Sachiko Isobe

Summary

Affiliation: Kazusa DNA Research Institute
Country: Japan

Publications

  1. ncbi request reprint Quantitative trait locus analysis of multiple agronomic traits in the model legume Lotus japonicus
    Takahiro Gondo
    University of Miyazaki, Frontier Science Research Center, 1 1 Nishi Gakuen Kibanadai, Miyazaki 889 2192, Japan
    Genome 50:627-37. 2007
  2. doi request reprint Discrimination of candidate subgenome-specific loci by linkage map construction with an S1 population of octoploid strawberry (Fragaria × ananassa)
    Soichiro Nagano
    Kazusa DNA Research Institute, Kazusa Kamatari 2 6 7, Kisarazu, Chiba, 292 0818, Japan
    BMC Genomics 18:374. 2017
  3. pmc Construction of a reference genetic linkage map for carnation (Dianthus caryophyllus L.)
    Masafumi Yagi
    NARO Institute of Floricultural Science NIFS, 2 1 Fujimoto, Tsukuba, Ibaraki 305 8519, Japan
    BMC Genomics 14:734. 2013
  4. pmc Will genomic selection be a practical method for plant breeding?
    Akihiro Nakaya
    Center for Transdisciplinary Research, Niigata University, 1 757 Asahimachi dori, Chuo Ku, Niigata 951 8585, Japan
    Ann Bot 110:1303-16. 2012
  5. doi request reprint Large-scale development of expressed sequence tag-derived simple sequence repeat markers and diversity analysis in Arachis spp.
    Padmalatha Koilkonda
    Mol Breed 30:125-138. 2012
  6. pmc Dissection of the octoploid strawberry genome by deep sequencing of the genomes of Fragaria species
    Hideki Hirakawa
    1 Kazusa DNA Research Institute, Kazusa Kamatari 2 6 7, Kisarazu, Chiba 292 0818, Japan
    DNA Res 21:169-81. 2014
  7. pmc Transcriptome analysis of carnation (Dianthus caryophyllus L.) based on next-generation sequencing technology
    Koji Tanase
    National Institute of Floricultural Sciences, National Agriculture and Food Research Organization, Fujimoto 2 1, Tsukuba, Ibaraki 305 8519, Japan
    BMC Genomics 13:292. 2012
  8. pmc Construction of an integrated high density simple sequence repeat linkage map in cultivated strawberry (Fragaria × ananassa) and its applicability
    Sachiko N Isobe
    Kazusa DNA Research Institute, 2 6 7 Kazusa Kamatari, Kisarazu, Chiba 292 0818, Japan
    DNA Res 20:79-92. 2013
  9. pmc Development and characterization of BAC-end sequence derived SSRs, and their incorporation into a new higher density genetic map for cultivated peanut (Arachis hypogaea L.)
    Hui Wang
    Tuskegee University, Tuskegee, AL 36088, USA
    BMC Plant Biol 12:10. 2012
  10. pmc Mapping candidate QTLs related to plant persistency in red clover
    Irina Klimenko
    All Russian Williams Fodder Crop Research Institute, 141055, Lobnya, Moscow Region, Russia
    Theor Appl Genet 120:1253-63. 2010

