132 results on '"Tomoko Endo"'
Search Results
2. Allelic haplotype combinations at the MS-P1 region, including P-class pentatricopeptide repeat family genes, influence wide phenotypic variation in pollen grain number through a cytoplasmic male sterility model in citrus
- Author
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Shingo Goto, Hiroshi Fujii, Hiroko Hamada, Satoshi Ohta, Tomoko Endo, Tokurou Shimizu, Keisuke Nonaka, and Takehiko Shimada
- Subjects
CMS ,restorer-of-fertility ,diplotype ,QTL ,seedless ,marker-assisted selection ,Plant culture ,SB1-1110 - Abstract
In citrus breeding programs, male sterility is an important trait for developing seedless varieties. Sterility associated with the male sterile cytoplasm of Kishu mandarin (Kishu-cytoplasm) has been proposed to fit the cytoplasmic male sterility (CMS) model. However, it remains undetermined whether CMS in citrus is controlled by interactions between sterile cytoplasm and nuclear restorer-of-fertility (Rf) genes. Accordingly, mechanisms underlying the control of the wide phenotypic variation in pollen number for breeding germplasm should be elucidated. This study aimed to identify complete linkage DNA markers responsible for male sterility at the MS-P1 region based on fine mapping. Two P-class pentatricopeptide repeat (PPR) family genes were identified as candidates for Rf based on predicted mitochondrial localization and higher expression in a male fertile variety/selected strain than in a male sterile variety. Eleven haplotypes (HT1–HT11) at the MS-P1 region were defined based on genotyping of DNA markers. Association analysis of diplotypes at the MS-P1 region and the number of pollen grains per anther (NPG) in breeding germplasms harboring Kishu-cytoplasm revealed that the diplotypes in this region influenced NPG. Among these haplotypes, HT1 is a non-functional restorer-of-fertility (rf) haplotype; HT2, a less-functional Rf; HT3–HT5 are semi-functional Rfs; and HT6 and HT7 are functional Rfs. However, the rare haplotypes HT8–HT11 could not be characterized. Therefore, P-class PPR family genes in the MS-P1 region may constitute the nuclear Rf genes within the CMS model, and a combination of the seven haplotypes could contribute to phenotypic variation in the NPG of breeding germplasms. These findings reveal the genomic mechanisms of CMS in citrus and will contribute to seedless citrus breeding programs by selecting candidate seedless seedlings using the DNA markers at the MS-P1 region.
- Published
- 2023
- Full Text
- View/download PDF
3. Fast-track breeding system to introduce CTV resistance of trifoliate orange into citrus germplasm, by integrating early flowering transgenic plants with marker-assisted selection
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Tomoko Endo, Hiroshi Fujii, Mitsuo Omura, and Takehiko Shimada
- Subjects
Poncirus trifoliata ,CTV resistance ,Citrus ,Juvenile fruit tree ,Null segregant ,Backcross ,Botany ,QK1-989 - Abstract
Abstract Background Global warming will expand the range of new and invasive pathogens in orchards, and subsequently increase the risk of disease epidemics and economic losses. The development of new resistant plant varieties can help to reduce the impact of pathogens, however, the breeding speed can be extremely slow, due to the growth rates of the plants, and the availability of resistance genes. Citrus trees are suffering immense damage from serious diseases such as citrus canker (XCC), huanglongbing (HLB), and citrus tristeza virus (CTV). A fast-track breeding system, that aimed at shortening the duration for disease resistance breeding by incorporating the resistance genes from related species to commercial varieties, has been developed using the integration of precocious transgenic trifoliate orange with the overexpression of CiFT and MAS. It was applied here to incorporate CTV resistance of trifoliate orange into citrus germplasm. Results One generation of backcrossed breeding, that would normally take at least 5 years, was achieved in a single year by fast-track breeding system. Linkage analysis using the corresponding DNA markers revealed that CTV resistance and T-DNA integrated regions were found in different linkage groups, and they were independently segregated in the BC progenies. The CTV resistant null segregants, in which the T-DNA integrated region was removed from their genome, were feasibly obtained by MAS in each generation of the BC progenies, and their CTV resistance was confirmed by immunological analysis. Several BC3 null segregants, whose genetic backgrounds had been substituted into citrus germplasm, except for the haplotype block of CTV resistance, were successfully obtained. CGH and NGS analyses revealed that the T-DNA integrated region was safely segregated out in null segregants. Conclusion Fast-track breeding systems are expected to shorten the required breeding time by more than one-fifth in comparison with conventional cross breeding techniques. Using this system, we obtained BC3–8, whose genetic background was successfully substituted except for the CTV resistance locus, and could be a novel mandarin breeding material. The fast-track breeding system will be useful to introduce important traits from related species to citrus germplasm while also drastically reducing the time required for breeding.
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- 2020
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4. Nitric oxide plays a critical role in methotrexate-induced hyperplasia of enterochromaffin cells containing 5-hydroxytryptamine in rat small intestine
- Author
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Yuho Takano, Megumi Hirano, Takuji Machida, Yusuke Obara, Naoya Hamaue, Kana Fujita, Masafumi Taniguchi, Tomoko Endo, Saki Shiga, Maiko Machida, Kenji Iizuka, and Masahiko Hirafuji
- Subjects
Therapeutics. Pharmacology ,RM1-950 - Abstract
The role of nitric oxide (NO) in the changes in enterochromaffin cells and ileal 5-hydroxytryptamine (5-HT) content induced by a single i.p. administration of methotrexate was investigated in rats. Methotrexate significantly increased inducible NO synthase (iNOS) mRNA and protein expressions in the intestinal tissue at 96 h. Methotrexate also significantly caused hyperplasia of the enterochromaffin cells at 96 h; this was associated with a significant increase in 5-HT content. The methotrexate-induced hyperplasia of enterochromaffin cells and increase in 5-HT content were, however, completely suppressed by daily treatment with dexamethasone, and with NG-nitro-l-arginine methyl ester (l-NAME); this was not observed when meloxicam was administered. Histological examination showed slight but not pronounced mucosal injury, at 96 h after methotrexate administration. The methotrexate-induced decrease in body weight did not fully recover to the control level up to 96 h; however, the methotrexate-induced decrease in food/water intake slightly returned to the control level up to 96 h. l-NAME had no significant effect on methotrexate-induced body weight loss and anorexia. To conclude, the present study suggests that NO derived from methotrexate-induced iNOS plays a critical role in the mechanism of hyperplasia of enterochromaffin cells containing 5-HT in the intestinal tissue of rats. Keywords: Methotrexate, 5-Hydroxytryptamine, Enterochromaffin cells, Nitric oxide, Inducible nitric oxide synthase
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- 2019
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5. Allelic composition of carotenoid metabolic genes in 13 founders influences carotenoid composition in juice sac tissues of fruits among Japanese citrus breeding population.
- Author
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Hiroshi Fujii, Keisuke Nonaka, Mai F Minamikawa, Tomoko Endo, Aiko Sugiyama, Kosuke Hamazaki, Hiroyoshi Iwata, Mitsuo Omura, and Takehiko Shimada
- Subjects
Medicine ,Science - Abstract
To enrich carotenoids, especially β-cryptoxanthin, in juice sac tissues of fruits via molecular breeding in citrus, allele mining was utilized to dissect allelic variation of carotenoid metabolic genes and identify an optimum allele on the target loci characterized by expression quantitative trait (eQTL) analysis. SNPs of target carotenoid metabolic genes in 13 founders of the Japanese citrus breeding population were explored using the SureSelect target enrichment method. An independent allele was determined based on the presence or absence of reliable SNPs, using trio analysis to confirm inheritability between parent and offspring. Among the 13 founders, there were 7 PSY alleles, 7 HYb alleles, 11 ZEP alleles, 5 NCED alleles, and 4 alleles for the eQTL that control the transcription levels of PDS and ZDS among the ancestral species, indicating that some founders acquired those alleles from them. The carotenoid composition data of 263 breeding pedigrees in juice sac tissues revealed that the phenotypic variance of carotenoid composition was similar to that in the 13 founders, whereas the mean of total carotenoid content increased. This increase in total carotenoid content correlated with the increase in either or both β-cryptoxanthin and violaxanthin in juice sac tissues. Bayesian statistical analysis between allelic composition of target genes and carotenoid composition in 263 breeding pedigrees indicated that PSY-a and ZEP-e alleles at PSY and ZEP loci had strong positive effects on increasing the total carotenoid content, including β-cryptoxanthin and violaxanthin, in juice sac tissues. Moreover, the pyramiding of these alleles also increased the β-cryptoxanthin content. Interestingly, the offset interaction between the alleles with increasing and decreasing effects on carotenoid content and the epistatic interaction among carotenoid metabolic genes were observed and these interactions complexed carotenoid profiles in breeding population. These results revealed that allele composition would highly influence the carotenoid composition in citrus fruits. The allelic genotype information for the examined carotenoid metabolic genes in major citrus varieties and the trio-tagged SNPs to discriminate the optimum alleles (PSY-a and ZEP-e) from the rest would promise citrus breeders carotenoid enrichment in fruit via molecular breeding.
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- 2021
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6. MITE insertion-dependent expression of CitRKD1 with a RWP-RK domain regulates somatic embryogenesis in citrus nucellar tissues
- Author
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Takehiko Shimada, Tomoko Endo, Hiroshi Fujii, Michiharu Nakano, Aiko Sugiyama, Genya Daido, Satoshi Ohta, Terutaka Yoshioka, and Mitsuo Omura
- Subjects
Somatic embryogenesis ,RKD ,Citrus ,DNA marker ,Egg cell ,Apomixis ,Botany ,QK1-989 - Abstract
Abstract Background Somatic embryogenesis in nucellar tissues is widely recognized to induce polyembryony in major citrus varieties such as sweet oranges, satsuma mandarins and lemons. This capability for apomixis is attractive in agricultural production systems using hybrid seeds, and many studies have been performed to elucidate the molecular mechanisms of various types of apomixis. To identify the gene responsible for somatic embryogenesis in citrus, a custom oligo-DNA microarray including predicted genes in the citrus polyembryonic locus was used to compare the expression profiles in reproductive tissues between monoembryonic and polyembryonic varieties. The full length of CitRKD1, which was identified as a candidate gene responsible for citrus somatic embryogenesis, was isolated from satsuma mandarin and its molecular function was investigated using transgenic ‘Hamlin’ sweet orange by antisense-overexpression. Results The candidate gene CitRKD1, predominantly transcribed in reproductive tissues of polyembryonic varieties, is a member of the plant RWP-RK domain-containing protein. CitRKD1 of satsuma mandarin comprised two alleles (CitRKD1-mg1 and CitRKD1-mg2) at the polyembryonic locus controlling embryonic type (mono/polyembryony) that were structurally divided into two types with or without a miniature inverted-repeat transposable element (MITE)-like insertion in the upstream region. CitRKD1-mg2 with the MITE insertion was the predominant transcript in flowers and young fruits where somatic embryogenesis of nucellar cells occurred. Loss of CitRKD1 function by antisense-overexpression abolished somatic embryogenesis in transgenic sweet orange and the transgenic T1 plants were confirmed to derive from zygotic embryos produced by self-pollination by DNA diagnosis. Genotyping PCR analysis of 95 citrus traditional and breeding varieties revealed that the CitRKD1 allele with the MITE insertion (polyembryonic allele) was dominant and major citrus varieties with the polyembryonic allele produced polyembryonic seeds. Conclusion CitRKD1 at the polyembryonic locus plays a principal role in regulating citrus somatic embryogenesis. CitRKD1 comprised multiple alleles that were divided into two types, polyembryonic alleles with a MITE insertion in the upstream region and monoembryonic alleles without it. CitRKD1 was transcribed in reproductive tissues of polyembryonic varieties with the polyembryonic allele. The MITE insertion in the upstream region of CitRKD1 might be involved in regulating the transcription of CitRKD1.
