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Genome Structure and Comparative Genomics

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Genetics and Genomics of Setaria

Part of the book series: Plant Genetics and Genomics: Crops and Models ((PGG,volume 19))

Abstract

Two genome assemblies have been generated for Setaria italica, one in the accession Yugu1 and one in the accession Zhang gu. A comparison of the two assemblies showed overall high levels of colinearity, but identified a number of likely misoriented and/or misplaced sequence scaffolds. Using available comparative information between Setaria, rice, sorghum, Brachypodium, and switchgrass, we reconstructed the structure of the 12-chromosome ancestral grass genome from which the grasses radiated some 70 million years ago. Comparing the structure of the ancestral grass genome with that of current-day Setaria and sorghum showed that the Setaria genome has undergone more rearrangements than sorghum. The reasons for the greater stability of the sorghum compared to the Setaria genome are unknown.

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Acknowledgements

This work was supported by the National Institute of Food and Agriculture Plant Feedstock Genomics for Bioenergy Program (grant no. 2008-35504-04851) and the Office of Biological and Environmental Research in the Department of Energy (DOE) Office of Science to the BioEnergy Science Center (BESC).

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Authors and Affiliations

  1. Institute of Plant Breeding, Genetics and Genomics (Dept. of Crop and Soil Sciences), and Dept. of Plant Biology, University of Georgia, Athens, GA, 30602, USA

    Katrien M. Devos, Xiaomei Wu & Peng Qi

  2. Center for Plant Environmental Sensing, and College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 310036, China

    Xiaomei Wu

Authors
  1. Katrien M. Devos
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  2. Xiaomei Wu
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  3. Peng Qi
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Corresponding author

Correspondence to Katrien M. Devos .

Editor information

Editors and Affiliations

  1. Department of Plant Biology, Ecology, and Evolution, Oklahoma State University, Stillwater, Oklahoma, USA

    Andrew Doust

  2. Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China

    Xianmin Diao

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Devos, K.M., Wu, X., Qi, P. (2017). Genome Structure and Comparative Genomics. In: Doust, A., Diao, X. (eds) Genetics and Genomics of Setaria. Plant Genetics and Genomics: Crops and Models, vol 19. Springer, Cham. https://doi.org/10.1007/978-3-319-45105-3_8

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