Literature DB >> 21805273

Ciona genetics.

Michael T Veeman1, Shota Chiba, William C Smith.   

Abstract

Ascidians, such as Ciona, are invertebrate chordates with simple embryonic body plans and small, relatively non-redundant genomes. Ciona genetics is in its infancy compared to many other model systems, but it provides a powerful method for studying this important vertebrate outgroup. Here we give basic methods for genetic analysis of Ciona, including protocols for controlled crosses both by natural spawning and by the surgical isolation of gametes; the identification and propagation of mutant lines; and strategies for positional cloning.

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Year:  2011        PMID: 21805273      PMCID: PMC3149854          DOI: 10.1007/978-1-61779-210-6_15

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN: 1064-3745


  34 in total

1.  Gene expression profiles in tadpole larvae of Ciona intestinalis.

Authors:  Takehiro Kusakabe; Reiko Yoshida; Isao Kawakami; Rie Kusakabe; Yasuaki Mochizuki; Lixy Yamada; Tadasu Shin-i; Yuji Kohara; Nori Satoh; Motoyuki Tsuda; Yutaka Satou
Journal:  Dev Biol       Date:  2002-02-15       Impact factor: 3.582

2.  Generation of Ci-Brachyury-GFP stable transgenic lines in the ascidian Ciona savignyi.

Authors:  Karine Deschet; Yuki Nakatani; William C Smith
Journal:  Genesis       Date:  2003-04       Impact factor: 2.487

3.  The draft genome of Ciona intestinalis: insights into chordate and vertebrate origins.

Authors:  Paramvir Dehal; Yutaka Satou; Robert K Campbell; Jarrod Chapman; Bernard Degnan; Anthony De Tomaso; Brad Davidson; Anna Di Gregorio; Maarten Gelpke; David M Goodstein; Naoe Harafuji; Kenneth E M Hastings; Isaac Ho; Kohji Hotta; Wayne Huang; Takeshi Kawashima; Patrick Lemaire; Diego Martinez; Ian A Meinertzhagen; Simona Necula; Masaru Nonaka; Nik Putnam; Sam Rash; Hidetoshi Saiga; Masanobu Satake; Astrid Terry; Lixy Yamada; Hong-Gang Wang; Satoko Awazu; Kaoru Azumi; Jeffrey Boore; Margherita Branno; Stephen Chin-Bow; Rosaria DeSantis; Sharon Doyle; Pilar Francino; David N Keys; Shinobu Haga; Hiroko Hayashi; Kyosuke Hino; Kaoru S Imai; Kazuo Inaba; Shungo Kano; Kenji Kobayashi; Mari Kobayashi; Byung-In Lee; Kazuhiro W Makabe; Chitra Manohar; Giorgio Matassi; Monica Medina; Yasuaki Mochizuki; Steve Mount; Tomomi Morishita; Sachiko Miura; Akie Nakayama; Satoko Nishizaka; Hisayo Nomoto; Fumiko Ohta; Kazuko Oishi; Isidore Rigoutsos; Masako Sano; Akane Sasaki; Yasunori Sasakura; Eiichi Shoguchi; Tadasu Shin-i; Antoinetta Spagnuolo; Didier Stainier; Miho M Suzuki; Olivier Tassy; Naohito Takatori; Miki Tokuoka; Kasumi Yagi; Fumiko Yoshizaki; Shuichi Wada; Cindy Zhang; P Douglas Hyatt; Frank Larimer; Chris Detter; Norman Doggett; Tijana Glavina; Trevor Hawkins; Paul Richardson; Susan Lucas; Yuji Kohara; Michael Levine; Nori Satoh; Daniel S Rokhsar
Journal:  Science       Date:  2002-12-13       Impact factor: 47.728

4.  A genomewide survey of developmentally relevant genes in Ciona intestinalis. X. Genes for cell junctions and extracellular matrix.

Authors:  Yasunori Sasakura; Eiichi Shoguchi; Naohito Takatori; Shuichi Wada; Ian A Meinertzhagen; Yutaka Satou; Nori Satoh
Journal:  Dev Genes Evol       Date:  2003-05-10       Impact factor: 0.900

5.  A genomewide survey of developmentally relevant genes in Ciona intestinalis. VI. Genes for Wnt, TGFbeta, Hedgehog and JAK/STAT signaling pathways.

Authors:  Kyosuke Hino; Yutaka Satou; Kasumi Yagi; Nori Satoh
Journal:  Dev Genes Evol       Date:  2003-05-09       Impact factor: 0.900

6.  A genomewide survey of developmentally relevant genes in Ciona intestinalis. V. Genes for receptor tyrosine kinase pathway and Notch signaling pathway.

Authors:  Yutaka Satou; Yasunori Sasakura; Lixy Yamada; Kaoru S Imai; Nori Satoh; Bernard Degnan
Journal:  Dev Genes Evol       Date:  2003-05-09       Impact factor: 0.900

7.  A genomewide survey of developmentally relevant genes in Ciona intestinalis. II. Genes for homeobox transcription factors.

