Gene-regulatory networks in the Ciona embryos (2009)
Kubo, Atsushi, Imai, Kaoru S., Satou, Yutaka
Ascidians belong to the subphylum Urochordata or Tunicata, which is the sister group of the vertebrates. The simple architecture of the ascidian larva represents the basic chordate body plan. Recent...
Satou, Yutaka, Mineta, Katsuhiko, Ogasawara, Michio, Sasakura, Yasunori, Shoguchi, Eiichi, Ueno, Keisuke, ...
Abstract Background The draft genome sequence of the ascidian Ciona intestinalis , along with associated gene models, has been a valuable research resource. However, recently accumulated expressed...
The amphioxus genome and the evolution of the chordate karyotype (2008)
Putnam, Nicholas H., Butts, Thomas, Ferrier, David E. K., Furlong, Rebecca F., Hellsten, Uffe, Kawashima, Takeshi, ...
Lancelets ('amphioxus') are the modern survivors of an ancient chordate lineage, with a fossil record dating back to the Cambrian period. Here we describe the structure and gene content of the highly...
The amphioxus genome illuminates vertebrate origins and cephalochordate biology (2008)
Holland, Linda Z., Albalat, Ricard, Azumi, Kaoru, Benito-Gutiérrez, Èlia, Blow, Matthew J., Bronner-Fraser, Marianne, ...
Cephalochordates, urochordates, and vertebrates evolved from a common ancestor over 520 million years ago. To improve our understanding of chordate evolution and the origin of vertebrates, we...
Sakamaki, Kazuhiro, Nozaki, Masami, Kominami, Katsuya, Satou, Yutaka
Abstract Background Death receptors on the cell surface and the interacting cytosolic molecules, adaptors and initiator caspases, are essential as core components of the extrinsic apoptotic signaling...
Genomic overview of mRNA 5'-leader trans-splicing in the ascidian Ciona intestinalis (2006)
Satou, Yutaka, Hamaguchi, Makoto, Takeuchi, Keisuke, Hastings, Kenneth E. M., Satoh, Nori
Although spliced leader (SL) trans-splicing in the chordates was discovered in the tunicate Ciona intestinalis there has been no genomic overview analysis of the extent of trans-splicing or the...
An integrated database of the ascidian, Ciona intestinalis: Towards functional genomics (2005)
Satou, Yutaka, Kawashima, Takeshi, Shoguchi, Eiichi, Nakayama, Akie, Satoh, Nori
An integrated genome database is essential for future studies of functional genomics. In this study, we update cDNA and genomic resources of the ascidian, Ciona intestinalis, and provide an...
Takeuchi, Keisuke, Satou, Yutaka, Yamamoto, Hiroaki, Satoh, Nori
The draft genome sequence and a large quantity of EST and cDNA information are now available for the ascidian Ciona intestinalis. In the present study, genes involved in pigment synthesis pathways...
A saturation screen for cis-acting regulatory DNA in the Hox genes of Ciona intestinalis (2005)
Keys, David N., Lee, Byung-in, Di Gregorio, Anna, Harafuji, Naoe, Detter, Chris, Wang, Mei, ...
A screen for the systematic identification of cis-regulatory elements within large (>100 kb) genomic domains containing Hox genes was performed by using the basal chordate Ciona intestinalis....
Chromosomal mapping of 170 BAC clones in the ascidian Ciona intestinalis (2005)
Shoguchi, Eiichi, Kawashima, Takeshi, Satou, Yutaka, Hamaguchi, Makoto, Sin-I, Tadasu, Kohara, Yuji, ...
The draft genome (∼160 Mb) of the urochordate ascidian Ciona intestinalis has been sequenced by the whole-genome shotgun method and should provide important insights into the origin and evolution...
Assembly of polymorphic genomes: Algorithms and application to Ciona savignyi (2005)
Vinson, Jade P., Jaffe, David B., O'Neill, Keith, Karlsson, Elinor K., Stange-Thomann, Nicole, Anderson, Scott, ...
Whole-genome assembly is now used routinely to obtain high-quality draft sequence for the genomes of species with low levels of polymorphism. However, genome assembly remains extremely challenging...
Fluorescent in situ hybridization to ascidian chromosomes (2004)
Shoguchi, Eiichi, Ikuta, Tetsuro, Yoshizaki, Fumiko, Satou, Yutaka, Satoh, Nori, Asano, Katsutoshi, ...
The draft genome of the ascidian Ciona intestinalis has been sequenced. Mapping of the genome sequence to the Ciona 14 haploid chromosomes is essential for future studies of the genome-wide control...
Wakoh, Takeshi, Ikeda, Makoto, Uchino, Ryuji, Azumi, Kaoru, Nonaka, Masaru, Kohara, Yuji, ...
The immunity provided by ascidian hemocytes represents one prototype of innate immune function in vertebrates. However, there are currently no molecular markers of ascidian hemocytes. We accumulated...
Construction of a cDNA microarray derived from the ascidian Ciona intestinalis (2003)
Azumi, Kaoru, Takahashi, Hiroki, Miki, Yasufumi, Fujie, Manabu, Usami, Takeshi, Ishikawa, Hisayoshi, ...
A cDNA microarray was constructed from a basal chordate, the ascidian Ciona intestinalis. The draft genome of Ciona has been read and inferred to contain similar to16,000 protein-coding genes, and...
Novel endostyle-specific genes in the ascidian Ciona intestinalis (2003)
Sasaki, Akane, Miyamoto, Yuki, Satou, Yutaka, Satoh, Nori, Ogasawara, Michio
The endostyle is a pharyngeal organ of Urochordata, Cephalochordata and larval Cyclostomata. This organ secretes mucus-proteins for internal filter feeding, a feeding system that must have developed...