- Published
- 2018
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7. Effects of Salicylic Acid and Methyl Jasmonate Treatments on Flavonoid and Carotenoid Accumulation in the Juice Sacs of Satsuma Mandarin In Vitro
- Author
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Risa Yamamoto, Gang Ma, Lancui Zhang, Miki Hirai, Masaki Yahata, Kazuki Yamawaki, Takehiko Shimada, Hiroshi Fujii, Tomoko Endo, and Masaya Kato
- Subjects
flavonoid ,carotenoid ,salicylic acid ,methyl jasmonate ,citrus fruit ,juice sacs ,Technology ,Engineering (General). Civil engineering (General) ,TA1-2040 ,Biology (General) ,QH301-705.5 ,Physics ,QC1-999 ,Chemistry ,QD1-999 - Abstract
Salicylic acid and jasmonic acid are two important plant hormones that trigger the plant defense responses and regulate the accumulation of bioactive compounds in plants. In the present study, the effects of salicylic acid (SA) and methyl jasmonate (MeJA) on flavonoid and carotenoid accumulation were investigated in the juice sacs of Satsuma mandarin in vitro. The results showed that SA treatment was effective to enhance the contents of eriocitrin, narirutin, poncirin, and β-cryptoxanthin in the juice sacs (p < 0.05). In contrast, the MeJA treatment inhibited flavonoid and carotenoid accumulation in the juice sacs (p < 0.05). Gene expression results showed that the changes of flavonoid and carotenoid contents in the SA and MeJA treatments were highly regulated at the transcriptional level. In addition, a transcriptional factor CitWRKY70 was identified in the microarray analysis, which was induced by the SA treatment, while suppressed by the MeJA treatment. In the SA and MeJA treatments, the change in the expression of CitWRKY70 was consistent with that of flavonoid and carotenoid biosynthetic key genes. These results indicated that CitWRKY70 might be involved in the regulation of flavonoid and carotenoid accumulation in response to SA and MeJA treatments in the juice sacs of citrus fruit.
- Published
- 2020
- Full Text
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8. Allelic haplotype combinations at the MS-P1 region, including P-class pentatricopeptide repeat family genes, influence wide phenotypic variation in pollen grain number through a cytoplasmic male sterility model in citrus.
- Author
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Shingo Goto, Hiroshi Fujii, Hiroko Hamada, Satoshi Ohta, Tomoko Endo, Tokurou Shimizu, Keisuke Nonaka, and Takehiko Shimada
- Subjects
PENTATRICOPEPTIDE repeat genes ,CYTOPLASMIC male sterility ,POLLEN ,PHENOTYPIC plasticity ,HAPLOTYPES ,CITRUS - Abstract
In citrus breeding programs, male sterility is an important trait for developing seedless varieties. Sterility associated with the male sterile cytoplasm of Kishu mandarin (Kishu-cytoplasm) has been proposed to fit the cytoplasmic male sterility (CMS) model. However, it remains undetermined whether CMS in citrus is controlled by interactions between sterile cytoplasm and nuclear restorer-offertility (Rf) genes. Accordingly, mechanisms underlying the control of the wide phenotypic variation in pollen number for breeding germplasm should be elucidated. This study aimed to identify complete linkage DNA markers responsible for male sterility at the MS-P1 region based on fine mapping. Two P-class pentatricopeptide repeat (PPR) family genes were identified as candidates for Rf based on predicted mitochondrial localization and higher expression in a male fertile variety/selected strain than in a male sterile variety. Eleven haplotypes (HT1-HT11) at the MS-P1 region were defined based on genotyping of DNA markers. Association analysis of diplotypes at the MS-P1 region and the number of pollen grains per anther (NPG) in breeding germplasms harboring Kishu-cytoplasm revealed that the diplotypes in this region influenced NPG. Among these haplotypes, HT1 is a non-functional restorer-of-fertility (rf) haplotype; HT2, a less-functional Rf; HT3-HT5 are semi-functional Rfs; and HT6 and HT7 are functional Rfs. However, the rare haplotypes HT8-HT11 could not be characterized. Therefore, P-class PPR family genes in the MS-P1 region may constitute the nuclear Rf genes within the CMS model, and a combination of the seven haplotypes could contribute to phenotypic variation in the NPG of breeding germplasms. These findings reveal the genomic mechanisms of CMS in citrus and will contribute to seedless citrus breeding programs by selecting candidate seedless seedlings using the DNA markers at the MS-P1 region. [ABSTRACT FROM AUTHOR]
- Published
- 2024
- Full Text
- View/download PDF
9. Sequential positions and interactional functions of negative epistemic constructions in Japanese conversation
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Tomoko Endo
- Subjects
Linguistics and Language ,Language and Linguistics ,Education - Abstract
In this study, we adopted the methodology of conversation analysis and interactional linguistics to investigate the use of shiranai and wakannai ‘I don’t know’ in data from (the Corpus of Everyday Japanese Conversation), a corpus of naturally occurring conversations. The quantitative and qualitative analyses of the sequential positions and the interactional functions of these two expressions revealed that shiranai is often used as a response to a question that explicitly requests knowledge status. Shiranai is also used in response to informing, soliciting more talk from the interlocutor. On the other hand, wakannai is more often used as a response to a question that requests information. Used with prosodic features such as elongation and laughter, both shiranai and wakannai sometimes convey the speaker’s affective stance towards the lack of knowledge. Furthermore, wakannai can be used as a discourse marker to mark the speaker’s low degree of commitment, sometimes working as a sequence-closing device.
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- 2023
10. Development of Cultivar Identification System Using 12 InDel Markers for Widely Distributed Citrus Cultivars in Japan
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Tomoko ENDO, Hiroshi FUJII, and Takehiko SHIMADA
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Ecology ,Animal Science and Zoology ,Agronomy and Crop Science ,Biotechnology - Published
- 2022
11. Projective/retrospective linking of a contrastive idea: Interactional practices of turn-initial and turn-final uses of kedo ‘but’ in Japanese
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Daisuke Yokomori and Tomoko Endo
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Linguistics and Language ,Artificial Intelligence ,Language and Linguistics - Published
- 2022
12. A target cultivar-specific identification system based on the chromatographic printed array strip method for eight prominent Japanese citrus cultivars
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Mitsutoshi Okamoto, Yuki Monden, Akiko Shindo, Tomoyuki Takeuchi, Tomoko Endo, Yukinori Shigematsu, Kazuto Takasaki, Hiroshi Fujii, and Takehiko Shimada
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Genetics ,Plant Science ,Agronomy and Crop Science - Published
- 2023
13. Characterization of a Caffeic Acid 8-O-Methyltransferase from Citrus and Its Function in Nobiletin Biosynthesis
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Gang Ma, Lancui Zhang, Mao Seoka, Akari Nakata, Masaki Yahata, Takehiko Shimada, Hiroshi Fujii, Tomoko Endo, Terutaka Yoshioka, Toshiyuki Kan, and Masaya Kato
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General Chemistry ,General Agricultural and Biological Sciences - Published
- 2021
14. Efficacy and safety of intramuscular administration of tixagevimab-cilgavimab for early outpatient treatment of COVID-19 (TACKLE): a phase 3, randomised, double-blind, placebo-controlled trial
- Author
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Hugh Montgomery, F D Richard Hobbs, Francisco Padilla, Douglas Arbetter, Alison Templeton, Seth Seegobin, Kenneth Kim, Jesus Abraham Simón Campos, Rosalinda H Arends, Bryan H Brodek, Dennis Brooks, Pedro Garbes, Julieta Jimenez, Gavin C K W Koh, Kelly W Padilla, Katie Streicher, Rolando M Viani, Vijay Alagappan, Menelas N Pangalos, Mark T Esser, Wakana Abe, Tania Adan De Varona, Daria Adiatullina, Daniel Aguilar Zapata, Kevin Ahlers, Carolina Aimo, Ayoade Akere, Elena Akimova, Jorge Alatorre Alexander, Logan Aldrich, Ismael Ali Garcia, Karim Ali García, Lee Allison, Rosa Alonso Zuñiga, Ivan Aloysius, Javier Altclas, Andres Alvarisqueta, Martti Antila, Camila Anton, Elisabet Árboix Alamo, Samir Arora, Ramón Alejandro Avilés Felix, Natalya Bakhtina, Varenka Barbero-Becerra, Armando Barragan-Reyes, Alejandro Barreira, Mitchell Barrett, Jiri Beran, Nikolett Berki, Viktoria Berki, Richard Betten, Claudia Binelli, Lenka Brunzová, Cecilia Bussolari, Karianna Byargeon, Justyna Bytnar, Carlos Camberos, Pedro Campos Corzo, Grazia Cannon, Valentina Canovi, Simone Carla da Rosa, Ana Caroline Moser, Luis Carrera Rivas, Marcelo Martin Casas, Paulo Castañeda-Méndez, Ana Cavalcante, Eugenia Cherepova, Alexei Chermenskii, Lauren Clark, Mauro Codeluppi, Flavia Coelho, Belinda Contreras, Alex Cran, Taylor Dao, Chrisette Dharma, Cosimo Di Castri, Victoria Diaz Balocchi, Omar Durán, Kara Earl, Adam Ellery, Tomoko Endo, Andrea Everding, Rainald Fischer, Benedito Fonseca, Chelsea C. Franklin, Susan-Beatrice Franz, Anna Fumagalli, Mauricio Galindo-Amaya, Mariagiulia Galli, Laura Gerna, Karolly Gil Ureña, Henrikki Gomes Antila, Laura Ines Gomes Maricato, Gabriela Goncalvez, Martin Gonzalez, Jesús González-Lama, Stephen Granier, Jacob Granier, Stephan Grunwald, David Guardeño-Ropero, Monica Guberti, Sridhar Guduri, Carolina Guerrero García, Jehad Haggiagi, Kacie Hale, Toshimasa Hayashi, Maiara Hermes, Dante Hernandez Colin, Yuji Hirai, Masayuki Hojo, Tetsuya Homma, Billy Hour, Andreas Huber, Diego Iacovelli, Noriomi Ishibashi, Yutaro Iwabe, Shinyu Izumi, Arne Jessen, Heiko Jessen, Wilner Jeudy, Marta Jiménez Marcos, Rebecca Johnson, Eva Juárez-Hernández, Kiyomi Kabasawa, Katarzyna Kamińska, Megumi Kawabe, Angela Kemp, Oleg Khmelnitskiy, Carina Klassen, Olena Kobrynska, Pavel Koleckar, Stephanie Korn, Marc Kornmann, Viktor Kostenko, Evgenii Kovalchuk, Yana Kovalchuk, Tim Kümmerle, Ulrike Lachmund, Kerstin Lammersmann, Flávio Lastebasse, Ivana Lattuada, Felicitas Lauer, Kyrylo Lebed, Olga Lebed, Diego Lecona-Garcia, Maria Christina Leoni, Marina Lima, Raymond Little, Holly Little, Andrea