Authors:  Shuichi Wada; Miki Tokuoka; Eiichi Shoguchi; Kenji Kobayashi; Anna Di Gregorio; Antonietta Spagnuolo; Margherita Branno; Yuji Kohara; Daniel Rokhsar; Michael Levine; Hidetoshi Saiga; Nori Satoh; Yutaka Satou
Journal:  Dev Genes Evol       Date:  2003-05-08       Impact factor: 0.900

8.  A cDNA resource from the basal chordate Ciona intestinalis.

Authors:  Yutaka Satou; Lixy Yamada; Yasuaki Mochizuki; Naohito Takatori; Takeshi Kawashima; Akane Sasaki; Makoto Hamaguchi; Satoko Awazu; Kasumi Yagi; Yasunori Sasakura; Akie Nakayama; Hisayoshi Ishikawa; Kazuo Inaba; Nori Satoh
Journal:  Genesis       Date:  2002-08       Impact factor: 2.487

9.  Gene expression profiles of transcription factors and signaling molecules in the ascidian embryo: towards a comprehensive understanding of gene networks.

Authors:  Kaoru S Imai; Kyosuke Hino; Kasumi Yagi; Nori Satoh; Yutaka Satou
Journal:  Development       Date:  2004-07-21       Impact factor: 6.868

10.  Improved genome assembly and evidence-based global gene model set for the chordate Ciona intestinalis: new insight into intron and operon populations.

Authors:  Yutaka Satou; Katsuhiko Mineta; Michio Ogasawara; Yasunori Sasakura; Eiichi Shoguchi; Keisuke Ueno; Lixy Yamada; Jun Matsumoto; Jessica Wasserscheid; Ken Dewar; Graham B Wiley; Simone L Macmil; Bruce A Roe; Robert W Zeller; Kenneth E M Hastings; Patrick Lemaire; Erika Lindquist; Toshinori Endo; Kohji Hotta; Kazuo Inaba
Journal:  Genome Biol       Date:  2008-10-14       Impact factor: 13.583

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  22 in total

1.  A transiently expressed connexin is essential for anterior neural plate development in Ciona intestinalis.

Authors:  Christopher Hackley; Erin Mulholland; Gil Jung Kim; Erin Newman-Smith; William C Smith
Journal:  Development       Date:  2012-11-22       Impact factor: 6.868

2.  T-type Calcium Channel Regulation of Neural Tube Closure and EphrinA/EPHA Expression.

Authors:  Sarah Abdul-Wajid; Heidi Morales-Diaz; Stephanie M Khairallah; William C Smith
Journal:  Cell Rep       Date:  2015-10-17       Impact factor: 9.423

Review 3.  Quantitative and in toto imaging in ascidians: working toward an image-centric systems biology of chordate morphogenesis.

Authors:  Michael Veeman; Wendy Reeves
Journal:  Genesis       Date:  2014-10-06       Impact factor: 2.487

4.  Antagonistic Inhibitory Circuits Integrate Visual and Gravitactic Behaviors.

Authors:  Michaela Bostwick; Eleanor L Smith; Cezar Borba; Erin Newman-Smith; Iraa Guleria; Matthew J Kourakis; William C Smith
Journal:  Curr Biol       Date:  2020-01-30       Impact factor: 10.834

5.  Flagellar kinematics reveals the role of environment in shaping sperm motility.

Authors:  Jeffrey S Guasto; Jonathan B Estrada; Filippo Menolascina; Lisa J Burton; Mohak Patel; Christian Franck; A E Hosoi; Richard K Zimmer; Roman Stocker
Journal:  J R Soc Interface       Date:  2020-09-09       Impact factor: 4.118

6.  Functional and evolutionary insights from the Ciona notochord transcriptome.

Authors:  Wendy M Reeves; Yuye Wu; Matthew J Harder; Michael T Veeman
Journal:  Development       Date:  2017-09-15       Impact factor: 6.868

7.  Photoreceptor specialization and the visuomotor repertoire of the primitive chordate Ciona.

Authors:  Priscilla Salas; Vall Vinaithirthan; Erin Newman-Smith; Matthew J Kourakis; William C Smith
Journal:  J Exp Biol       Date:  2018-04-11       Impact factor: 3.312

8.  Whole-organ cell shape analysis reveals the developmental basis of ascidian notochord taper.

Authors:  Michael T Veeman; William C Smith
Journal:  Dev Biol       Date:  2012-11-17       Impact factor: 3.582

9.  Highly Efficient Knockout of a Squid Pigmentation Gene.

Authors:  Karen Crawford; Juan F Diaz Quiroz; Kristen M Koenig; Namrata Ahuja; Caroline B Albertin; Joshua J C Rosenthal
Journal:  Curr Biol       Date:  2020-07-30       Impact factor: 10.834

10.  A one-dimensional model of PCP signaling: polarized cell behavior in the notochord of the ascidian Ciona.

Authors:  Matthew J Kourakis; Wendy Reeves; Erin Newman-Smith; Benoit Maury; Sarah Abdul-Wajid; William C Smith
Journal:  Dev Biol       Date:  2014-08-28       Impact factor: 3.582

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