Collaborators

Detail Information

Publications35

  1. ncbi request reprint Quantitative trait locus analysis of multiple agronomic traits in the model legume Lotus japonicus
    Takahiro Gondo
    University of Miyazaki, Frontier Science Research Center, 1 1 Nishi Gakuen Kibanadai, Miyazaki 889 2192, Japan
    Genome 50:627-37. 2007
    ..This study provides fundamental information for breeding of agronomically important legume crops...
  2. doi request reprint Discrimination of candidate subgenome-specific loci by linkage map construction with an S1 population of octoploid strawberry (Fragaria × ananassa)
    Soichiro Nagano
    Kazusa DNA Research Institute, Kazusa Kamatari 2 6 7, Kisarazu, Chiba, 292 0818, Japan
    BMC Genomics 18:374. 2017
    ....
  3. pmc Construction of a reference genetic linkage map for carnation (Dianthus caryophyllus L.)
    Masafumi Yagi
    NARO Institute of Floricultural Science NIFS, 2 1 Fujimoto, Tsukuba, Ibaraki 305 8519, Japan
    BMC Genomics 14:734. 2013
    ..Therefore, we aimed to produce a high-density genetic map to improve its usefulness for breeding purposes and genetic research...
  4. pmc Will genomic selection be a practical method for plant breeding?
    Akihiro Nakaya
    Center for Transdisciplinary Research, Niigata University, 1 757 Asahimachi dori, Chuo Ku, Niigata 951 8585, Japan
    Ann Bot 110:1303-16. 2012
    ....
  5. doi request reprint Large-scale development of expressed sequence tag-derived simple sequence repeat markers and diversity analysis in Arachis spp.
    Padmalatha Koilkonda
    Mol Breed 30:125-138. 2012
    ..37 to 0.97. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s11032-011-9604-8) contains supplementary material, which is available to authorized users...
  6. pmc Dissection of the octoploid strawberry genome by deep sequencing of the genomes of Fragaria species
    Hideki Hirakawa
    1 Kazusa DNA Research Institute, Kazusa Kamatari 2 6 7, Kisarazu, Chiba 292 0818, Japan
    DNA Res 21:169-81. 2014
    ..x ananassa. The strategy adopted in this study has turned out to be successful in dissecting the genome of octoploid F. x ananassa and appears promising when applied to the analysis of other polyploid plant species. ..
  7. pmc Transcriptome analysis of carnation (Dianthus caryophyllus L.) based on next-generation sequencing technology
    Koji Tanase
    National Institute of Floricultural Sciences, National Agriculture and Food Research Organization, Fujimoto 2 1, Tsukuba, Ibaraki 305 8519, Japan
    BMC Genomics 13:292. 2012
    ....
  8. pmc Construction of an integrated high density simple sequence repeat linkage map in cultivated strawberry (Fragaria × ananassa) and its applicability
    Sachiko N Isobe
    Kazusa DNA Research Institute, 2 6 7 Kazusa Kamatari, Kisarazu, Chiba 292 0818, Japan
    DNA Res 20:79-92. 2013
    ..1 cM in length. Macrosynteny at the chromosome level was observed between the LGs of F. × ananassa and the genome of F. vesca. Variety distinction on 129 F. × ananassa lines was demonstrated using 45 selected SSR markers...
  9. pmc Development and characterization of BAC-end sequence derived SSRs, and their incorporation into a new higher density genetic map for cultivated peanut (Arachis hypogaea L.)
    Hui Wang
    Tuskegee University, Tuskegee, AL 36088, USA
    BMC Plant Biol 12:10. 2012
    ..Accordingly molecular markers have low levels of polymorphism and the number of polymorphic molecular markers available for cultivated peanut is still limiting...
  10. pmc Mapping candidate QTLs related to plant persistency in red clover
    Irina Klimenko
    All Russian Williams Fodder Crop Research Institute, 141055, Lobnya, Moscow Region, Russia
    Theor Appl Genet 120:1253-63. 2010
    ..Identification of haplotypes having positive effect QTLs in each parent were first demonstrated in this study for pseudo-testcross mapping populations in plant species using experimental data...
  11. pmc Construction of a consensus linkage map for red clover (Trifolium pratense L.)
    Sachiko Isobe
    Kazusa DNA Research Institute, Kazusa Kamatari 2 6 7, Kisarazu, Chiba, 292 0818, Japan
    BMC Plant Biol 9:57. 2009
    ..For red clover, three genetic linkage maps have been published, but the information in these existing maps has not been integrated...
  12. pmc Genotype matrix mapping: searching for quantitative trait loci interactions in genetic variation in complex traits
    Sachiko Isobe
    1 National Agricultural Research Center for Hokkaido Region, Histujigaoka 1, Toyohira, Sapporo 062 8555, Japan