Lizardi-Díaz, Michele Lobo-Becker, Francesco Luppi, Veronica Macias, Shigefumi Maesaki, Cristiano Magnaghi, Annalisa Mancini, Stanisław Mazur, Tatiana Melnikova, Sergio Menchaca, Ibrahim Menendez-Perez, Ewa Międlar, Shuuichi Mizunuma, Anastasiya Mochalova, Mihad Mohamed, Theresa Moll, Camila Montalvo, Amber Mottola, Birgit Mück, Rebeca Mussi Brugnolli, Akanksha Nanda, Dörthe Neuner, Agatha Ngwueke, Sebastian Noe, Martin Novacek, Laura Nuzzolo-Shihadeh, Emeka Obiekwe, Isaias G. Ocampo Gaytán, Norio Ohmagari, Shin Ohta, Ptuonye Onyewuchi, Iurii Pankov, Maurício Pedrosa, Yael Peré, Alejandro Pereyra, Eliana Perez, Eduardo Perez-Alba, Paloma Perpiña Lozano, Tanya Perrei, Dena Peterson, Ligia Pierroti, Felipe Pineda-Cárdenas, Teresa Plascencia Sanchez, Camila Poletti, Chiara Pomaranzi, Lisette Portes, Nils Postel, Monica Ramirez, Isabel Ramírez, Miguel Ramirez-Baena, Mahadev Ramjee, Giovanna Ratti, Jackie Reeve, Petr Reichert, Petra Reichertová, Edgar Alejandro Reyes Garcia, Celso Ricardo, Nicomedes Rodríguez Rodríguez, Jaun Roldán Sánchez, Matilde Romero-Lopez, Tyrone Rosales, Harvey Rosales, Mohamed Roshan, Simran Roshan, Patrizia Rovere Querini, Heather Rutter, Sadaf Sachwani, Hironori Sagara, Jun Sakai, Nina Samson, José Héctor Sánchez Mijangos, Liliana Sánchez, Ana Sánchez-González, Micko Sandford, Laura Santana, Felipe Santos de Carvalho, Reiko Sasao, Lubna Sato, Elizabeth Scheuermann, Olaf Schmidt, Masafumi Seki, Safia Shaikh, Daishi Shimada, Masaharu Shinkai, Masahiro Shinoda, Jackie Smith, Fernando Solorzano, Silvia Soncini, Katalin Soregine, Erica Sosa, Olalekan Sowade, Veronika Špinková, Ruth Staniford, Iska Steigemann, Vivien Steiner, Vladimir Strelkov, Cintya R. Suárez Pineda, Hiroki Suenaga, Shintaro Suzaki, Hannah Swayze, Yuji Tada, Yuichiro Takeshita, Yasuo Takiguchi, Akihiko Tanaka, Norihito Tarumoto, Albina Tatarintseva, Michelle Taubert, Elizaveta Terenya, César Tinoco, Tomohiro Tomiyasu, Gladys Torres-Vidal, Gabriela Trejo-Aguiar, Kenji Tsushima, Emma Tunstall, Caterina Turrà, Yoandy Valdes, Nelly Valencia Castro, Guilherme Visconti, Giordano Vitali, Apinya Vutikullird, Jezdancher Watti, Doreen Werth, Cheyanne Wilson, Philippe Wilson, Amy Workman, Pamela Wörle, Christoph Wyen, Yoshiko Yamaguchi, and Kei Yamamoto
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Adult ,Pulmonary and Respiratory Medicine ,Treatment Outcome ,Double-Blind Method ,SARS-CoV-2 ,Outpatients ,Antibodies, Monoclonal ,Humans ,Middle Aged ,COVID-19 Drug Treatment - Abstract
Background: Early intramuscular administration of SARS-CoV-2-neutralising monoclonal antibody combination, tixagevimab–cilgavimab, to non-hospitalised adults with mild to moderate COVID-19 has potential to prevent disease progression. We aimed to evaluate the safety and efficacy of tixagevimab–cilgavimab in preventing progression to severe COVID-19 or death. Methods: TACKLE is an ongoing, phase 3, randomised, double-blind, placebo-controlled study conducted at 95 sites in the USA, Latin America, Europe, and Japan. Eligible participants were non-hospitalised adults aged 18 years or older with a laboratory-confirmed SARS-CoV-2 infection (determined by RT-PCR or an antigen test) from any respiratory tract specimen collected 3 days or less before enrolment and who had not received a COVID-19 vaccination. A WHO Clinical Progression Scale score from more than 1 to less than 4 was required for inclusion and participants had to receive the study drug 7 days or less from self-reported onset of mild to moderate COVID-19 symptoms or measured fever. Participants were randomly assigned (1:1) to receive either a single tixagevimab–cilgavimab 600 mg dose (two consecutive 3 mL intramuscular injections, one each of 300 mg tixagevimab and 300 mg cilgavimab) or placebo. Randomisation was stratified (using central blocked randomisation with randomly varying block sizes) by time from symptom onset, and high-risk versus low-risk of progression to severe COVID-19. Participants, investigators, and sponsor staff involved in the treatment or clinical evaluation and monitoring of the participants were masked to treatment-group assignments. The primary endpoints were severe COVID-19 or death from any cause through to day 29, and safety. This study is registered with ClinicalTrials.gov, NCT04723394. Findings: Between Jan 28, 2021, and July 22, 2021, 1014 participants were enrolled, of whom 910 were randomly assigned to a treatment group (456 to receive tixagevimab–cilgavimab and 454 to receive placebo). The mean age of participants was 46·1 years (SD 15·2). Severe COVID-19 or death occurred in 18 (4%) of 407 participants in the tixagevimab–cilgavimab group versus 37 (9%) of 415 participants in the placebo group (relative risk reduction 50·5% [95% CI 14·6–71·3]; p=0·0096). The absolute risk reduction was 4·5% (95% CI 1·1–8·0; p Interpretation: A single intramuscular tixagevimab–cilgavimab dose provided statistically and clinically significant protection against progression to severe COVID-19 or death versus placebo in unvaccinated individuals and safety was favourable. Treating mild to moderate COVID-19 earlier in the disease course with tixagevimab–cilgavimab might lead to more favourable outcomes.
- Published
- 2022
15. Biological and molecular characterization of linalool-mediated field resistance against Xanthomonas citri subsp. citri in citrus trees
- Author
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Mitsuo Omura, Tomoko Endo, Terutaka Yoshioka, Leandro Peña, Hiroshi Fujii, Takehiko Shimada, and Ana Rodríguez
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Canker ,Citrus ,education.field_of_study ,Xanthomonas ,Physiology ,Acyclic Monoterpenes ,Population ,food and beverages ,Plant Science ,Biology ,medicine.disease ,Trees ,Xanthomonas citri ,chemistry.chemical_compound ,Horticulture ,stomatognathic system ,Linalool ,chemistry ,Ponkan ,Citrus canker ,medicine ,Cultivar ,education ,Systemic acquired resistance ,Plant Diseases - Abstract
The biological and molecular traits of the Ponkan mandarin (Citrus reticulata Blanco) were characterized in an investigation of the mechanisms of field resistance against citrus canker disease caused by the bacterial pathogen, Xanthomonas citri subsp. citri (Xcc). Various conventional citrus varieties that show diverse responses to Xcc were investigated, and the temporal changes in Xcc titer in response to linalool concentrations among the varieties revealed differences in Xcc proliferation trends in the inoculated leaves of the immune, field-resistant and susceptible varieties. In addition, increased linalool accumulation was inversely related to Xcc titers in the field-resistant varieties, which is likely caused by host--pathogen interactions. Quantitative trait locus (QTL) analysis using the F1 population of the resistant Ponkan mandarin and susceptible ‘Harehime’ (‘E-647’ × ‘Miyagawa-wase’) cultivar revealed that linalool accumulation and Xcc susceptibility QTLs overlapped. These results provide novel insights into the molecular mechanisms of linalool-mediated field resistance to Xcc, and suggest that high linalool concentrations in leaves has an antibacterial effect and becomes a candidate-biomarker target for citrus breeding to produce seedlings with linalool-mediated field resistance against Xcc.
- Published
- 2021
16. Development of Acid Citrus Cultivar Identification by CAPS Markers
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Eri Niimi, Takuya Iwakura, Takehiko Shimada, Hiroshi Fujii, Tomoko Endo, and Satoshi Ohta
- Subjects
Horticulture ,General Engineering ,General Earth and Planetary Sciences ,Identification (biology) ,Cultivar ,Biology ,General Environmental Science - Published
- 2021
17. The Japanese benefactive -te ageru construction in family and adult interactions
- Author
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Tomoko Endo
- Subjects
050101 languages & linguistics ,Linguistics and Language ,Point (typography) ,media_common.quotation_subject ,05 social sciences ,Socialization ,Contrast (statistics) ,Interpersonal communication ,Directive ,050105 experimental psychology ,Language and Linguistics ,Linguistics ,Resource (project management) ,Rule-based machine translation ,Artificial Intelligence ,0501 psychology and cognitive sciences ,Psychology ,Function (engineering) ,media_common - Abstract
This study investigates the Japanese benefactive -te ageru construction in three corpora of naturally occurring interactions: (1) the caregiver–child interaction at home, (2) workplace interactions among adult workers, and (3) various types of everyday conversations. Comparison of adult–adult and family interactions revealed a significant difference in the usage of the benefactive -te ageru construction. In adult-child interactions, the -te ageru construction is generally used in a directive or commissive. In contrast, such uses are rarely observed in adult–adult interactions. Importantly, it is also observed that the same individual may use the construction rather differently according to the speech setting. Qualitative analysis revealed that in family interactions, the construction works as a resource for language socialization, whereas in adult–adult interactions, the construction can function to mark interpersonal consideration. Systematic differences in the same speaker's usage patterns may suggest not only that they are sensitive to social norms, but also, from the point of view of multiple grammars as advocated in this special issue, that they store related grammatical constructions differently for different social situations and execute them appropriately.
- Published
- 2021
18. Cross-Linguistic Investigation of Projection in Overlapping Agreements to Assertions: Stance-Taking as a Resource for Projection
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Tomoko Endo, Daisuke Yokomori, and Anna Vatanen
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Linguistics and Language ,Computer science ,Communication ,05 social sciences ,050301 education ,050105 experimental psychology ,Language and Linguistics ,Variety (cybernetics) ,Resource (project management) ,Human–computer interaction ,0501 psychology and cognitive sciences ,Projection (set theory) ,0503 education ,Cross linguistic - Abstract
The human ability to anticipate upcoming behavior not only enables smooth turn transitions but also makes early responses possible, as respondents use a variety of cues that provide for early proje...
