The genome of the western clawed frog xenopus tropicalis

Uffe Hellsten; Richard M. Harland; Michael J. Gilchrist; David Hendrix; Jerzy Jurka; Vladimir Kapitonov; Ivan Ovcharenko; Nicholas H. Putnam; Shengqiang Shu; Leila Taher; Ira L. Blitz; Bruce Blumberg; Darwin S. Dichmann; Lnna Dubchak; Enrique Amaya; John C. Detter; Russell Fletcher; Daniela S. Gerhard; David Goodstein; Tina Graves; Igor V. Grigoriev; Jane Grimwood; Takeshi Kawashima; Erika Lindquist; Susan M. Lucas; Paul E. Mead; Therese Mitros; Hajime Ogino; Yuko Ohta; Alexander V. Poliakov; Nicolas Pollet; Jacques Robert; Asaf Salamov; Amy K. Sater; Jeremy Schmutz; Astrid Terry; Peter D. Vize; Wesley C. Warren; Dan Wells; Andrea Wills; Richard K. Wilson; Lyle B. Zimmerman; Aaron M. Zorn; Robert Grainger; Timothy Grammer; Mustafa K. Khokha; Paul M. Richardson; Daniel S. Rokhsar

doi:10.1126/science.1183670

The genome of the western clawed frog xenopus tropicalis

Uffe Hellsten, Richard M. Harland, Michael J. Gilchrist, David Hendrix, Jerzy Jurka, Vladimir Kapitonov, Ivan Ovcharenko, Nicholas H. Putnam, Shengqiang Shu, Leila Taher, Ira L. Blitz, Bruce Blumberg, Darwin S. Dichmann, Lnna Dubchak, Enrique Amaya, John C. Detter, Russell Fletcher, Daniela S. Gerhard, David Goodstein, Tina GravesIgor V. Grigoriev, Jane Grimwood, Takeshi Kawashima, Erika Lindquist, Susan M. Lucas, Paul E. Mead, Therese Mitros, Hajime Ogino, Yuko Ohta, Alexander V. Poliakov, Nicolas Pollet, Jacques Robert, Asaf Salamov, Amy K. Sater, Jeremy Schmutz, Astrid Terry, Peter D. Vize, Wesley C. Warren, Dan Wells, Andrea Wills, Richard K. Wilson, Lyle B. Zimmerman, Aaron M. Zorn, Robert Grainger, Timothy Grammer, Mustafa K. Khokha, Paul M. Richardson, Daniel S. Rokhsar

Research output: Contribution to journal › Article › peer-review

Abstract

The western clawed frog Xenopus tropicalis is an important model for vertebrate development that combines experimental advantages of the African clawed frog Xenopus laevis with more tractable genetics. Here we present a draft genome sequence assembly of X tropicalis. This genome encodes more than 20,000 protein-coding genes, including orthologs of at least 1700 human disease genes. Over 1 million expressed sequence tags validated the annotation. More than one-third of the genome consists of transposable elements, with unusually prevalent DNA transposons. Like that of other tetrapods, the genome of X tropicalis contains gene deserts enriched for conserved noncoding elements. The genome exhibits substantial shared synteny with human and chicken over major parts of large chromosomes, broken by lineage-specific chromosome fusions and fissions, mainly in the mammalian lineage. Copyright 2010 by the American Association for the Advancement of Science; all rights reserved.

