi, A. Yoshida, P. W. Sternberg and T. Kikuchi (2020). “Telomere-to-telomere genome assembly of Bursaphelenchus okinawaensis strain SH1.” Microbiology Resource Announcements 9(43): 10.1128/mra. 01000-01020.

Murase, K., T. Nozawa, C. Aikawa, M. Nagao, T. Ikebe, A. Yoshida, T. Kikuchi and I. Nakagawa (2020). “Complete Genome Sequences of Streptococcus pyogenes Serotype M3, M28, and M89 Strains Isolated from Human Patients in Japan, 1994 to 2009.” Microbiology Resource Announcements 9(42): 10.1128/mra. 01047-01020.

Mondal, S. I., A. Akter, R. Koga, T. Hosokawa, M. Dayi, K. Murase, R. Tanaka, S. Shigenobu, T. Fukatsu and T. Kikuchi (2020). “Reduced genome of the gut symbiotic bacterium “Candidatus Benitsuchiphilus tojoi” provides insight into its possible roles in ecology and adaptation of the host insect.” Frontiers in Microbiology 11: 840.

Minowa-Nozawa, A., T. Nozawa, D. Takamatsu, A. Yoshida, K. Murase, T. Kikuchi, K. Ishida-Kuroki, Y. Nitta, T. Sekizaki and I. Nakagawa (2020). “Complete Genome Sequences of Two Streptococcus suis Strains Isolated from Asymptomatic Pigs.” Microbiology Resource Announcements 9(47): 10.1128/mra. 01142-01120.

Kikuchi, T. and H. Maruyama (2020). “Human proliferative sparganosis update.” Parasitology international 75: 102036.

Iguchi, A., H. Nishii, K. Seto, J. Mitobe, K. Lee, N. Konishi, H. Obata, T. Kikuchi and S. Iyoda (2020). “Additional Og-typing PCR techniques targeting Escherichia coli-novel and Shigella-unique O-antigen biosynthesis gene clusters.” Journal of Clinical Microbiology 58(11): 10.1128/jcm. 01493-01420.

Dayi, M., S. Sun, Y. Maeda, R. Tanaka, A. Yoshida, I. J. Tsai and T. Kikuchi (2020). “Nearly complete genome assembly of the pinewood nematode Bursaphelenchus xylophilus strain Ka4C1.” Microbiology Resource Announcements 9(42): 10.1128/mra. 01002-01020.

2019

Tanaka, S. E., M. Dayi, Y. Maeda, I. J. Tsai, R. Tanaka, M. Bligh, Y. Takeuchi-Kaneko, K. Fukuda, N. Kanzaki and T. Kikuchi (2019). “Stage-specific transcriptome of Bursaphelenchus xylophilus reveals temporal regulation of effector genes and roles of the dauer-like stages in the lifecycle.” Scientific Reports 9(1): 6080.

Takata, K., H. Taninaka, M. Nonaka, F. Iwase, T. Kikuchi, Y. Suyama, S. Nagai and N. Yasuda (2019). “Multiplexed ISSR genotyping by sequencing distinguishes two precious coral species (Anthozoa: Octocorallia: Coralliidae) that share a mitochondrial haplotype.” PeerJ 7: e7769.

Nagaoka, K., S. Konno, K. Murase, T. Kikuchi, Y. Morinaga, K. Yanagihara and I. Nakagawa (2019). “Complete genome sequences of Streptococcus pneumoniae strains HU-OH (serotype 3, sequence type 183 [ST183]), NU83127 (serotype 4, ST246), and ATCC 49619 (serotype 19F, ST1203).” Microbiology Resource Announcements 8(9): e01504-01518.

Maeda, Y., J. E. Palomares-Rius, A. Hino, T. Afrin, S. I. Mondal, A. Nakatake, H. Maruyama and T. Kikuchi (2019). “Secretome analysis of Strongyloides venezuelensis parasitic stages reveals that soluble and insoluble proteins are involved in its parasitism.” Parasites & Vectors 12(1): 1-12.

Kudo, R., H. Masuya, R. Endoh, T. Kikuchi and H. Ikeda (2019). “Gut bacterial and fungal communities in ground-dwelling beetles are associated with host food habit and habitat.” The ISME Journal 13(3): 676-685.