- Published
- 2020
19. Mikan Genome Database (MiGD): integrated database of genome annotation, genomic diversity, and CAPS marker information for mandarin molecular breeding
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Takeshi Itoh, Mitsuo Omura, Hiroshi Fujii, Yoshihiro Kawahara, Tomoko Endo, Yumiko Teramoto, and Takehiko Shimada
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0106 biological sciences ,0301 basic medicine ,Sequence assembly ,Hybrid genome assembly ,Plant Science ,Computational biology ,Genome browser ,Biology ,Poncirus trifoliata ,01 natural sciences ,Genome ,03 medical and health sciences ,Cleaved amplified polymorphic sequence ,Genetics ,CAPS marker ,Molecular breeding ,genome annotation database ,hybrid genome assembly ,Illumina sequencing-by-synthesis technology ,food and beverages ,Genome project ,biology.organism_classification ,Citrus unshiu ,030104 developmental biology ,PacBio single-molecule sequencing technology ,Agronomy and Crop Science ,010606 plant biology & botany ,Research Paper - Abstract
Citrus species are some of the most valuable and widely consumed fruits globally. The genome sequences of representative citrus (e.g., Citrus clementina, C. sinensis, C. grandis) species have been released but the research base for mandarin molecular breeding is still poor. We assembled the genomes of Citrus unshiu and Poncirus trifoliata, two important species for citrus industry in Japan, using hybrid de novo assembly of Illumina and PacBio sequence data, and developed the Mikan Genome Database (MiGD). The assembled genome sizes of C. unshiu and P. trifoliata are 346 and 292 Mb, respectively, similar to those of citrus species in public databases; they are predicted to possess 41,489 and 34,333 protein-coding genes in their draft genome sequences, with 9,642 and 8,377 specific genes when compared to C. clementina, respectively. MiGD is an integrated database of genome annotation, genetic diversity, and Cleaved Amplified Polymorphic Sequence (CAPS) marker information, with these contents being mutually linked by genes. MiGD facilitates access to genome sequences of interest from previously reported linkage maps through CAPS markers and obtains polymorphism information through the multiple genome browser TASUKE. The genomic resources in MiGD (https://mikan.dna.affrc.go.jp) could provide valuable information for mandarin molecular breeding in Japan.
- Published
- 2020
20. TaqMan-MGB SNP genotyping assay to identify 48 citrus cultivars distributed in the Japanese market
- Author
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Takehiko Shimada, Terutaka Yoshioka, Mitsuo Omura, Tomoko Endo, and Hiroshi Fujii
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0106 biological sciences ,0301 basic medicine ,food fraud ,Food fraud ,processed fruit ,Plant Science ,Biology ,01 natural sciences ,03 medical and health sciences ,Genotype ,Genetics ,TaqMan ,SNP ,Cultivar ,Genotyping ,food and beverages ,fruit ,protection ,SNP genotyping ,Horticulture ,030104 developmental biology ,Primer (molecular biology) ,Agronomy and Crop Science ,breeders’ rights ,Research Paper ,010606 plant biology & botany - Abstract
A citrus cultivar identification system using CAPS marker has been developed on nursery trees, but this needs to be extended to include various product types, such as imported fruits and processed products. Here, we developed a new cultivar identification system using TaqMan-MGB SNP genotyping assay. Eight probe and primer sets were designed to amplify PCR fragments
- Published
- 2020
21. Embodied practice in a tidying up activity
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Ron Korenaga, Ippei Mori, Masafumi Sunaga, Satoru Ikegami, and Tomoko Endo
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General Medicine - Abstract
This article explores how collaborative tidying up activities in a family are accomplished and negotiations take place among family members. Employing ethnomethodology and conversation analysis on collected video data, we focus on the directive/response sequence and the incumbency of the category of ‘family’, which engenders responsibilities for family members. We consequently elucidate how the children’s responses reveal invalidation of the directive when they were not entitled to do so in terms of the responsibility and materiality of objects. We also explore how participants make the materiality of objects accountable through their verbal and embodied conduct in the tidying up activity.
- Published
- 2021
22. Recipient design and collaboration in language socialization: A multimodal analysis of a Japanese household religious ritual.
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Tomoko Endo
- Subjects
- *
INTONATION (Phonetics) , *JAPANESE language , *RITES & ceremonies , *VERBS , *SOCIALIZATION , *RITUAL - Published
- 2023
- Full Text
- View/download PDF
23. Allelic composition of carotenoid metabolic genes in 13 founders influences carotenoid composition in juice sac tissues of fruits among Japanese citrus breeding population
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Mai F. Minamikawa, Hiroyoshi Iwata, Tomoko Endo, Aiko Sugiyama, Mitsuo Omura, Takehiko Shimada, Keisuke Nonaka, Hiroshi Fujii, and Kosuke Hamazaki
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0106 biological sciences ,0301 basic medicine ,Pigments ,Citrus ,Heredity ,Single Nucleotide Polymorphisms ,01 natural sciences ,Japan ,Genotype ,Carotenoid ,Materials ,chemistry.chemical_classification ,Molecular breeding ,Genetics ,education.field_of_study ,Multidisciplinary ,food and beverages ,Eukaryota ,Plants ,Genetic Mapping ,Physical Sciences ,Medicine ,Research Article ,Science ,Population ,Materials Science ,Quantitative Trait Loci ,Single-nucleotide polymorphism ,Variant Genotypes ,Quantitative trait locus ,Biology ,Genes, Plant ,Oranges ,Polymorphism, Single Nucleotide ,Fruits ,03 medical and health sciences ,Allele ,education ,Gene ,Alleles ,Organic Pigments ,Organisms ,Biology and Life Sciences ,Carotenoids ,Plant Breeding ,030104 developmental biology ,chemistry ,Genetic Loci ,Seedlings ,Fruit ,010606 plant biology & botany - Abstract
To enrich carotenoids, especially β-cryptoxanthin, in juice sac tissues of fruits via molecular breeding in citrus, allele mining was utilized to dissect allelic variation of carotenoid metabolic genes and identify an optimum allele on the target loci characterized by expression quantitative trait (eQTL) analysis. SNPs of target carotenoid metabolic genes in 13 founders of the Japanese citrus breeding population were explored using the SureSelect target enrichment method. An independent allele was determined based on the presence or absence of reliable SNPs, using trio analysis to confirm inheritability between parent and offspring. Among the 13 founders, there were 7 PSY alleles, 7 HYb alleles, 11 ZEP alleles, 5 NCED alleles, and 4 alleles for the eQTL that control the transcription levels of PDS and ZDS among the ancestral species, indicating that some founders acquired those alleles from them. The carotenoid composition data of 263 breeding pedigrees in juice sac tissues revealed that the phenotypic variance of carotenoid composition was similar to that in the 13 founders, whereas the mean of total carotenoid content increased. This increase in total carotenoid content correlated with the increase in either or both β-cryptoxanthin and violaxanthin in juice sac tissues. Bayesian statistical analysis between allelic composition of target genes and carotenoid composition in 263 breeding pedigrees indicated that PSY-a and ZEP-e alleles at PSY and ZEP loci had strong positive effects on increasing the total carotenoid content, including β-cryptoxanthin and violaxanthin, in juice sac tissues. Moreover, the pyramiding of these alleles also increased the β-cryptoxanthin content. Interestingly, the offset interaction between the alleles with increasing and decreasing effects on carotenoid content and the epistatic interaction among carotenoid metabolic genes were observed and these interactions complexed carotenoid profiles in breeding population. These results revealed that allele composition would highly influence the carotenoid composition in citrus fruits. The allelic genotype information for the examined carotenoid metabolic genes in major citrus varieties and the trio-tagged SNPs to discriminate the optimum alleles (PSY-a and ZEP-e) from the rest would promise citrus breeders carotenoid enrichment in fruit via molecular breeding.
- Published
- 2021
24. Effects of Salicylic Acid and Methyl Jasmonate Treatments on Flavonoid and Carotenoid Accumulation in the Juice Sacs of Satsuma Mandarin In Vitro
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Gang Ma, Kazuki Yamawaki, Takehiko Shimada, Tomoko Endo, Lancui Zhang, Risa Yamamoto, Hiroshi Fujii, Miki Hirai, Masaki Yahata, and Masaya Kato
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0106 biological sciences ,salicylic acid ,Flavonoid ,01 natural sciences ,lcsh:Technology ,lcsh:Chemistry ,03 medical and health sciences ,chemistry.chemical_compound ,General Materials Science ,flavonoid ,Food science ,Instrumentation ,Carotenoid ,lcsh:QH301-705.5 ,030304 developmental biology ,Fluid Flow and Transfer Processes ,Poncirin ,chemistry.chemical_classification ,0303 health sciences ,Methyl jasmonate ,Narirutin ,lcsh:T ,Process Chemistry and Technology ,Jasmonic acid ,fungi ,juice sacs ,General Engineering ,food and beverages ,citrus fruit ,methyl jasmonate ,lcsh:QC1-999 ,carotenoid ,Computer Science Applications ,chemistry ,lcsh:Biology (General) ,lcsh:QD1-999 ,lcsh:TA1-2040 ,Eriocitrin ,lcsh:Engineering (General). Civil engineering (General) ,Salicylic acid ,lcsh:Physics ,010606 plant biology & botany - Abstract
Salicylic acid and jasmonic acid are two important plant hormones that trigger the plant defense responses and regulate the accumulation of bioactive compounds in plants. In the present study, the effects of salicylic acid (SA) and methyl jasmonate (MeJA) on flavonoid and carotenoid accumulation were investigated in the juice sacs of Satsuma mandarin in vitro. The results showed that SA treatment was effective to enhance the contents of eriocitrin, narirutin, poncirin, and &beta, cryptoxanthin in the juice sacs (p <, 0.05). In contrast, the MeJA treatment inhibited flavonoid and carotenoid accumulation in the juice sacs (p <, 0.05). Gene expression results showed that the changes of flavonoid and carotenoid contents in the SA and MeJA treatments were highly regulated at the transcriptional level. In addition, a transcriptional factor CitWRKY70 was identified in the microarray analysis, which was induced by the SA treatment, while suppressed by the MeJA treatment. In the SA and MeJA treatments, the change in the expression of CitWRKY70 was consistent with that of flavonoid and carotenoid biosynthetic key genes. These results indicated that CitWRKY70 might be involved in the regulation of flavonoid and carotenoid accumulation in response to SA and MeJA treatments in the juice sacs of citrus fruit.