Original language	English
Pages (from-to)	633-636
Number of pages	3
Journal	Science
Volume	328
Issue number	5978
DOIs	https://doi.org/10.1126/science.1183670
Publication status	Published - 30 Apr 2010

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

Access to Document

10.1126/science.1183670

Cite this

Hellsten, U., Harland, R. M., Gilchrist, M. J., Hendrix, D., Jurka, J., Kapitonov, V., Ovcharenko, I., Putnam, N. H., Shu, S., Taher, L., Blitz, I. L., Blumberg, B., Dichmann, D. S., Dubchak, L., Amaya, E., Detter, J. C., Fletcher, R., Gerhard, D. S., Goodstein, D., ... Rokhsar, D. S. (2010). The genome of the western clawed frog xenopus tropicalis. Science, 328(5978), 633-636. https://doi.org/10.1126/science.1183670

@article{7aa9ad38d58845a38788a98bd1ffe2f9,

title = "The genome of the western clawed frog xenopus tropicalis",

abstract = "The western clawed frog Xenopus tropicalis is an important model for vertebrate development that combines experimental advantages of the African clawed frog Xenopus laevis with more tractable genetics. Here we present a draft genome sequence assembly of X tropicalis. This genome encodes more than 20,000 protein-coding genes, including orthologs of at least 1700 human disease genes. Over 1 million expressed sequence tags validated the annotation. More than one-third of the genome consists of transposable elements, with unusually prevalent DNA transposons. Like that of other tetrapods, the genome of X tropicalis contains gene deserts enriched for conserved noncoding elements. The genome exhibits substantial shared synteny with human and chicken over major parts of large chromosomes, broken by lineage-specific chromosome fusions and fissions, mainly in the mammalian lineage. Copyright 2010 by the American Association for the Advancement of Science; all rights reserved.",

author = "Uffe Hellsten and Harland, {Richard M.} and Gilchrist, {Michael J.} and David Hendrix and Jerzy Jurka and Vladimir Kapitonov and Ivan Ovcharenko and Putnam, {Nicholas H.} and Shengqiang Shu and Leila Taher and Blitz, {Ira L.} and Bruce Blumberg and Dichmann, {Darwin S.} and Lnna Dubchak and Enrique Amaya and Detter, {John C.} and Russell Fletcher and Gerhard, {Daniela S.} and David Goodstein and Tina Graves and Grigoriev, {Igor V.} and Jane Grimwood and Takeshi Kawashima and Erika Lindquist and Lucas, {Susan M.} and Mead, {Paul E.} and Therese Mitros and Hajime Ogino and Yuko Ohta and Poliakov, {Alexander V.} and Nicolas Pollet and Jacques Robert and Asaf Salamov and Sater, {Amy K.} and Jeremy Schmutz and Astrid Terry and Vize, {Peter D.} and Warren, {Wesley C.} and Dan Wells and Andrea Wills and Wilson, {Richard K.} and Zimmerman, {Lyle B.} and Zorn, {Aaron M.} and Robert Grainger and Timothy Grammer and Khokha, {Mustafa K.} and Richardson, {Paul M.} and Rokhsar, {Daniel S.}",

note = "U01 HG02155, HG, NHGRI NIH HHS, United States",

year = "2010",

month = apr,

day = "30",

doi = "10.1126/science.1183670",

language = "English",

volume = "328",

pages = "633--636",

journal = "Science",

issn = "0036-8075",

publisher = "American Association for the Advancement of Science (A A A S)",

number = "5978",

}

Hellsten, U, Harland, RM, Gilchrist, MJ, Hendrix, D, Jurka, J, Kapitonov, V, Ovcharenko, I, Putnam, NH, Shu, S, Taher, L, Blitz, IL, Blumberg, B, Dichmann, DS, Dubchak, L, Amaya, E, Detter, JC, Fletcher, R, Gerhard, DS, Goodstein, D, Graves, T, Grigoriev, IV, Grimwood, J, Kawashima, T, Lindquist, E, Lucas, SM, Mead, PE, Mitros, T, Ogino, H, Ohta, Y, Poliakov, AV, Pollet, N, Robert, J, Salamov, A, Sater, AK, Schmutz, J, Terry, A, Vize, PD, Warren, WC, Wells, D, Wills, A, Wilson, RK, Zimmerman, LB, Zorn, AM, Grainger, R, Grammer, T, Khokha, MK, Richardson, PM & Rokhsar, DS 2010, 'The genome of the western clawed frog xenopus tropicalis', Science, vol. 328, no. 5978, pp. 633-636. https://doi.org/10.1126/science.1183670

TY - JOUR

T1 - The genome of the western clawed frog xenopus tropicalis

AU - Hellsten, Uffe

AU - Harland, Richard M.