Kounosu, A., K. Murase, A. Yoshida, H. Maruyama and T. Kikuchi (2019). “Improved 18S and 28S rDNA primer sets for NGS-based parasite detection.” Scientific Reports 9(1): 15789.

Hombu, A., A. Yoshida, T. Kikuchi, E. Nagayasu, M. Kuroki and H. Maruyama (2019). “Treatment of larva migrans syndrome with long-term administration of albendazole.” Journal of Microbiology, Immunology and Infection 52(1): 100-105.

Hikichi, M., M. Nagao, K. Murase, C. Aikawa, T. Nozawa, A. Yoshida, T. Kikuchi and I. Nakagawa (2019). “Complete genome sequences of eight methicillin-resistant Staphylococcus aureus strains isolated from patients in Japan.” Microbiology Resource Announcements 8(47): 10.1128/mra. 01212-01219.

Afrin, T., K. Murase, A. Kounosu, V. L. Hunt, M. Bligh, Y. Maeda, A. Hino, H. Maruyama, I. J. Tsai and T. Kikuchi (2019). “Sequential changes in the host gut microbiota during infection with the intestinal parasitic nematode Strongyloides venezuelensis.” Frontiers in Cellular and Infection Microbiology 9: 217.

International Helminth Genomes Consortium (2019). “Comparative genomics of the major parasitic worms.” Nature genetics 51(1): 163-174.

2018

Vicente, C. S., S. I. Mondal, A. Akter, S. Ozawa, T. Kikuchi and K. Hasegawa (2018). “Genome analysis of new Blattabacterium spp., obligatory endosymbionts of Periplaneta fuliginosa and P. japonica.” PLoS One 13(7): e0200512.

Richards, Z. T., N. Yasuda, T. Kikuchi, T. Foster, C. Mitsuyuki, M. Stat, Y. Suyama and N. G. Wilson (2018). “Integrated evidence reveals a new species in the ancient blue coral genus Heliopora (Octocorallia).” Scientific Reports 8(1): 15875.

Nagaoka, K., S. Konno, K. Murase, T. Kikuchi and I. Nakagawa (2018). “Complete genome sequence of Streptococcus agalactiae serotype III, Multilocus sequence type 335 strain HU-GS5823, isolated from a human patient in Japan with severe invasive infection.” Microbiology Resource Announcements 7(20): 10.1128/mra. 01303-01318.

Kitazume, H., M. Dayi, R. Tanaka and T. Kikuchi (2018). “Assessment of the behaviour and survival of nematodes under low oxygen concentrations.” PLoS One 13(5): e0197122.

Kanzaki, N., I. J. Tsai, R. Tanaka, V. L. Hunt, D. Liu, K. Tsuyama, Y. Maeda, S. Namai, R. Kumagai and A. Tracey (2018). “Biology and genome of a newly discovered sibling species of Caenorhabditis elegans.” Nature Communications 9(1): 3216.

Hunt, V. L., A. Hino, A. Yoshida and T. Kikuchi (2018). “Comparative transcriptomics gives insights into the evolution of parasitism in Strongyloides nematodes at the genus, subclade and species level.” Scientific Reports 8(1): 5192.

Banjo, M., A. Iguchi, K. Seto, T. Kikuchi, T. Harada, F. Scheutz and S. Iyoda (2018). “Escherichia coli H-genotyping PCR: A complete and practical platform for molecular H typing.” Journal of Clinical Microbiology 56(6): 10.1128/jcm. 00190-00118.

Afrin, T., A. Kounosu, M.-M. Billah, K. Murase and T. Kikuchi (2018). “Evaluation of magnetic cellulose bead-based DNA extraction from faecal materials for high-throughput bacterial community analyses.” Applied Entomology and Zoology 53: 281-286.

2017

Viney, M. and T. Kikuchi (2017). “Strongyloides ratti and S. venezuelensis–rodent models of Strongyloides infection.” Parasitology 144(3): 285-294.

Tsubokawa, D., T. Hatta, T. Kikuchi, H. Maeda, F. Mikami, M. A. Alim, H. Maruyama and N. Tsuji (2017). “Venestatin, a Ca++-binding protein from the parasitic nematode Strongyloides venezuelensis, is involved in the larval migration process.” International journal for parasitology 47(8): 501-509.