- Published
- 2020
- Full Text
- View/download PDF
25. Chapter 8. Self-addressed questions as fixed expressions for epistemic stance marking in Japanese conversation
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Daisuke Yokomori and Tomoko Endo
- Subjects
media_common.quotation_subject ,Conversation ,Psychology ,Epistemology ,media_common - Published
- 2020
26. Fast-track breeding system to introduce CTV resistance of trifoliate orange into citrus germplasm, by integrating early flowering transgenic plants with marker-assisted selection
- Author
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Hiroshi Fujii, Tomoko Endo, Mitsuo Omura, and Takehiko Shimada
- Subjects
Genetic Markers ,0106 biological sciences ,0301 basic medicine ,Germplasm ,Citrus ,Backcross ,Closterovirus ,Juvenile fruit tree ,Breeding period ,CTV resistance ,Plant Science ,Genetically modified crops ,Poncirus trifoliata ,Plant disease resistance ,01 natural sciences ,03 medical and health sciences ,lcsh:Botany ,Null segregant ,Selection, Genetic ,Disease Resistance ,Plant Diseases ,biology ,food and beverages ,Citrus tristeza virus ,Marker-assisted selection ,Plants, Genetically Modified ,biology.organism_classification ,lcsh:QK1-989 ,Trifoliate orange ,Plant Breeding ,Horticulture ,030104 developmental biology ,Citrus canker ,Backcrossing ,Germ Cells, Plant ,Research Article ,010606 plant biology & botany - Abstract
Background Global warming will expand the range of new and invasive pathogens in orchards, and subsequently increase the risk of disease epidemics and economic losses. The development of new resistant plant varieties can help to reduce the impact of pathogens, however, the breeding speed can be extremely slow, due to the growth rates of the plants, and the availability of resistance genes. Citrus trees are suffering immense damage from serious diseases such as citrus canker (XCC), huanglongbing (HLB), and citrus tristeza virus (CTV). A fast-track breeding system, that aimed at shortening the duration for disease resistance breeding by incorporating the resistance genes from related species to commercial varieties, has been developed using the integration of precocious transgenic trifoliate orange with the overexpression of CiFT and MAS. It was applied here to incorporate CTV resistance of trifoliate orange into citrus germplasm. Results One generation of backcrossed breeding, that would normally take at least 5 years, was achieved in a single year by fast-track breeding system. Linkage analysis using the corresponding DNA markers revealed that CTV resistance and T-DNA integrated regions were found in different linkage groups, and they were independently segregated in the BC progenies. The CTV resistant null segregants, in which the T-DNA integrated region was removed from their genome, were feasibly obtained by MAS in each generation of the BC progenies, and their CTV resistance was confirmed by immunological analysis. Several BC3 null segregants, whose genetic backgrounds had been substituted into citrus germplasm, except for the haplotype block of CTV resistance, were successfully obtained. CGH and NGS analyses revealed that the T-DNA integrated region was safely segregated out in null segregants. Conclusion Fast-track breeding systems are expected to shorten the required breeding time by more than one-fifth in comparison with conventional cross breeding techniques. Using this system, we obtained BC3–8, whose genetic background was successfully substituted except for the CTV resistance locus, and could be a novel mandarin breeding material. The fast-track breeding system will be useful to introduce important traits from related species to citrus germplasm while also drastically reducing the time required for breeding.
- Published
- 2020
27. Cooperative action of IFN-γ and IL-4 to induce M2-like macrophages
- Author
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Saki Shiga, Tomoko Endo, Natsumi Mizuno, Saeko Matsuda, and Yoshiki Yanagawa
- Subjects
Applied Mathematics ,General Mathematics - Published
- 2022
28. DHA and 19,20-EDP induce lysosomal-proteolytic-dependent cytotoxicity through de novo ceramide production in H9c2 cells with a glycolytic profile
- Author
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Tomoko Endo, Ahmed M. Darwesh, Victor Samokhvalov, Ayman O.S. El-Kadi, John M. Seubert, Ahmed A. El-Sherbeni, Kevin M. W. Khey, Masahiko Hirafuji, and Takuji Machida
- Subjects
0301 basic medicine ,Cancer Research ,Ceramide ,Programmed cell death ,Cell type ,Chemistry ,lcsh:Cytology ,Immunology ,Cell Biology ,Metabolism ,Oxidative phosphorylation ,lcsh:Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,lcsh:RC254-282 ,Article ,3. Good health ,Cell biology ,03 medical and health sciences ,Cellular and Molecular Neuroscience ,chemistry.chemical_compound ,030104 developmental biology ,Docosahexaenoic acid ,Glycolysis ,lcsh:QH573-671 ,Cytotoxicity - Abstract
Docosahexaenoic acid (DHA) and their CYP-derived metabolites, epoxydocosapentaenoic acids (EDPs), are important fatty acids obtained from dietary sources. While it is known that they have significant biological effects, which can differ between cell type and disease state, our understanding of how they work remains limited. Previously, we demonstrated that DHA and 19,20-EDP triggered pronounced cytotoxicity in H9c2 cells correlating with increased ceramide production. In this study, we examine whether DHA- and 19,20-EDP-induced cell death depends on the type of metabolism (glycolysis or OXPHOS). We cultivated H9c2 cells in distinct conditions that result in either glycolytic or oxidative metabolism. Our major findings suggest that DHA and its epoxy metabolite, 19,20-EDP, trigger cytotoxic effects toward H9c2 cells with a glycolytic metabolic profile. Cell death occurred through a mechanism involving activation of a lysosomal-proteolytic degradation pathway. Importantly, accumulation of ceramide played a critical role in the susceptibility of glycolytic H9c2 cells to cytotoxicity. Furthermore, our data suggest that an alteration in the cellular metabolic profile is a major factor determining the type and magnitude of cellular toxic response. Together, the novelty of this study demonstrates that DHA and 19,20-EDP induce cell death in H9c2 cells with a glycolytic metabolicwct 2 profile through a lysosomal-proteolytic mechanism.
- Published
- 2018
29. The Japanese change-of-state tokens a and aa in responsive units
- Author
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Tomoko Endo
- Subjects
060201 languages & linguistics ,Register (sociolinguistics) ,Linguistics and Language ,Communication ,Computer science ,business.industry ,media_common.quotation_subject ,Contrast (statistics) ,Cognition ,06 humanities and the arts ,Japanese particles ,Language and Linguistics ,Surprise ,Artificial Intelligence ,0602 languages and literature ,Conversation ,State (computer science) ,business ,Utterance ,media_common - Abstract
This paper investigates Japanese particles a and aa in responsive turns. Although both of these tokens display change-of-state of the speaker's cognitive state, they mark different types of epistemic stance. Through analysis of collocating items and sequential environments, it is shown that by producing an a -prefaced response, speakers display a change of state from not-knowing to knowing, receipting the information as new and thereby exhibiting surprise. By contrast, with an aa -prefaced response, speakers display a change of state but simultaneously show that they have previous knowledge of some parts of the informing. To demonstrate the knowledge, an aa -speaker often extends a sequence by providing a piece of information that has not been mentioned in the conversation. Although infrequently, a and aa sometimes co-occur in one utterance, in the order of a followed by aa , working together as resources to register the change of state and display understanding.
- Published
- 2018
30. Units in responsive turns
- Author
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Marja-Liisa Helasvuo, Tomoko Endo, and Elise Kärkkäinen
- Subjects
060201 languages & linguistics ,Linguistics and Language ,Interactional linguistics ,Phrase ,Grammar ,Computer science ,media_common.quotation_subject ,ta6121 ,06 humanities and the arts ,Language and Linguistics ,Linguistics ,Focus (linguistics) ,Social actions ,Conversation analysis ,Artificial Intelligence ,0602 languages and literature ,Conversation ,Sentence ,media_common - Abstract
The focus of much interactional linguistic research to date has been on establishing evidence for classical linguistic units like word, phrase, clause, and even sentence, as units relevant for participants in interaction (see, for example, Ford et al., 2013 ; Linell, 2013 ; Szczepek Reed and Raymond, 2013 ). The central units of language in interaction are turns, and the formulation of a turn is crucially affected by its position in a conversational sequence. Viewing grammar from this perspective is what Schegloff (1996) calls “positionally sensitive” grammar. This special issue aims to describe grammar in positionally sensitive terms, focusing on the question of units in one sequential environment in conversation, namely in responsive turns. The articles in this issue explore the nature of linguistic and interactional units in responsive positions in talk, adopting an interactional linguistic approach and using the methods of conversation analysis and functional linguistics. Responsive turns frequently consist of units smaller than clauses, while turns that initiate sequences, such as questions, are more likely to be formulated as clause-sized units. The articles in this special issue focus on the size, syntactic nature, prosodic delivery and bodily-visual construction of responsive units, and the social actions those units serve to perform.
- Published
- 2018
31. Identification and Parentage Analysis of Citrus Cultivars Developed in Japan by CAPS Markers
- Author
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Tomoko Endo, Hiroshi Fujii, Mitsuo Omura, Keisuke Nonaka, Masayuki Kita, Terutaka Yoshioka, and Takehiko Shimada
- Subjects
0106 biological sciences ,0301 basic medicine ,03 medical and health sciences ,030104 developmental biology ,Botany ,Genotype ,Identification (biology) ,Plant Science ,Cultivar ,Horticulture ,Biology ,01 natural sciences ,010606 plant biology & botany - Published
- 2017
32. Allelic diversity of phytoene synthase gene influences the transcription level in citrus fruit among a citrus F1 hybrid population
- Author
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Tomoko Endo, Hirohisa Nesumi, Yoshinori Ikoma, Hiroshi Fujii, Takehiko Shimada, Mitsuo Omura, and Aiko Sugiyama
- Subjects
0106 biological sciences ,0301 basic medicine ,Genetics ,education.field_of_study ,Phytoene synthase ,biology ,Population ,Promoter ,Plant Science ,01 natural sciences ,Genome ,03 medical and health sciences ,030104 developmental biology ,Transcription (biology) ,Genotype ,biology.protein ,Allele ,education ,Agronomy and Crop Science ,Gene ,010606 plant biology & botany - Abstract
Phytoene synthase (PSY) is one of the key regulatory enzyme on the biosynthesis and accumulation of carotenoid in citrus fruits. The transcriptional diversity of PSY is mainly attributed to the structural variation in promoter region among PSY alleles. In aim to clarify how this transcriptional diversity is regulated among them, PSY alleles responsible for carotenoid biosynthesis in the fruits are characterized and their promoter sequences were compared. Based on gene structure and expression pattern of PSY homologues on the clementine mandarin genome sequence, PSY alleles responsible for carotenoid biosynthesis are derived from a single locus in the scaffold 6. AG mapping population possessed four PSY alleles derived from parent lines of A255 and G434, and their F1 individuals with PSY-g2 allele tended to have low transcription level. From sequence comparison of their promoter regions, the cis-motif alternation from MYBPZM to RAV1AAT might be a candidate to influence the transcription level. Among the ancestral pedigree varieties of AG mapping population, the transcription level of PSY correlated with genotypes of MYBPZM and RAV1AAT motifs in the promoter region of PSY alleles, so that homozygous genotype of MYBPZM showed higher transcription level while heterozygous genotype of MYBPZM and RAV1AAT showed lower transcription level.