    DNA Res 14:217-25. 2007
    ..The results indicated there were multiple QTL interactions affecting the phenotype (flowering date). GMM will be a valuable approach to identify QTL interactions in genetic variation of a complex trait within a variety of organisms...
  13. pmc An interspecific linkage map of SSR and intronic polymorphism markers in tomato
    Kenta Shirasawa
    Kazusa DNA Research Institute, 2 6 7 Kazusa Kamatari, Kisarazu, Chiba, 292 0818, Japan
    Theor Appl Genet 121:731-9. 2010
    ..Information on the DNA markers developed in this study is available at http://www.kazusa.or.jp/tomato/...
  14. pmc Genome-wide SNP genotyping to infer the effects on gene functions in tomato
    Hideki Hirakawa
    Kazusa DNA Research Institute, 2 6 7 Kazusa Kamatari, Kisarazu, Chiba 292 0818, Japan
    DNA Res 20:221-33. 2013
    ..The SNP information obtained in this study is available at the Kazusa Tomato Genomics Database (http://plant1.kazusa.or.jp/tomato/)...
  15. pmc In silico polymorphism analysis for the development of simple sequence repeat and transposon markers and construction of linkage map in cultivated peanut
    Kenta Shirasawa
    Kazusa DNA Research Institute, Kisarazu, Chiba, Japan
    BMC Plant Biol 12:80. 2012
    ..Polymorphic marker loci are useful for the construction of such high-density linkage maps. The present study used in silico analysis to develop simple sequence repeat-based and transposon-based markers...
  16. pmc An EST-SSR linkage map of Raphanus sativus and comparative genomics of the Brassicaceae
    Kenta Shirasawa
    Kazusa DNA Research Institute, Chiba, Japan
    DNA Res 18:221-32. 2011
    ..The genetic map developed here is expected to provide a standard map for the genetics, genomics, and molecular breeding of R. sativus as well as of related species. The resources are available at http://marker.kazusa.or.jp/Daikon...
  17. ncbi request reprint Comprehensive structural analysis of the genome of red clover (Trifolium pratense L.)
    Shusei Sato
    Kazusa DNA Research Institute, Kazusa Kamatari, Kisarazu, Chiba, Japan
    DNA Res 12:301-64. 2005
    ....
  18. pmc Characterization of the soybean genome using EST-derived microsatellite markers
    Hiroshi Hisano
    Kazusa DNA Research Institute, 2 6 7 Kazusa Kamatari, Kisarazu, Chiba 292 0818, Japan
    DNA Res 14:271-81. 2007
    ....
  19. pmc SNP discovery and linkage map construction in cultivated tomato
    Kenta Shirasawa
    Kazusa DNA Research Institute, 2 6 7 Kazusa Kamatari, Kisarazu, Chiba 292 0818, Japan
    DNA Res 17:381-91. 2010
    ..Information on the DNA markers, linkage maps, and SNP genotypes for these tomato lines is available at http://www.kazusa.or.jp/tomato/...
  20. pmc Genome-wide association studies using single nucleotide polymorphism markers developed by re-sequencing of the genomes of cultivated tomato
    Kenta Shirasawa
    1 Kazusa DNA Research Institute, 2 6 7 Kazusa Kamatari, Kisarazu, Chiba 292 0818, Japan
    DNA Res 20:593-603. 2013
    ..This study demonstrates that attractive loci can be identified by performing GWAS with a large number of SNPs obtained from re-sequencing analysis...
  21. pmc Genome sequencing and genome resources in model legumes
    Shusei Sato
    Kazusa DNA Research Institute, Kisarazu, Chiba 292 0818 Japan
    Plant Physiol 144:588-93. 2007
  22. pmc Characterization of active miniature inverted-repeat transposable elements in the peanut genome
    Kenta Shirasawa
    Department of Plant Genome Research, Kazusa DNA Research Institute, 2 6 7 Kazusa Kamatari, Kisarazu, Chiba 292 0818, Japan
    Theor Appl Genet 124:1429-38. 2012
    ..This study characterizes AhMITE1s in peanut and discusses their use as DNA markers and mutagens for the genetics, genomics and breeding of peanut and its relatives...
  23. doi request reprint Structural analyses of the genomes in legumes
    Shusei Sato
    Kazusa DNA Research Institute, Kisarazu, Chiba, Japan
    Curr Opin Plant Biol 13:146-52. 2010
    ....
  24. pmc Genome-wide survey of artificial mutations induced by ethyl methanesulfonate and gamma rays in tomato
    Kenta Shirasawa
    Kazusa DNA Research Institute, Kisarazu, Japan
    Plant Biotechnol J 14:51-60. 2016
    ..The results provide helpful information not only for mutation research, but also for mutant screening methodology with reverse-genetic approaches...
  25. pmc Draft genome sequence of eggplant (Solanum melongena L.): the representative solanum species indigenous to the old world
    Hideki Hirakawa
    Kazusa DNA Research Institute, 2 6 7 Kazusa Kamatari, Kisarazu, Chiba 292 0818, Japan