Nagayasu, E., M. P. P. T. H. H. Aung, T. Hortiwakul, A. Hino, T. Tanaka, M. Higashiarakawa, A. Olia, T. Taniguchi, S. M. T. Win and I. Ohashi (2017). “A possible origin population of pathogenic intestinal nematodes, Strongyloides stercoralis, unveiled by molecular phylogeny.” Scientific Reports 7(1): 4844.

Mondal, S. I., Z. Mahmud, M. Elahi, A. Akter, N. A. Jewel, M. Muzahidul Islam, S. Ferdous and T. Kikuchi (2017). “Study of intra–inter species protein–protein interactions for potential drug targets identification and subsequent drug design for Escherichia coli O104: H4 C277-11.” In Silico Pharmacology 5: 1-11.

Klopfenstein, N. B., J. E. Stewart, Y. Ota, J. W. Hanna, B. A. Richardson, A. L. Ross-Davis, R. D. Elías-Román, K. Korhonen, N. Keča and E. Iturritxa (2017). “Insights into the phylogeny of Northern Hemisphere Armillaria: Neighbor-net and Bayesian analyses of translation elongation factor 1-α gene sequences.” Mycologia 109(1): 75-91.

Kikuchi, T., S. Eves-van den Akker and J. T. Jones (2017). “Genome evolution of plant-parasitic nematodes.” Annual review of phytopathology 55: 333-354.

Iguchi, A., A. von Mentzer, T. Kikuchi and N. R. Thomson (2017). “An untypeable enterotoxigenic Escherichia coli represents one of the dominant types causing human disease.” Microbial Genomics 3(9).

Chung, C. L., T. J. Lee, M. Akiba, H. H. Lee, T. H. Kuo, D. Liu, H. M. Ke, T. Yokoi, M. B. Roa and M. Y. J. Lu (2017). “Comparative and population genomic landscape of Phellinus noxius: A hypervariable fungus causing root rot in trees.” Molecular ecology 26(22): 6301-6316.

Chung, C.-L., J. T. Lee, M. Akiba, H.-H. Lee, T.-H. Kuo, D. Liu, H.-M. Ke, T. Yokoi, M. B. Roa and M. J. Lu (2017). “The genomic landscape of tree rot in Phellinus noxius and its Hymenochaetales members.” bioRxiv: 132712.

2016

Yoshida, A., K. Matsuo, J. Moribe, R. Tanaka, T. Kikuchi, E. Nagayasu, N. Misawa and H. Maruyama (2016). “Venison, another source of Paragonimus westermani infection.” Parasitology international 65(6): 607-612.

Yoshida, A., T. Kikuchi, S. Nakagaki and H. Maruyama (2016). “Optimal ELISA antigen for the diagnosis of Ascaris suum infection in humans.” Parasitology research 115: 4701-4705.

Vicente, C. S., F. X. Nascimento, P. Barbosa, H.-M. Ke, I. J. Tsai, T. Hirao, P. J. Cock, T. Kikuchi, K. Hasegawa and M. Mota (2016). “Evidence for an Opportunistic and Endophytic Lifestyle of the Bursaphelenchus xylophilus-Associated Bacteria Serratia marcescens PWN146 Isolated from Wilting Pinus pinaster.” Microbial Ecology: 1-13.

Tsai, I. J., R. Tanaka, N. Kanzaki, M. Akiba, T. Yokoi, M. Espada, J. T. Jones and T. Kikuchi (2016). “Transcriptional and morphological changes in the transition from mycetophagous to phytophagous phase in the plant‐parasitic nematode Bursaphelenchus xylophilus.” Molecular Plant Pathology 17(1): 77-83.

Kikuchi, T., A. Hino, T. Tanaka, M. P. P. T. H. H. Aung, T. Afrin, E. Nagayasu, R. Tanaka, M. Higashiarakawa, K. K. Win and T. Hirata (2016). “Genome-wide analyses of individual Strongyloides stercoralis (Nematoda: Rhabditoidea) provide insights into population structure and reproductive life cycles.” PLOS Neglected Tropical Diseases 10(12): e0005253.

Kikuchi, T., T. Afrin and M. Yoshida (2016). “Complete mitochondrial genomes of four entomopathogenic nematode species of the genus Steinernema.” Parasites & Vectors 9(1): 1-8.