- Published
- 2017
33. Blue LED light induces regreening in the flavedo of Valencia orange in vitro
- Author
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Gang Ma, Rin Kudaka, Masaya Kato, Mao Seoka, Tomoko Endo, Masaki Yahata, Hiroshi Fujii, Takehiko Shimada, Kazuki Yamawaki, Yurika Kitaya, and Lancui Zhang
- Subjects
Chlorophyll ,Lutein ,Citrus ,Light ,Light treatment ,Xanthophylls ,01 natural sciences ,Valencia orange ,Analytical Chemistry ,chemistry.chemical_compound ,0404 agricultural biotechnology ,food ,Gene Expression Regulation, Plant ,Carotenoid ,chemistry.chemical_classification ,Pigmentation ,010401 analytical chemistry ,Light irradiation ,04 agricultural and veterinary sciences ,General Medicine ,beta Carotene ,040401 food science ,Carotenoids ,food.food ,In vitro ,0104 chemical sciences ,Horticulture ,chemistry ,Fruit ,Food Science ,Citrus fruit ,Citrus sinensis - Abstract
In the present study, the effects of blue LED light on the regreening of citrus fruit were investigated in an in vitro system of Valencia orange flavedos. The results showed that blue LED light irradiation induced regreening in the flavedos. After four-week culture in vitro, the flavedos exhibited obviously green color in the blue LED light treatment, while the flavedos in the control were still in orange color. During the regreening process, the blue LED light treatment induced chlorophyll accumulation, and substantially altered the carotenoid composition in the flavedos. Compared with the control, the content of 9-cis-violaxanthin was decreased, while the contents of lutein, β-carotene, and all-trans-violaxanthin were increased by blue LED light. In addition, gene expression results showed that the up-regulation of CitLCYe and down-regulation of CitLCYb2 by blue LED light led to a shift from β,β-branch to β,e-branch of the carotenoid biosynthetic pathway.
- Published
- 2019
34. Embodying stance: wo juede ‘I feel/think’ and gaze
- Author
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Tomoko Endo
- Published
- 2019
35. Clinical Characteristics of Subependymal Giant Cell Astrocytoma in Tuberous Sclerosis Complex
- Author
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Jansen, Anna C. Belousova, Elena Benedik, Mirjana P. Carter, Tom Cottin, Vincent Curatolo, Paolo Dahlin, Maria and D'Amato, Lisa d'Augeres, Guillaume Beaure de Vries, Petrus J. and Ferreira, Jose C. Feucht, Martha Fladrowski, Carla and Hertzberg, Christoph Jozwiak, Sergiusz Lawson, John A. and Macaya, Alfons Marques, Ruben Nabbout, Rima O'Callaghan, Finbar Qin, Jiong Sander, Valentin Sauter, Matthias and Shah, Seema Takahashi, Yukitoshi Touraine, Renaud Youroukos, Sotiris Zonnenberg, Bernard Kingswood, John C. Shinohara, Nobuo Horie, Shigeo Kubota, Masaya Tohyama, Jun Imai, Katsumi Kaneda, Mari Kaneko, Hideo Uchida, Yasushi and Kirino, Tomoko Endo, Shoichi Inoue, Yoshikazu Uruno, Katsuhisa Serdaroglu, Ayse Yapici, Zuhal Anlar, Banu and Altunbasak, Sakir Lvova, Olga Belyaev, Oleg Valeryevich and Agranovich, Oleg Levitina, Elena Vladislavovna Maksimova, Yulia Vladimirovna Karas, Antonina Jiang, Yuwu Zou, Liping Xu, Kaifeng Zhang, Yushi Luan, Guoming Zhang, Yuqin Wang, Yi and Jin, Meiling Ye, Dingwei Liao, Weiping Zhou, Liemin and Liu, Jie Liao, Jianxiang Yan, Bo Deng, Yanchun Jiang, Li and Liu, Zhisheng Huang, Shaoping Li, Hua Kim, Kijoong and Chen, Pei-Lung Lee, Hsiu-Fen Tsai, Jeng-Dau Chi, Ching-Shiang Huang, Chao-Ching Riney, Kate Yates, Deborah and Kwan, Patrick Likasitwattanakul, Surachai Nabangchang, Charcrin Chomtho, Lunliya Thampratankul Krisnachai Katanyuwong, Kamornwan Sriudomkajorn, Somjit Wilmshurst, Jo Segel, Reeval and Gilboa, Tal Tzadok, Michal Fattal-Valevski, Aviva and Papathanasopoulos, Panagiotis Papavasiliou, Antigone Syrigou and Giannakodimos, Stylianos Gatz, Stylianos Pavlou, Evangelos and Tzoufi, Meropi Vergeer, A. M. H. Dhooghe, Marc Verhelst, Helene Roelens, Filip Nassogne, Marie Cecile Defresne, Pierre De Waele, Liesbeth Leroy, Patricia Demonceau, Nathalie Legros, Benjamin Van Bogaert, Patrick Ceulemans, Berten Dom, Lina Castelnau, Pierre Martin, Anne De St and Riquet, Audrey Milh, Mathieu Cances, Claude Pedespan, Jean-Michel Ville, Dorothee Roubertie, Agathe Auvin, Stephane Berquin, Patrick Richelme, Christian Allaire, Catherine Gueden, Sophie Tich, Sylvie Nguyen The Godet, Bertrand Rojas, Maria Luz Ruiz Falco Planas, Jaume Campistol and Bermejo, Antonio Martinez Dura, Patricia Smeyers Aparicio, Susana Roldan Gonzalez, Maria Jesus Martinez Pison, Javier Lopez and Barca, Manuel Oscar Blanco Laso, Eduardo Lopez Luengo, Olga Alonso Rodriguez, Francisco Javier Aguirre Dieguez, Ignacio Malaga Salas, Ana Camacho Carrera, Itxaso Marti Salcedo, Eduardo Martinez Petri, Maria Eugenia Yoldi Candela, Ramon Cancho Carrilho, Ines da Conceicao Vieira, Jose Pedro and Monteiro, Jose Paulo da Silva Oliveira Leao, Miguel Jorge Santos de Oliveira Ferreira Luis, Catarina Sofia Marceano Ribeiro and Mendonca, Carla Pires Endziniene, Milda Strautmanis, Jurgis and Talvik, Inga Canevini, Maria Paola Gambardella, Antonio and Pruna, Dario Buono, Salvatore Fontana, Elena Dalla Bernardina, Bernardo Burloiu, Carmen Cosma, Iuliu Stefan Bacos and Vintan, Mihaela Adela Popescu, Laura Zitterbart, Karel and Payerova, Jaroslava Bratsky, Ladislav Zilinska, Zuzana and Gruber-Sedlmayr, Ursula Baumann, Matthias Haberland, Edda and Rostasy, Kevin Pataraia, Ekaterina Elmslie, Frances and Johnston, Clare Ann Crawford, Pamela Uldall, Peter Uvebrant, Paul Rask, Olof Bjoernvold, Marit Brodtkorb, Eylert and Sloerdahl, Andreas Solhoff, Ragnar Jaatun, Martine Sofie Gilje and Mandera, Marek Radzikowska, Elzbieta Janina Wysocki, Mariusz and Fischereder, Michael Kurlemann, Gerhard Wilken, Bernd and Wiemer-Kruel, Adelheid Budde, Klemens Marquard, Klaus Knuf, Markus Hahn, Andreas Hartmann, Hans Merkenschlager, Andreas and Trollmann, Regina TOSCA Consortium TOSCA Investigators
- Abstract
Background: This study evaluated the characteristics of subependymal giant cell astrocytoma (SEGA) in patients with tuberous sclerosis complex (TSC) entered into the TuberOus SClerosis registry to increase disease Awareness (TOSCA). Methods: The study was conducted at 170 sites across 31 countries. Data from patients of any age with a documented clinical visit for TSC in the 12 months preceding enrollment or those newly diagnosed with TSC were entered. Results: SEGA were reported in 554 of 2,216 patients (25%). Median age at diagnosis of SEGA was 8 years (range, 18 years. SEGA were symptomatic in 42.1% of patients. Symptoms included increased seizure frequency (15.8%), behavioural disturbance (11.9%), and regression/loss of cognitive skills (9.9%), in addition to those typically associated with increased intracranial pressure. SEGA were significantly more frequent in patients with TSC2 compared to TSC1 variants (33.7 vs. 13.2 %, p < 0.0001). Main treatment modalities included surgery (59.6%) and mammalian target of rapamycin (mTOR) inhibitors (49%). Conclusions: Although SEGA diagnosis and growth typically occurs during childhood, SEGA can occur and grow in both infants and adults.
- Published
- 2019
36. Overexpression of a citrus basic helix-loop-helix transcription factor ( CubHLH1 ), which is homologous to Arabidopsis activation-tagged bri1 suppressor 1 interacting factor genes, modulates carotenoid metabolism in transgenic tomato
- Author
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Naoko Nakajima, Takehiko Shimada, Hiroshi Fujii, Mitsuo Omura, Tomoko Endo, Yoshinori Ikoma, Aiko Sugiyama, and Michiharu Nakano
- Subjects
0106 biological sciences ,0301 basic medicine ,Citrus ,Molecular Sequence Data ,Plant Science ,01 natural sciences ,03 medical and health sciences ,chemistry.chemical_compound ,Solanum lycopersicum ,Gene Expression Regulation, Plant ,Arabidopsis ,Gene expression ,Basic Helix-Loop-Helix Transcription Factors ,Genetics ,Genetically modified tomato ,Amino Acid Sequence ,Abscisic acid ,Transcription factor ,Phylogeny ,Plant Proteins ,biology ,fungi ,Wild type ,food and beverages ,General Medicine ,Plants, Genetically Modified ,biology.organism_classification ,Carotenoids ,Citrus unshiu ,030104 developmental biology ,Biochemistry ,chemistry ,Gibberellin ,Sequence Alignment ,Agronomy and Crop Science ,010606 plant biology & botany - Abstract
To explore the transcription factors associated with carotenoid metabolism in citrus fruit, one transcription factor (CubHLH1) was selected through microarray screening in Satsuma mandarin (Citrus unshiu Marc.) fruit, which was treated with exogenous ethylene or gibberellin (GA), accelerating or retarding carotenoid accumulation in peel, respectively. The amino acid sequence of CubHLH1 has homology to Arabidopsis activation-tagged bri1 suppressor 1 (ATBS1) interacting factor (AIF), which is functionally characterized as a negative regulator of the brassinolide (BR) signalling pathway. Yeast two-hybrid analysis revealed that protein for CubHLH1 could interact with Arabidopsis and tomato ATBS1. Overexpression of CubHLH1 caused a dwarf phenotype in transgenic tomato (Solanum lycopersicum L.), suggesting that CubHLH1 has a similar function to Arabidopsis AIF. In the transgenic tomato fruit at ripening stage, the lycopene content was reduced along with the changes in carotenoid biosynthetic gene expression. The abscisic acid (ABA) content of all the transgenic tomato fruit was higher than that of the wild type. These results implied that CubHLH1 is considered to have a similar function to Arabidopsis AIFs and might be directly involved in carotenoid metabolism in mature citrus fruit.
