Physical and genetic structure of the maize genome reflects its complex evolutionary history

Fusheng Wei, Ed Coe, William Nelson, Arvind K. Bharti, Fred Engler, Ed Butler, Hye Ran Kim, Jose Luis Goicoechea, Mingsheng Chen, Seunghee Lee, Galina Fuks, Hector Sanchez-Villeda, Steven Schroeder, Zhiwei Fang, Michael McMullen, Georgia Davis, John E. Bowers, Andrew H. Paterson, Mary Schaeffer, Jack GardinerKaren Cone, Joachim Messing, Carol Soderlund, Rod A. Wing

Research output: Contribution to journalArticle

200 Citations (Scopus)

Abstract

Maize (Zea mays L.) is one of the most important cereal crops and a model for the study of genetics, evolution, and domestication. To better understand maize genome organization and to build a framework for genome sequencing, we constructed a sequence-ready fingerprinted contig-based physical map that covers 93.5% of the genome, of which 86.1% is aligned to the genetic map. The fingerprinted contig map contains 25,908 genic markers that enabled us to align nearly 73% of the anchored maize genome to the rice genome. The distribution pattern of expressed sequence tags correlates to that of recombination. In collinear regions, 1 kb in rice corresponds to an average of 3.2 kb in maize, yet maize has a 6-fold genome size expansion. This can be explained by the fact that most rice regions correspond to two regions in maize as a result of its recent polyploid origin. Inversions account for the majority of chromosome structural variations during subsequent maize diploidization. We also find clear evidence of ancient genome duplication predating the divergence of the progenitors of maize and rice. Reconstructing the paleoethnobotany of the maize genome indicates that the progenitors of modern maize contained ten chromosomes.

Original languageEnglish (US)
Pages (from-to)1254-1263
Number of pages10
JournalPLoS genetics
Volume3
Issue number7
DOIs
StatePublished - Jul 1 2007

Fingerprint

Genetic Structures
genetic structure
Zea mays
genome
History
maize
Genome
history
corn
rice
chromosome
Chromosomes
chromosomes
Genome Size
physical chromosome mapping
domestication
Polyploidy
Molecular Evolution
grain crops
Expressed Sequence Tags

All Science Journal Classification (ASJC) codes

  • Ecology, Evolution, Behavior and Systematics
  • Molecular Biology
  • Genetics
  • Genetics(clinical)
  • Cancer Research

Cite this

Wei, F., Coe, E., Nelson, W., Bharti, A. K., Engler, F., Butler, E., ... Wing, R. A. (2007). Physical and genetic structure of the maize genome reflects its complex evolutionary history. PLoS genetics, 3(7), 1254-1263. https://doi.org/10.1371/journal.pgen.0030123
Wei, Fusheng ; Coe, Ed ; Nelson, William ; Bharti, Arvind K. ; Engler, Fred ; Butler, Ed ; Kim, Hye Ran ; Goicoechea, Jose Luis ; Chen, Mingsheng ; Lee, Seunghee ; Fuks, Galina ; Sanchez-Villeda, Hector ; Schroeder, Steven ; Fang, Zhiwei ; McMullen, Michael ; Davis, Georgia ; Bowers, John E. ; Paterson, Andrew H. ; Schaeffer, Mary ; Gardiner, Jack ; Cone, Karen ; Messing, Joachim ; Soderlund, Carol ; Wing, Rod A. / Physical and genetic structure of the maize genome reflects its complex evolutionary history. In: PLoS genetics. 2007 ; Vol. 3, No. 7. pp. 1254-1263.
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Wei, F, Coe, E, Nelson, W, Bharti, AK, Engler, F, Butler, E, Kim, HR, Goicoechea, JL, Chen, M, Lee, S, Fuks, G, Sanchez-Villeda, H, Schroeder, S, Fang, Z, McMullen, M, Davis, G, Bowers, JE, Paterson, AH, Schaeffer, M, Gardiner, J, Cone, K, Messing, J, Soderlund, C & Wing, RA 2007, 'Physical and genetic structure of the maize genome reflects its complex evolutionary history', PLoS genetics, vol. 3, no. 7, pp. 1254-1263. https://doi.org/10.1371/journal.pgen.0030123

Physical and genetic structure of the maize genome reflects its complex evolutionary history. / Wei, Fusheng; Coe, Ed; Nelson, William; Bharti, Arvind K.; Engler, Fred; Butler, Ed; Kim, Hye Ran; Goicoechea, Jose Luis; Chen, Mingsheng; Lee, Seunghee; Fuks, Galina; Sanchez-Villeda, Hector; Schroeder, Steven; Fang, Zhiwei; McMullen, Michael; Davis, Georgia; Bowers, John E.; Paterson, Andrew H.; Schaeffer, Mary; Gardiner, Jack; Cone, Karen; Messing, Joachim; Soderlund, Carol; Wing, Rod A.

In: PLoS genetics, Vol. 3, No. 7, 01.07.2007, p. 1254-1263.

Research output: Contribution to journalArticle

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AU - Wei, Fusheng

AU - Coe, Ed

AU - Nelson, William

AU - Bharti, Arvind K.

AU - Engler, Fred

AU - Butler, Ed

AU - Kim, Hye Ran

AU - Goicoechea, Jose Luis

AU - Chen, Mingsheng

AU - Lee, Seunghee

AU - Fuks, Galina

AU - Sanchez-Villeda, Hector

AU - Schroeder, Steven

AU - Fang, Zhiwei

AU - McMullen, Michael

AU - Davis, Georgia

AU - Bowers, John E.

AU - Paterson, Andrew H.

AU - Schaeffer, Mary

AU - Gardiner, Jack

AU - Cone, Karen

AU - Messing, Joachim

AU - Soderlund, Carol

AU - Wing, Rod A.

PY - 2007/7/1

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N2 - Maize (Zea mays L.) is one of the most important cereal crops and a model for the study of genetics, evolution, and domestication. To better understand maize genome organization and to build a framework for genome sequencing, we constructed a sequence-ready fingerprinted contig-based physical map that covers 93.5% of the genome, of which 86.1% is aligned to the genetic map. The fingerprinted contig map contains 25,908 genic markers that enabled us to align nearly 73% of the anchored maize genome to the rice genome. The distribution pattern of expressed sequence tags correlates to that of recombination. In collinear regions, 1 kb in rice corresponds to an average of 3.2 kb in maize, yet maize has a 6-fold genome size expansion. This can be explained by the fact that most rice regions correspond to two regions in maize as a result of its recent polyploid origin. Inversions account for the majority of chromosome structural variations during subsequent maize diploidization. We also find clear evidence of ancient genome duplication predating the divergence of the progenitors of maize and rice. Reconstructing the paleoethnobotany of the maize genome indicates that the progenitors of modern maize contained ten chromosomes.

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