Hunt, V. L., I. J. Tsai, A. Coghlan, A. J. Reid, N. Holroyd, B. J. Foth, A. Tracey, J. A. Cotton, E. J. Stanley and H. Beasley (2016). “The genomic basis of parasitism in the Strongyloides clade of nematodes.” Nature genetics 48(3): 299-307.

Hino, A., H. Maruyama and T. Kikuchi (2016). “A novel method to assess the biodiversity of parasites using 18S rDNA Illumina sequencing; parasitome analysis method.” Parasitology international 65(5): 572-575.

Cotton, J. A., S. Steinbiss, T. Yokoi, I. J. Tsai and T. Kikuchi (2016). “An expressed, endogenous Nodavirus-like element captured by a retrotransposon in the genome of the plant parasitic nematode Bursaphelenchus xylophilus.” Scientific Reports 6(1): 39749.

Cotton, J. A., S. Bennuru, A. Grote, B. Harsha, A. Tracey, R. Beech, S. R. Doyle, M. Dunn, J. C. D. Hotopp and N. Holroyd (2016). “The genome of Onchocerca volvulus, agent of river blindness.” Nature Microbiology 2(2): 1-12.

2015

Takeuchi, Y., A. Kaneko, T. Kato, M. Honjo, A. Nagano, H. Kudoh, K. Mori, T. Kikuchi, S. Kuhara and K. Futai (2015). AN’OMICS’BASED APPROACH TO THE PATHOGENIC MECHANISM OF PINE WILT DISEASE. Journal of Nematology, SOC NEMATOLOGISTS PO BOX 311, MARCELINE, MO 64658 USA.

Takeuchi, T., M. Yamaguchi, R. Tanaka, M. Dayi, N. Ogura and T. Kikuchi (2015). “Development and validation of SSR markers for the plant-parasitic nematode Subanguina moxae using genome assembly of Illumina pair-end reads.” Nematology.

Palomares-Rius, J. E., I. J. Tsai, N. Karim, M. Akiba, T. Kato, H. Maruyama, Y. Takeuchi and T. Kikuchi (2015). “Genome-wide variation in the pinewood nematode Bursaphelenchus xylophilus and its relationship with pathogenic traits.” BMC genomics 16: 1-13.

Masuya, H., T. Kikuchi and N. Sahashi (2015). “New insights to develop studies on Witch’s broom caused by Taphrina wiesneri.” Journal of the Japanese Forest Society 97(3): 153-157.

Iguchi, A., S. Iyoda, T. Kikuchi, Y. Ogura, K. Katsura, M. Ohnishi, T. Hayashi and N. R. Thomson (2015). “A complete view of the genetic diversity of the Escherichia coli O-antigen biosynthesis gene cluster.” DNA Research 22(1): 101-107.

Bird, D. M., J. T. Jones, C. H. Opperman, T. Kikuchi and E. G. Danchin (2015). “Signatures of adaptation to plant parasitism in nematode genomes.” Parasitology 142(S1): S71-S84.

Akiba, M., Y. Ota, I. J. Tsai, T. Hattori, N. Sahashi and T. Kikuchi (2015). “Genetic differentiation and spatial structure of Phellinus noxius, the causal agent of brown root rot of woody plants in Japan.” PLoS One 10(10): e0141792.

2014

Tsai, I. J., E. Tanaka, H. Masuya, R. Tanaka, Y. Hirooka, R. Endoh, N. Sahashi and T. Kikuchi (2014). “Comparative genomics of Taphrina fungi causing varying degrees of tumorous deformity in plants.” Genome biology and evolution 6(4): 861-872.

Tsai, I. J., M. Hunt, N. Holroyd, T. Huckvale, M. Berriman and T. Kikuchi (2014). “Summarizing specific profiles in Illumina sequencing from whole-genome amplified DNA.” DNA Research 21(3): 243-254.

Tanaka, R., A. Hino, I. J. Tsai, J. E. Palomares-Rius, A. Yoshida, Y. Ogura, T. Hayashi, H. Maruyama and T. Kikuchi (2014). “Assessment of helminth biodiversity in wild rats using 18S rDNA based metagenomics.” PLoS One 9(10): e110769.

Palomares‐Rius, J. E., T. Kikuchi, C. Cantalapiedra‐Navarrete and P. Castillo (2014). “Integrative diagnosis of the needle nematode Longidorus jonesi affecting forest in southern Japan.” Forest Pathology 44(3): 246-249.