- Published
- 2016
37. Parental diagnosis of satsuma mandarin (Citrus unshiu Marc.) revealed by nuclear and cytoplasmic markers
- Author
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Keisuke Nonaka, Hiroshi Fujii, Satoshi Ohta, Mitsuo Omura, Toshimi Matsumoto, Terutaka Yoshioka, Takehiko Shimada, Tomoko Endo, and Yuichi Katayose
- Subjects
0106 biological sciences ,0301 basic medicine ,biology ,Plant Science ,biology.organism_classification ,01 natural sciences ,Mandarin Chinese ,food.food ,language.human_language ,Citrus unshiu ,03 medical and health sciences ,Horticulture ,030104 developmental biology ,food ,Genetic marker ,Computer software ,Genetics ,language ,Plant breeding ,Agronomy and Crop Science ,Citrus taxonomy ,Genotyping ,Citrus nobilis ,010606 plant biology & botany - Abstract
Satsuma mandarins (Citrus unshiu Marc.) are the predominant cultivated citrus variety in Japan. Clarification of its origin would prove valuable for citrus taxonomy and mandarin breeding programs; however, current information is limited. We applied genome-wide genotyping using a 384 citrus single nucleotide polymorphism (SNP) array and MARCO computer software to investigate the satsuma mandarin parentage. Genotyping data from 206 validated SNPs were obtained to evaluate 67 citrus varieties and lines. A total of five parent-offspring relationships were newly found by MARCO based on the 206 SNP genotypes, indicating that 'Kishuu mikan' type mandarins (Citrus kinokuni hort. ex Tanaka accession 'Kishuu mikan' and 'Nanfengmiju') and 'Kunenbo' type mandarins (Citrus nobilis Lour. var. kunip Tanaka accession 'Kunenbo' and 'Bendiguangju') are possible parents of the satsuma mandarin. Moreover, cleaved amplified polymorphic sequences analysis showed that the genotypes of four regions in chloroplast DNA of 'Kishuu mikan' type mandarins were identical to that of the satsuma mandarin. Considering the historical background, satsuma mandarins may therefore derive from an occasional cross between a 'Kishuu mikan' type mandarin seed parent (derivative or synonym of 'Nanfengmiju') and a 'Kunenbo' type mandarin pollen parent (derivative or synonym of 'Bendiguangju').
- Published
- 2016
38. Tofacitinib, an oral janus kinase inhibitor, induces CD86- MHC II+ macrophages
- Author
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Natsumi Mizuno, Yoshiki Yanagawa, and Tomoko Endo
- Subjects
CD86 ,Tofacitinib ,Chemistry ,Applied Mathematics ,General Mathematics ,Cancer research ,Janus kinase inhibitor - Published
- 2020
39. MITE insertion-dependent expression of CitRKD1 with a RWP-RK domain regulates somatic embryogenesis in citrus nucellar tissues
- Author
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Tomoko Endo, Aiko Sugiyama, Takehiko Shimada, Terutaka Yoshioka, Satoshi Ohta, Genya Daido, Michiharu Nakano, Mitsuo Omura, and Hiroshi Fujii
- Subjects
Plant Somatic Embryogenesis Techniques ,0106 biological sciences ,0301 basic medicine ,Citrus ,Egg cell ,Somatic embryogenesis ,Polyembryony ,Locus (genetics) ,Plant Science ,Biology ,Genes, Plant ,01 natural sciences ,03 medical and health sciences ,lcsh:Botany ,Apomixis ,medicine ,DNA marker ,Cloning, Molecular ,Allele ,Gene ,Alleles ,Phylogeny ,Oligonucleotide Array Sequence Analysis ,Genetics ,Reverse Transcriptase Polymerase Chain Reaction ,RKD ,food and beverages ,Embryo ,Sequence Analysis, DNA ,lcsh:QK1-989 ,030104 developmental biology ,medicine.anatomical_structure ,Seeds ,DNA Transposable Elements ,Transcriptome ,Sequence Alignment ,CiFT co-expression system ,Research Article ,010606 plant biology & botany - Abstract
Background Somatic embryogenesis in nucellar tissues is widely recognized to induce polyembryony in major citrus varieties such as sweet oranges, satsuma mandarins and lemons. This capability for apomixis is attractive in agricultural production systems using hybrid seeds, and many studies have been performed to elucidate the molecular mechanisms of various types of apomixis. To identify the gene responsible for somatic embryogenesis in citrus, a custom oligo-DNA microarray including predicted genes in the citrus polyembryonic locus was used to compare the expression profiles in reproductive tissues between monoembryonic and polyembryonic varieties. The full length of CitRKD1, which was identified as a candidate gene responsible for citrus somatic embryogenesis, was isolated from satsuma mandarin and its molecular function was investigated using transgenic ‘Hamlin’ sweet orange by antisense-overexpression. Results The candidate gene CitRKD1, predominantly transcribed in reproductive tissues of polyembryonic varieties, is a member of the plant RWP-RK domain-containing protein. CitRKD1 of satsuma mandarin comprised two alleles (CitRKD1-mg1 and CitRKD1-mg2) at the polyembryonic locus controlling embryonic type (mono/polyembryony) that were structurally divided into two types with or without a miniature inverted-repeat transposable element (MITE)-like insertion in the upstream region. CitRKD1-mg2 with the MITE insertion was the predominant transcript in flowers and young fruits where somatic embryogenesis of nucellar cells occurred. Loss of CitRKD1 function by antisense-overexpression abolished somatic embryogenesis in transgenic sweet orange and the transgenic T1 plants were confirmed to derive from zygotic embryos produced by self-pollination by DNA diagnosis. Genotyping PCR analysis of 95 citrus traditional and breeding varieties revealed that the CitRKD1 allele with the MITE insertion (polyembryonic allele) was dominant and major citrus varieties with the polyembryonic allele produced polyembryonic seeds. Conclusion CitRKD1 at the polyembryonic locus plays a principal role in regulating citrus somatic embryogenesis. CitRKD1 comprised multiple alleles that were divided into two types, polyembryonic alleles with a MITE insertion in the upstream region and monoembryonic alleles without it. CitRKD1 was transcribed in reproductive tissues of polyembryonic varieties with the polyembryonic allele. The MITE insertion in the upstream region of CitRKD1 might be involved in regulating the transcription of CitRKD1. Electronic supplementary material The online version of this article (10.1186/s12870-018-1369-3) contains supplementary material, which is available to authorized users.
- Published
- 2018
40. Object transfer in request–accept sequence in Japanese caregiver–child interactions
- Author
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Tomoko Endo and Akira Takada
- Subjects
Linguistics and Language ,Communication ,Directives ,Interaction ,genetic structures ,business.industry ,media_common.quotation_subject ,Frame (networking) ,Socialization ,Young children ,Object (computer science) ,Language and Linguistics ,Negotiation ,Artificial Intelligence ,Orientation (geometry) ,Japanese ,Line (text file) ,Language socialization ,business ,Psychology ,Set (psychology) ,Reciprocal ,media_common - Abstract
Requesting an object or information is a basic and ubiquitous activity in human interactions, but the sequential organization of this activity varies considerably across speech communities. In line with the Language Socialization approach, this paper inquires into (1) how children formulate their acceptance of object requests made by caregivers, (2) the role of the requested object in request–accept sequences, and (3) the distinctive features of object requests in Japanese caregiver–child interactions (CCIs). Based on video data of Japanese caregiver–child (aged 0–5 years) interactions, we conducted an interaction analysis of conversations involving object transfer. The results revealed that the features of request–acceptance sequences are shaped by (1) the trigger of the object request, (2) the features of the requested object, (3) timing, bodily orientation, and the manner of transferring the requested object. By engaging in object request sequences, caregivers not only made reciprocal communication more effective but also set and modified the frame of their activity. The study also revealed that object request sequences are the place of negotiation for both children and caregivers with respect to (re)constructing the appropriate morality of Japanese culture., Available online 2 May 2015
- Published
- 2015
41. Development of Citrus Cultivar Identification by CAPS Markers and Parentage Analysis
- Author
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Tomoko Endo, Keisuke Nonaka, Taizo Ninomiya, Mitsuo Omura, Takehiko Shimada, and Hiroshi Fujii
- Subjects
Genetics ,Genetic marker ,Botany ,Genotype ,General Engineering ,General Earth and Planetary Sciences ,Identification (biology) ,Cultivar ,Biology ,General Environmental Science - Published
- 2015
42. Latex Polymer/Super Growth-Single-Walled Carbon Nanotube Composites with High Electroconductivity Fabricated by Wet Processing
- Author
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Susumu Okada, Mitsugu Uejima, Naotoshi Nakashima, Kenji Kaneko, Yui Kondo, Tomoko Endo, and Masahiro Shigeta
- Subjects
chemistry.chemical_classification ,Fabrication ,chemistry ,law ,Polymer chemistry ,chemistry.chemical_element ,Nanotechnology ,General Chemistry ,Carbon nanotube ,Polymer ,Carbon ,law.invention - Abstract
Acrylonitrile–butadiene rubbers (NBR) have been widely used in many industrial applications due to their very low cost and high performance. In this study, we focus on the fabrication of NBR/carbon...
- Published
- 2014
43. Abscisic acid affects expression of citrus FT homologs upon floral induction by low temperature in Satsuma mandarin (Citrus unshiu Marc.)
- Author
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Tomoko Endo, Hiroshi Fujii, Mitsuo Omura, Yumi Nakata, Hikaru Matsumoto, Takehiko Shimada, Naoko Nakajima, and Yoshinori Ikoma
- Subjects
0106 biological sciences ,0301 basic medicine ,Citrus ,Physiology ,Arabidopsis ,Plant Science ,Flowers ,01 natural sciences ,03 medical and health sciences ,chemistry.chemical_compound ,Gene Expression Regulation, Plant ,Botany ,Promoter Regions, Genetic ,Abscisic acid ,Carotenoid ,Gene ,Plant Proteins ,chemistry.chemical_classification ,Regulation of gene expression ,biology ,organic chemicals ,fungi ,food and beverages ,biology.organism_classification ,Plants, Genetically Modified ,Citrus unshiu ,Cold Temperature ,030104 developmental biology ,chemistry ,Shoot ,Ectopic expression ,010606 plant biology & botany ,Abscisic Acid ,Transcription Factors - Abstract
After a long juvenile period, citrus trees undergo seasonal flowering cycles. Under natural conditions, citrus flowering is regulated mainly by low ambient temperatures around 15-20 °C and water deficit stress. Recent studies have revealed that fluctuations in the expression of citrus homologs of FLOWERING LOCUS T (FT, encoding a flowering integrator) are correlated with their presumed role as flower-promoting signals. Previous ectopic expression analyses have demonstrated the flower-promoting function of citrus FT homologs. In this study, we examined whether abscisic acid (ABA) affects the expression of FT homologs and the flowering induced by low ambient temperatures. Application of exogenous ABA to potted Satsuma mandarin (Citrus unshiu Marc.) trees resulted in transient accumulation of citrus FT homolog transcripts. The promoter of one citrus FT homolog, CiFT3, was active in transgenic A. thaliana (Arabidopsis thaliana) and responded to exogenous and endogenous ABA. CiFT3 is preferentially expressed in shoots, and its expression was affected by flower-inductive treatments. Endogenous ABA accumulated in mandarin shoots during the floral induction period at 15 °C and under field conditions. The accumulation of ABA was correlated with the accumulation of FT homolog transcripts and flowering intensity. It was consistent with changes in the expression of genes related to ABA metabolism. The abundance of carotenoid precursors that serve as substrates for ABA biosynthesis decreased in leaves during the accumulation of ABA. Our data indicate that ABA and carotenoid precursors in leaves influence the flowering of mandarin trees induced by low temperature.