AU - Gilchrist, Michael J.

AU - Hendrix, David

AU - Jurka, Jerzy

AU - Kapitonov, Vladimir

AU - Ovcharenko, Ivan

AU - Putnam, Nicholas H.

AU - Shu, Shengqiang

AU - Taher, Leila

AU - Blitz, Ira L.

AU - Blumberg, Bruce

AU - Dichmann, Darwin S.

AU - Dubchak, Lnna

AU - Amaya, Enrique

AU - Detter, John C.

AU - Fletcher, Russell

AU - Gerhard, Daniela S.

AU - Goodstein, David

AU - Graves, Tina

AU - Grigoriev, Igor V.

AU - Grimwood, Jane

AU - Kawashima, Takeshi

AU - Lindquist, Erika

AU - Lucas, Susan M.

AU - Mead, Paul E.

AU - Mitros, Therese

AU - Ogino, Hajime

AU - Ohta, Yuko

AU - Poliakov, Alexander V.

AU - Pollet, Nicolas

AU - Robert, Jacques

AU - Salamov, Asaf

AU - Sater, Amy K.

AU - Schmutz, Jeremy

AU - Terry, Astrid

AU - Vize, Peter D.

AU - Warren, Wesley C.

AU - Wells, Dan

AU - Wills, Andrea

AU - Wilson, Richard K.

AU - Zimmerman, Lyle B.

AU - Zorn, Aaron M.

AU - Grainger, Robert

AU - Grammer, Timothy

AU - Khokha, Mustafa K.

AU - Richardson, Paul M.

AU - Rokhsar, Daniel S.

N1 - U01 HG02155, HG, NHGRI NIH HHS, United States

PY - 2010/4/30

Y1 - 2010/4/30

N2 - The western clawed frog Xenopus tropicalis is an important model for vertebrate development that combines experimental advantages of the African clawed frog Xenopus laevis with more tractable genetics. Here we present a draft genome sequence assembly of X tropicalis. This genome encodes more than 20,000 protein-coding genes, including orthologs of at least 1700 human disease genes. Over 1 million expressed sequence tags validated the annotation. More than one-third of the genome consists of transposable elements, with unusually prevalent DNA transposons. Like that of other tetrapods, the genome of X tropicalis contains gene deserts enriched for conserved noncoding elements. The genome exhibits substantial shared synteny with human and chicken over major parts of large chromosomes, broken by lineage-specific chromosome fusions and fissions, mainly in the mammalian lineage. Copyright 2010 by the American Association for the Advancement of Science; all rights reserved.

AB - The western clawed frog Xenopus tropicalis is an important model for vertebrate development that combines experimental advantages of the African clawed frog Xenopus laevis with more tractable genetics. Here we present a draft genome sequence assembly of X tropicalis. This genome encodes more than 20,000 protein-coding genes, including orthologs of at least 1700 human disease genes. Over 1 million expressed sequence tags validated the annotation. More than one-third of the genome consists of transposable elements, with unusually prevalent DNA transposons. Like that of other tetrapods, the genome of X tropicalis contains gene deserts enriched for conserved noncoding elements. The genome exhibits substantial shared synteny with human and chicken over major parts of large chromosomes, broken by lineage-specific chromosome fusions and fissions, mainly in the mammalian lineage. Copyright 2010 by the American Association for the Advancement of Science; all rights reserved.

U2 - 10.1126/science.1183670

DO - 10.1126/science.1183670

M3 - Article

C2 - 20431018

SN - 0036-8075

VL - 328

SP - 633

EP - 636

JO - Science

JF - Science

IS - 5978

ER -

The genome of the western clawed frog xenopus tropicalis

Abstract

UN SDGs

Access to Document

Fingerprint

Cite this