Palomares-Rius, J. E., Y. Hirooka, I. J. Tsai, H. Masuya, A. Hino, N. Kanzaki, J. T. Jones and T. Kikuchi (2014). “Distribution and evolution of glycoside hydrolase family 45 cellulases in nematodes and fungi.” BMC evolutionary biology 14(1): 1-12.

Palomares Rius, J. E., I. J. Tsai, A. Mitsuteru, P. Castillo, Y. Takeuchi and T. Kikuchi (2014). “Variación en el genoma a nivel poblacional de Bursaphelenchus xylophilus y su relación con caracteres ecológicos.”

Kikuchi, T., J. T. Jones, N. Kanzaki, A. Hino, H. Masuya, I. J. Tsai, Y. Hirooka and J. E. Palomares-Rius (2014). “Distribution and evolution of glycoside hydrolase family 45 cellulases in nematodes and fungi.”

Kikuchi, T., P. J. Cock, J. Helder and J. T. Jones (2014). “Characterisation of the transcriptome of Aphelenchoides besseyi and identification of a GHF 45 cellulase.” Nematology 16(1): 99-107.

Jones, J., A. Haegeman, E. Danchin, H. Gaur, J. Helder, M. Jones, T. Kikuchi, R. Manzanilla-Lopez, J. Palomares-Rius and W. Wesemael (2014). “Top 10 plant parasitic nematodes in molecular plant pathology in (Abstracts from the 6th International Congress of Nematology, Cape Town, South Africa, 4-9 May 2014).” Journal of Nematology 46(2): 181-181.

Hino, A., T. Tanaka, M. Takaishi, Y. Fujii, J. E. Palomares-Rius, K. Hasegawa, H. Maruyama and T. Kikuchi (2014). “Karyotype and reproduction mode of the rodent parasite Strongyloides venezuelensis.” Parasitology 141(13): 1736-1745.

Daigo, K., T. Takeuchi, T. Kikuchi and N. Ogura (2014). “The nucleotide sequence analysis of ITS1-5.8SrDNA-ITS2 region of Subanguina moxae collected in Japan.” Nematological Research 44(2): 49-53.

Cotton, J. A., C. J. Lilley, L. M. Jones, T. Kikuchi, A. J. Reid, P. Thorpe, I. J. Tsai, H. Beasley, V. Blok and P. J. Cock (2014). “The genome and life-stage specific transcriptomes of Globodera pallida elucidate key aspects of plant parasitism by a cyst nematode.” Genome biology 15: 1-17.

~2013

Shinya, R., H. Morisaka, T. Kikuchi, Y. Takeuchi, M. Ueda and K. Futai (2013). “Secretome analysis of the pine wood nematode Bursaphelenchus xylophilus reveals the tangled roots of parasitism and its potential for molecular mimicry.” PLoS One 8(6): e67377.

Rius, J. E. P. and T. Kikuchi (2013). “Marchitamiento de los pinos por” B. xylophilus“, una nueva enfermedad que amenza los bosques españoles.” Vida rural(358): 74-79.

Palomares-Rius, J. E. and T. Kikuchi (2013). “-Omics fields of study related to plant-parasitic nematodes.” Journal of Integrated OMICS 3(1): 1-10.

Laing, R., T. Kikuchi, A. Martinelli, I. J. Tsai, R. N. Beech, E. Redman, N. Holroyd, D. J. Bartley, H. Beasley and C. Britton (2013). “The genome and transcriptome of Haemonchus contortus, a key model parasite for drug and vaccine discovery.” Genome biology 14: 1-16.

Jones, J. T., A. Haegeman, E. G. Danchin, H. S. Gaur, J. Helder, M. G. Jones, T. Kikuchi, R. Manzanilla‐López, J. E. Palomares‐Rius and W. M. Wesemael (2013). “Top 10 plant‐parasitic nematodes in molecular plant pathology.” Molecular Plant Pathology 14(9): 946-961.

Hunt, M., T. Kikuchi, M. Sanders, C. Newbold, M. Berriman and T. D. Otto (2013). “REAPR: a universal tool for genome assembly evaluation.” Genome biology 14: 1-10.