- Published
- 2017
44. Cytochrome P450-derived eicosanoids and heart function
- Author
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Tomoko Endo, John M. Seubert, Ahmed M. Darwesh, Victor Samokhvalov, and K. Lockhart Jamieson
- Subjects
0301 basic medicine ,Epoxygenase ,Aging ,Linoleic acid ,030204 cardiovascular system & hematology ,digestive system ,03 medical and health sciences ,chemistry.chemical_compound ,0302 clinical medicine ,Cytochrome P-450 Enzyme System ,Animals ,Humans ,Pharmacology (medical) ,Pharmacology ,chemistry.chemical_classification ,Polymorphism, Genetic ,biology ,Myocardium ,Hydroxyeicosatetraenoic acid ,Cytochrome P450 ,respiratory system ,Monooxygenase ,3. Good health ,030104 developmental biology ,chemistry ,Biochemistry ,Docosahexaenoic acid ,Cardiovascular Diseases ,Receptors, Eicosanoid ,biology.protein ,Fatty Acids, Unsaturated ,lipids (amino acids, peptides, and proteins) ,Arachidonic acid ,Polyunsaturated fatty acid - Abstract
The cytochrome P450 monooxygenase system (CYP) is a multigene superfamily of enzymes, which are important in the metabolism of foreign and endogenous compounds. CYP isoforms metabolize a number of n-3 and n-6 polyunsaturated fatty acids (PUFA), including linoleic acid (18:2n6, LA), arachidonic acid (20:4n6, AA), ecosapentaenoic acid (20:5n3, EPA) and docosahexaenoic acid (22:6n3, DHA) into bioactive lipid mediators, termed eicosanoids. CYP-derived eicosanoids have numerous effects toward physiological and pathophysiological events within the body, which depends on the type, quantity and timing of metabolites produced. Alterations in fatty acid composition and concentrations have been shown to have a role in cardiovascular disease (CVD). The functional role of CYP isozymes and CYP-derived eicosanoids toward physiological and pathophysiological processes in the heart is a rapidly expanding field of research. Numerous studies have investigated the beneficial and detrimental effects of CYP epoxygenase derived metabolites of AA, epoxyeicosatrienoic acids (EET) and CYP ω-hydroxylase products, hydroxyeicosatetraenoic acids (HETE), toward both cardiac and vascular function and disease. Emerging research is revealing the importance of other lipid mediators generated from CYP isozymes, such as epoxyeicosatetraenoic acids (EEQ) and epoxydocosapentaenoic acids (EDP), formed from the metabolism of EPA and DHA and metabolites of LA. Important determinants such as genetics, gender and age have a role in regulating the CYP-derived eicosanoids produced from the metabolism n-3 and n-6 PUFA. Obtaining a better understanding of the complex role CYP-derived eicosanoids have within the heart will provide valuable insight for both basic and clinical researchers investigation CVD.
- Published
- 2017
45. Construction of a citrus framework genetic map anchored by 708 gene-based markers
- Author
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Terutaka Yoshioka, Hirohisa Nesumi, Tomoko Endo, Aiko Sugiyama, Yoshinori Ikoma, Michiharu Nakano, Takehiko Shimada, Masayuki Kita, Takaya Moriguchi, Tokuro Shimizu, Takanori Ueda, Hiroshi Fujii, and Mitsuo Omura
- Subjects
Whole genome sequencing ,Genetics ,education.field_of_study ,Population ,food and beverages ,Forestry ,Horticulture ,Biology ,biology.organism_classification ,Genome ,Sequence-tagged site ,Citrus unshiu ,Centimorgan ,Cleaved amplified polymorphic sequence ,education ,Molecular Biology ,Gene - Abstract
We developed 708 gene-based markers for citrus genome analysis. Sequence-tagged site (STS) primers were designed that were located in conserved exon regions and whose PCR products spanned genomic introns. Of these, 79.7 % comprised cleaved amplified polymorphic sequence markers. The gene-based markers and their annotation and position on Clementine scaffolds ver. 1.0 permitted comparison of the genetic map and the Clementine genome sequence. The 708 gene-based markers were used to construct a genetic map using the 87 progenies (AG population) from the cross between ‘Okitsu 46 gou’ (‘Sweet Spring’ (‘Ueda unshiu’ (Citrus unshiu) × Hassaku (Citrus hassaku Hort. ex Tanaka)) × ‘Trovita’ orange) × ‘Kankitsu Chukanbohon Nou 5 gou’ (‘Lee’ (Citrus clementina × tangelo) × Citrus kinokuni). The markers were integrated using common STSs on different phase maps in cross-pollination mode. The integrated map (AGI map) comprised 706 loci, including two morphological traits, and spanned 990.9 centimorgans (cM) with an average marker distance of 1.40 cM. These markers formed nine linkage groups (LGs) (corresponding to citrus physical chromosomes): LG-01 to LG-09 corresponded to Scaffold_01, Scaffold_07, Scaffold_09, Scaffold_06, Scaffold_03, Scaffold_02, Scaffold_04, Scaffold_08, and Scaffold_05, respectively. LG-08 and LG-09 contained morphological traits controlling embryo color and seedlessness. Eighty-eight loci comprised three or more alleles on the AGI map; 36.4 % of them were related to transcription factors and DNA-binding proteins. The 708 gene-based markers and the AGI map are valuable for integrating various citrus genetic maps, alignment of genomic sequences, chromosome assignment, and understanding the diversity of citrus germplasms.
- Published
- 2014
46. Expression Quantitative Trait Loci Analysis of Carotenoid Metabolism-related Genes in Citrus
- Author
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Mitsuo Omura, Keisuke Nonaka, Takehiko Shimada, Yoshinori Ikoma, Aiko Sugiyama, Hirohisa Nesumi, Hiroshi Fujii, Tokurou Shimizu, and Tomoko Endo
- Subjects
chemistry.chemical_classification ,Human health ,chemistry ,Genetic marker ,Botany ,Expression quantitative trait loci ,Composition (visual arts) ,Carotenoid metabolism ,Biology ,Quantitative trait locus ,Carotenoid ,Gene - Abstract
Citrus fruits contain significant amounts of various carotenoids and some of them are known to benefit human health. Approximately 115 different carotenoids have been reported in citrus fruits, and the color of the fruit and peel are caused by carotenoid accumulation (Stewart and Wheaton, 1973). The carotenoid content and composition in
- Published
- 2014
47. Sequential patterns of storytelling using omotte in Japanese conversation
- Author
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Tomoko Endo and Maki Shimotani
- Subjects
Linguistics and Language ,Communication ,business.industry ,media_common.quotation_subject ,Conversation ,Sociology ,business ,Language and Linguistics ,Linguistics ,Education ,media_common ,Storytelling - Abstract
In the literature of Japanese linguistics, the verb omou ‘to think’ has been extensively studied in terms of epistemic modality and analyzed as an expression of the speaker’s opinion specifically at a sentential level. However, through examining the data of storytelling in everyday conversation, we found that this verb rarely occurs in the non-past predicate form omou. Instead, it occurs in a connective -te form, i.e., omotte. Unlike omou, uses of omotte in storytelling sequences rarely indicate the speaker’s opinion. Rather, it shows a quotation of his or her thought evoked during an event or in telling a story; it also plays a significant role in managing larger units of talk. This study, within the framework of interactional linguistics (e.g., Ochs, Schegloff, & Thompson, 1996), focuses on the form omotte and investigates how it is used as a linguistic resource to manage the organization of a story.
- Published
- 2014
48. Mitochondrial dysfunction induced by ceramide accumulation is involved in the cytotoxicity of 19, 20-epoxydocosapentaenoic acid in H9c2 cells
- Author
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Ahmed M. Darwesh, Ahmed A. El-Sherbeni, Ayman O.S. El-Kadi, Tomoko Endo, Takuji Machida, Kevin M. W. Khey, Masahiko Hirafuji, John M. Seubert, and Victor Samokvalov
- Subjects
Ceramide ,chemistry.chemical_compound ,Biochemistry ,Chemistry ,Applied Mathematics ,General Mathematics ,Epoxydocosapentaenoic acid ,Cytotoxicity - Published
- 2018
49. TaqMan-MGB SNP genotyping assay to identify 48 citrus cultivars distributed in the Japanese market.
- Author
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Tomoko Endo, Hiroshi Fujii, Terutaka Yoshioka, Mitsuo Omura, and Takehiko Shimada
- Subjects
- *
CULTIVARS , *FOOD inspection , *CITRUS , *CITRUS fruits , *SYSTEM identification , *DRIED fruit - Abstract
A citrus cultivar identification system using CAPS marker has been developed on nursery trees, but this needs to be extended to include various product types, such as imported fruits and processed products. Here, we developed a new cultivar identification system using TaqMan-MGB SNP genotyping assay. Eight probe and primer sets were designed to amplify PCR fragments <100 bp to enable the genotyping of fresh and processed fruits in which predicted that insufficient quantities of DNA and residual impurities in the DNA extracts. The TaqMan-MGB SNP genotyping assay was stable and reproducible, and were confirmed to apply various sample sources, including leaves, fresh fruit, juice, canned fruit, and dry fruit. They could provide at least a single differentiating SNP to discriminate any paired combination among 48 citrus cultivars. Minimal marker subsets to identify the target cultivar were listed for each of 18 registered cultivars with valid patent. The allelic SNP genotypes of 48 citrus cultivars, which cover more than 98% of all citrus fruit shipment produced in Japan, is valuable for the referencing information in the DNA-based identification for fresh and processed fruits. This identification system will help protect registered cultivars and facilitate food fraud inspections. [ABSTRACT FROM AUTHOR]
- Published
- 2020
- Full Text
- View/download PDF
50. Mikan Genome Database (MiGD): integrated database of genome annotation, genomic diversity, and CAPS marker information for mandarin molecular breeding.
- Author
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Yoshihiro Kawahara, Tomoko Endo, Mitsuo Omura, Yumiko Teramoto, Takeshi Itoh, Hiroshi Fujii, and Takehiko Shimada
- Subjects
- *
GENOMES , *BREEDING , *GENOME size , *CITRUS fruit industry , *DATABASES , *MYOGLOBIN - Abstract
Citrus species are some of the most valuable and widely consumed fruits globally. The genome sequences of representative citrus (e.g., Citrus clementina, C. sinensis, C. grandis) species have been released but the research base for mandarin molecular breeding is still poor. We assembled the genomes of Citrus unshiu and Poncirus trifoliata, two important species for citrus industry in Japan, using hybrid de novo assembly of Illumina and PacBio sequence data, and developed the Mikan Genome Database (MiGD). The assembled genome sizes of C. unshiu and P. trifoliata are 346 and 292 Mb, respectively, similar to those of citrus species in public databases; they are predicted to possess 41,489 and 34,333 protein-coding genes in their draft genome sequences, with 9,642 and 8,377 specific genes when compared to C. clementina, respectively. MiGD is an integrated database of genome annotation, genetic diversity, and Cleaved Amplified Polymorphic Sequence (CAPS) marker information, with these contents being mutually linked by genes. MiGD facilitates access to genome sequences of interest from previously reported linkage maps through CAPS markers and obtains polymorphism information through the multiple genome browser TASUKE. The genomic resources in MiGD (https://mikan.dna.affrc.go.jp) could provide valuable information for mandarin molecular breeding in Japan. [ABSTRACT FROM AUTHOR]
- Published
- 2020
- Full Text
- View/download PDF
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