Cleto, Cynthia L., Vandenberghe, Amanda E., MacLean, Darren W., Pannunzio, Pierre, Tortorelli, Christine, Meedel, Thomas H., ...
Ascidians are protochordates related to vertebrate ancestors. The ascidian larval tail, with its notochord, dorsal nerve cord, and flanking rows of sarcomeric muscle cells, exhibits the basic...
Cleto, Cynthia L., Vandenberghe, Amanda E., MacLean, Darren W., Pannunzio, Pierre, Tortorelli, Christine, Meedel, Thomas H., ...
Ascidians are protochordates related to vertebrate ancestors. The ascidian larval tail, with its notochord, dorsal nerve cord, and flanking rows of sarcomeric muscle cells, exhibits the basic...
Cleto, Cynthia L., Vandenberghe, Amanda E., MacLean, Darren W., Pannunzio, Pierre, Tortorelli, Christine, Meedel, Thomas H., ...
Ascidians are protochordates related to vertebrate ancestors. The ascidian larval tail, with its notochord, dorsal nerve cord, and flanking rows of sarcomeric muscle cells, exhibits the basic...
Shota Chiba, Yutaka Satou, Takahito Nishikata, Noriyuki Satoh
Ascidian eggs and embryos have provided an appropriate experimental system to explore the cellular and molecular mechanisms involved in the embryonic cell specification and pattern formation of the...
Chiba, Shota, Satou, Yutaka, Nishikata, Takahito, Satoh, Noriyuki
Ascidian eggs and embryos have provided an appropriate experimental system to explore the cellular and molecular mechanisms involved in the embryonic cell specification and pattern formation of the...
A saturation screen for cis-acting regulatory DNA in the Hox genes of Ciona intestinalis
Keys, David N., Lee, Byung-in, Di Gregorio, Anna, Harafuji, Naoe, Detter, J. Chris, Wang, Mei, ...
A screen for the systematic identification of cis-regulatory elements within large (>100 kb) genomic domains containing Hox genes was performed by using the basal chordate Ciona intestinalis....
Assembly of polymorphic genomes: Algorithms and application to Ciona savignyi
Vinson, Jade P., Jaffe, David B., O'Neill, Keith, Karlsson, Elinor K., Stange-Thomann, Nicole, Anderson, Scott, ...
Whole-genome assembly is now used routinely to obtain high-quality draft sequence for the genomes of species with low levels of polymorphism. However, genome assembly remains extremely challenging...
Genomic overview of mRNA 5′-leader trans-splicing in the ascidian Ciona intestinalis
Satou, Yutaka, Hamaguchi, Makoto, Takeuchi, Keisuke, Hastings, Kenneth E. M., Satoh, Nori
Although spliced leader (SL) trans-splicing in the chordates was discovered in the tunicate Ciona intestinalis there has been no genomic overview analysis of the extent of trans-splicing or the...
Chromosomal mapping of 170 BAC clones in the ascidian Ciona intestinalis
Shoguchi, Eiichi, Kawashima, Takeshi, Satou, Yutaka, Hamaguchi, Makoto, Sin-I, Tadasu, Kohara, Yuji, ...
The draft genome (∼160 Mb) of the urochordate ascidian Ciona intestinalis has been sequenced by the whole-genome shotgun method and should provide important insights into the origin and evolution...
A saturation screen for cis-acting regulatory DNA in the Hox genes of Ciona intestinalis
Keys, David N., Lee, Byung-in, Di Gregorio, Anna, Harafuji, Naoe, Detter, J. Chris, Wang, Mei, ...
A screen for the systematic identification of cis-regulatory elements within large (>100 kb) genomic domains containing Hox genes was performed by using the basal chordate Ciona intestinalis....
Assembly of polymorphic genomes: Algorithms and application to Ciona savignyi
Vinson, Jade P., Jaffe, David B., O'Neill, Keith, Karlsson, Elinor K., Stange-Thomann, Nicole, Anderson, Scott, ...
Whole-genome assembly is now used routinely to obtain high-quality draft sequence for the genomes of species with low levels of polymorphism. However, genome assembly remains extremely challenging...
Chromosomal mapping of 170 BAC clones in the ascidian Ciona intestinalis
Shoguchi, Eiichi, Kawashima, Takeshi, Satou, Yutaka, Hamaguchi, Makoto, Sin-I, Tadasu, Kohara, Yuji, ...
The draft genome (∼160 Mb) of the urochordate ascidian Ciona intestinalis has been sequenced by the whole-genome shotgun method and should provide important insights into the origin and evolution...
Genomic overview of mRNA 5′-leader trans-splicing in the ascidian Ciona intestinalis
Satou, Yutaka, Hamaguchi, Makoto, Takeuchi, Keisuke, Hastings, Kenneth E. M., Satoh, Nori
Although spliced leader (SL) trans-splicing in the chordates was discovered in the tunicate Ciona intestinalis there has been no genomic overview analysis of the extent of trans-splicing or the...
The amphioxus genome illuminates vertebrate origins and cephalochordate biology
Holland, Linda Z., Albalat, Ricard, Azumi, Kaoru, Benito-Gutiérrez, Èlia, Blow, Matthew J., Bronner-Fraser, Marianne, ...
Cephalochordates, urochordates, and vertebrates evolved from a common ancestor over 520 million years ago. To improve our understanding of chordate evolution and the origin of vertebrates, we...
Satou, Yutaka, Mineta, Katsuhiko, Ogasawara, Michio, Sasakura, Yasunori, Shoguchi, Eiichi, Ueno, Keisuke, ...
An improved assembly of the Ciona intestinalis genome reveals that it contains non-canonical introns and that about 20% of Ciona genes reside in operons.