Yamanaka, T., T. Maruyama, A. Yamada, Y. Miyazaki and T. Kikuchi (2012). “Ectomycorrhizal formation on regenerated somatic pine plants after inoculation with Tricholoma matsutake.” Mushroom Science and Biotechnology 20: 93-97.

Tanaka, R., T. Kikuchi, T. Aikawa and N. Kanzaki (2012). “Simple and quick methods for nematode DNA preparation.” Applied Entomology and Zoology 47: 291-294.

Aikawa, T., T. Kikuchi and N. Kanzaki (2012). DNA extraction method for Bursaphelenchus xylophilus from wood chips, lamp primer set for Bursaphelenchus xylophilus, and detection method for Bursaphelenchus xylophilus from wood chips, US Patent 8,318,435.

Kikuchi, T., J. A. Cotton, J. J. Dalzell, K. Hasegawa, N. Kanzaki, P. McVeigh, T. Takanashi, I. J. Tsai, S. A. Assefa and P. J. Cock (2011). “Genomic insights into the origin of parasitism in the emerging plant pathogen Bursaphelenchus xylophilus.” PLoS pathogens 7(9): e1002219.

Karim, N., H. Shibuya and T. Kikuchi (2011). “Analysis of expressed sequence tags from the wood-decaying fungus Fomitopsis palustris and identification of potential genes involved in the decay process.” J Microbiol Biotechnol 21(4): 347-358.

Kanetani, S., T. Kikuchi, M. Akiba, K. Nakamura, H. Ikegame and K. Tetsuka (2011). “Detection of Bursaphelenchus xylophilus from old discs of dead Pinus armandii var. amamiana trees using a new detection kit.” Forest Pathology 41(5): 387-391.

JONES, J. T., M. MOENS, M. MOTA, H. LI and T. KIKUCHI (2011). “chapter 12: the snub-nose painter and associates suppl. i, pp. 44–44.” Bulletin of the Institute of Classical Studies.

Hasegawa, E., Y. Ota, T. Hattori, N. Sahashi and T. Kikuchi (2011). Distribution, host preference and pathogenicity of Armillaria species on conifers in Japan. XIII Conference” Root and Butt Rot of Forest Trees” IUFRO Working Party 7.02. 01.

Hasegawa, E., Y. Ota, T. Hattori, N. Sahashi and T. Kikuchi (2011). “Ecology of Armillaria species on conifers in Japan.” Forest Pathology 41(6): 429-437.

Davis, E. L., A. Haegeman and T. Kikuchi (2011). “Degradation of the plant cell wall by nematodes.” Genomics and molecular genetics of plant-nematode interactions: 255-272.

Aikawa, T., N. Kanzaki and T. Kikuchi (2011). “Simple diagnosis of Pine Wilt Disease using loop mediated isothermal amplification.” JOURNAL OF NANJING FORESTRY UNIVERSITY 54(04): 148.

Onozato, H., Y. Kawabe, Y. Ota, T. Kikuchi and Y. Kanezawa (2009). “Detection of Armillaria spp. by the bait method using oak logs in a cherry stand damaged by Armillaria tabescens.” Journal of the Japanese Forest Society 91(3): 201-207.

Kikuchi, T., H. Li, N. Karim, M. W. Kennedy, M. Moens and J. T. Jones (2009). “Identification of putative expansin-like genes from the pine wood nematode, Bursaphelenchus xylophilus, and evolution of the expansin gene family within the Nematoda.” Nematology 11(3): 355-364.

Kikuchi, T., N. Karim, H. Masuya, Y. Ota and T. Kubono (2009). “An inexpensive high‐throughput method to extract high yields of good quality DNA from fungi.” Molecular Ecology Resources 9(1): 41-45.

Kikuchi, T., T. Aikawa, Y. Oeda, N. Karim and N. Kanzaki (2009). “A rapid and precise diagnostic method for detecting the pinewood nematode Bursaphelenchus xylophilus by loop-mediated isothermal amplification.” Phytopathology 99(12): 1365-1369.

Karim, N., J. T. Jones, H. Okada and T. Kikuchi (2009). “Analysis of expressed sequence tags and identification of genes encoding cell-wall-degrading enzymes from the fungivorous nematode Aphelenchus avenae.” BMC genomics 10(1): 1-19.

