Construction, alignment and analysis of twelve framework physical maps that represent the ten genome types of the genus Oryza

Hye Ran Kim; Bonnie Hurwitz; Yeisoo Yu; Kristi Collura; Navdeep Gill; Phillip SanMiguel; James C. Mullikin; Christopher Maher; William Nelson; Marina Wissotski; Michele Braidotti; David Kudrna; José Luis Goicoechea; Lincoln Stein; Doreen Ware; Scott A. Jackson; Carol Soderlund; Rod A. Wing

doi:10.1186/gb-2008-9-2-r45

Construction, alignment and analysis of twelve framework physical maps that represent the ten genome types of the genus Oryza

Hye Ran Kim, Bonnie Hurwitz, Yeisoo Yu, Kristi Collura, Navdeep Gill, Phillip SanMiguel, James C. Mullikin, Christopher Maher, William Nelson, Marina Wissotski, Michele Braidotti, David Kudrna, José Luis Goicoechea, Lincoln Stein, Doreen Ware, Scott A. Jackson, Carol Soderlund, Rod A. Wing

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

71 Scopus citations

Abstract

We describe the establishment and analysis of a genus-wide comparative framework composed of 12 bacterial artificial chromosome fingerprint and end-sequenced physical maps representing the 10 genome types of Oryza aligned to the O. sativa ssp. japonica reference genome sequence. Over 932 Mb of end sequence was analyzed for repeats, simple sequence repeats, miRNA and single nucleotide variations, providing the most extensive analysis of Oryza sequence to date.

Original language	English (US)
Article number	R45
Journal	Genome biology
Volume	9
Issue number	2
DOIs	https://doi.org/10.1186/gb-2008-9-2-r45
State	Published - Feb 28 2008

ASJC Scopus subject areas

Ecology, Evolution, Behavior and Systematics
Genetics
Cell Biology

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10.1186/gb-2008-9-2-r45

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Kim, H. R., Hurwitz, B., Yu, Y., Collura, K., Gill, N., SanMiguel, P., Mullikin, J. C., Maher, C., Nelson, W., Wissotski, M., Braidotti, M., Kudrna, D., Goicoechea, J. L., Stein, L., Ware, D., Jackson, S. A., Soderlund, C., & Wing, R. A. (2008). Construction, alignment and analysis of twelve framework physical maps that represent the ten genome types of the genus Oryza. Genome biology, 9(2), [R45]. https://doi.org/10.1186/gb-2008-9-2-r45

Construction, alignment and analysis of twelve framework physical maps that represent the ten genome types of the genus Oryza. / Kim, Hye Ran; Hurwitz, Bonnie ; Yu, Yeisoo; Collura, Kristi; Gill, Navdeep; SanMiguel, Phillip; Mullikin, James C.; Maher, Christopher; Nelson, William; Wissotski, Marina; Braidotti, Michele; Kudrna, David; Goicoechea, José Luis; Stein, Lincoln; Ware, Doreen; Jackson, Scott A.; Soderlund, Carol; Wing, Rod A.

In: Genome biology, Vol. 9, No. 2, R45, 28.02.2008.

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

Kim, HR, Hurwitz, B , Yu, Y, Collura, K, Gill, N, SanMiguel, P, Mullikin, JC, Maher, C, Nelson, W, Wissotski, M, Braidotti, M, Kudrna, D, Goicoechea, JL, Stein, L, Ware, D, Jackson, SA, Soderlund, C & Wing, RA 2008, 'Construction, alignment and analysis of twelve framework physical maps that represent the ten genome types of the genus Oryza', Genome biology, vol. 9, no. 2, R45. https://doi.org/10.1186/gb-2008-9-2-r45

Kim, Hye Ran ; Hurwitz, Bonnie ; Yu, Yeisoo ; Collura, Kristi ; Gill, Navdeep ; SanMiguel, Phillip ; Mullikin, James C. ; Maher, Christopher ; Nelson, William ; Wissotski, Marina ; Braidotti, Michele ; Kudrna, David ; Goicoechea, José Luis ; Stein, Lincoln ; Ware, Doreen ; Jackson, Scott A. ; Soderlund, Carol ; Wing, Rod A. / Construction, alignment and analysis of twelve framework physical maps that represent the ten genome types of the genus Oryza. In: Genome biology. 2008 ; Vol. 9, No. 2.

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