    DNA Res 21:649-60. 2014
    ..The detailed comparative analysis of the eggplant and tomato genomes will facilitate our understanding of the genomic architecture of solanaceous plants, which will contribute to cultivation and further utilization of these crops. ..
  26. pmc Integrated consensus map of cultivated peanut and wild relatives reveals structures of the A and B genomes of Arachis and divergence of the legume genomes
    Kenta Shirasawa
    Kazusa DNA Research Institute, Kisarazu, Chiba, Japan
    DNA Res 20:173-84. 2013
    ..The comparative maps in legumes, integrated tetraploid consensus maps, and genome-specific diploid maps will increase the genetic and genomic understanding of Arachis and should facilitate molecular breeding...
  27. doi request reprint The genome sequence of sweet cherry (Prunus avium) for use in genomics-assisted breeding
    Kenta Shirasawa
    Kazusa DNA Research Institute, Kisarazu, Chiba 292 0818, Japan
    DNA Res 24:499-508. 2017
    ..Further information on the genomic sequences and DNA markers is available in DBcherry (http://cherry.kazusa.or.jp (8 May 2017, date last accessed))...
  28. doi request reprint Challenges to genome sequence dissection in sweetpotato
    Sachiko Isobe
    Kazusa DNA Research Institute, Kazusa Kamatari 2 6 7, Kisarazu, Chiba 292 0818, Japan
    Breed Sci 67:35-40. 2017
    ..The large-scale publically available genome and transcript sequence resources and the international genome sequencing streams are expected to promote the genome sequence dissection in sweetpotato...
  29. pmc Analytical workflow of double-digest restriction site-associated DNA sequencing based on empirical and in silico optimization in tomato
    Kenta Shirasawa
    Kazusa DNA Research Institute, 2 6 7 Kazusa Kamatari, Kisarazu, Chiba 292 0818, Japan
    DNA Res 23:145-53. 2016
    ..g. choices of enzymes and plant materials. Following optimization, this ddRAD-Seq pipeline could help accelerate genetics, genomics, and molecular breeding in both model and non-model plants, including crops...
  30. pmc A reference genetic linkage map of apomictic Hieracium species based on expressed markers derived from developing ovule transcripts
    Kenta Shirasawa
    Kazusa DNA Research Institute, 2 6 7 Kazusa Kamatari, Kisarazu, Chiba 292 0818, Japan and Commonwealth Scientific and Industrial Research Organization CSIRO, Agriculture Flagship, Waite Campus, Hartley Grove, Urrbrae, South Australia 5064, Australia
    Ann Bot 115:567-80. 2015
    ..This study aimed to develop the first genetic linkage maps for sexual and apomictic Hieracium species using simple sequence repeat (SSR) markers derived from expressed transcripts within the developing ovaries...
  31. pmc Sequence analysis of the genome of an oil-bearing tree, Jatropha curcas L
    Shusei Sato
    Kazusa DNA Research Institute, 2 6 7 Kazusa Kamatari, Kisarazu, Chiba, Japan
    DNA Res 18:65-76. 2011
    ..curcas, especially in the fields of environment-related research such as biofuel production. Further information on the genomic sequences and DNA markers is available at http://www.kazusa.or.jp/jatropha/...
  32. doi request reprint Development of Capsicum EST-SSR markers for species identification and in silico mapping onto the tomato genome sequence.
    Kenta Shirasawa
    Kazusa DNA Research Institute, 2 6 7 Kazusa Kamatari, Kisarazu, Chiba, 291 0818 Japan
    Mol Breed 31:101-110. 2013
    ..ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s11032-012-9774-z) contains supplementary material, which is available to authorized users...
  33. pmc A Novel Phenolic Compound, Chloroxynil, Improves Agrobacterium-Mediated Transient Transformation in Lotus japonicus
    Mitsuhiro Kimura
    Department of Frontier Research, Kazusa DNA Research Institute, Kisarazu, Chiba, Japan
    PLoS ONE 10:e0131626. 2015
    ..Our results demonstrate that chloroxynil significantly improves Agrobacterium tumefaciens-mediated transformation efficiency of various agriculturally important crops. ..
  34. ncbi request reprint Genotype-dependent transcriptional activation of novel repetitive elements during cold acclimation of alfalfa (Medicago sativa)
    Sergey Ivashuta
    Graduate School of Agriculture, Hokkaido University, Kita ku, Sapporo 060 8589, Japan
    Plant J 31:615-27. 2002
    ..Furthermore, they represent the only known example of genotype-specific cold-induced transcriptional activation of multiple copies of a repetitive element whose expression is associated with a genotype difference in cold acclimation...