Aikawa, T., H. Anbutsu, N. Nikoh, T. Kikuchi, F. Shibata and T. Fukatsu (2009). “Longicorn beetle that vectors pinewood nematode carries many Wolbachia genes on an autosome.” Proceedings of the Royal Society B: Biological Sciences 276(1674): 3791-3798.

Zhao, B. G., K. Futai, J. R. Sutherland and Y. Takeuchi (2008). Pine wilt disease, Springer Tokyo.

Shibuya, H. and T. Kikuchi (2008). “Purification and characterization of recombinant endoglucanases from the pine wood nematode Bursaphelenchus xylophilus.” Bioscience, biotechnology, and biochemistry 72(5): 1325-1332.

Kikuchi, T. (2008). Parasitism genes of the pine wood nematode. Pine wilt disease, Springer Japan Tokyo: 67-80.

Jones, J. T., M. Moens, M. Mota, H. Li and T. Kikuchi (2008). “Bursaphelenchus xylophilus: opportunities in comparative genomics and molecular host–parasite interactions.” Molecular Plant Pathology 9(3): 357-368.

Jones, J., M. Moens, M. Mota, H. Li and T. Kikuchi (2008). “Challenges for molecular plant pathology over the next ten years Bursaphelenchus xylophilus: opportunities in comparative genomics and molecular host–parasite interactions.” Molecular Plant Pathology 9(3): 357-368.

Kikuchi, T., T. Aikawa, H. Kosaka, L. Pritchard, N. Ogura and J. T. Jones (2007). “Expressed sequence tag (EST) analysis of the pine wood nematode Bursaphelenchus xylophilus and B. mucronatus.” Molecular and biochemical parasitology 155(1): 9-17.

Aikawa, T. and T. Kikuchi (2007). “Estimation of virulence of Bursaphelenchus xylophilus (Nematoda: Aphelenchoididae) based on its reproductive ability.” Nematology 9(3): 371-377.

Kikuchi, T., H. Shibuya, T. Aikawa and J. T. Jones (2006). “Cloning and characterization of pectate lyases expressed in the esophageal gland of the pine wood nematode Bursaphelenchus xylophilus.” Molecular Plant-Microbe Interactions 19(3): 280-287.

Kikuchi, T. (2006). “Studies on nematode parasitism genes of the pine wood nematode Bursaphelenchus xylophilus.”

Aikawa, T., T. Kikuchi and H. Kosaka (2006). “Population structure of Bursaphelenchus xylophilus within single Pinus thunbergii trees inoculated with two nematode isolates.” Forest Pathology 36(1): 1-13.

Kikuchi, T., H. Shibuya and J. T. Jones (2005). “Molecular and biochemical characterization of an endo-β-1, 3-glucanase from the pinewood nematode Bursaphelenchus xylophilus acquired by horizontal gene transfer from bacteria.” Biochemical Journal 389(1): 117-125.

Kikuchi, T. (2005). “Genomics of plant pathogenic microbes.” Journal of the Japanese Forest Society (Japan).

Jones, J. T., C. Furlanetto and T. Kikuchi (2005). “Horizontal gene transfer from bacteria and fungi as a driving force in the evolution of plant parasitism in nematodes.” Nematology 7(5): 641-646.

Kikuchi, T., J. T. Jones, T. Aikawa, H. Kosaka and N. Ogura (2004). “A family of glycosyl hydrolase family 45 cellulases from the pine wood nematode Bursaphelenchus xylophilus.” FEBS letters 572(1-3): 201-205.

Aikawa, T., T. Kikuchi and H. Kosaka (2003). “Demonstration of interbreeding between virulent and avirulent populations of Bursaphelenchus xylophilus (Nematoda: Aphelenchoididae) by PCR-RFLP method.” Applied Entomology and Zoology 38(4): 565-569.

Kojima, K., T. Kikuchi, Y. Takano, E. Oshiro and T. Okuno (2002). “The mitogen-activated protein kinase gene MAF1 is essential for the early differentiation phase of appressorium formation in Colletotrichum lagenarium.” Molecular Plant-Microbe Interactions 15(12): 1268-1276.

Takano, Y., T. Kikuchi, Y. Kubo, J. E. Hamer, K. Mise and I. Furusawa (2000). “The Colletotrichum lagenarium MAP kinase gene CMK1 regulates diverse aspects of fungal pathogenesis.” Molecular Plant-Microbe Interactions 13(4): 374-383.