Genomic sequencing reveals gene content, genomic organization, and recombination relationships in barley (original) (raw)

Abstract

Barley (Hordeum vulgare L.) is one of the most important large-genome cereals with extensive genetic resources available in the public sector. Studies of genome organization in barley have been limited primarily to genetic markers and sparse sequence data. Here we report sequence analysis of 417.5 kb DNA from four BAC clones from different genomic locations. Sequences were analyzed with respect to gene content, the arrangement of repetitive sequences and the relationship of gene density to recombination frequencies. Gene densities ranged from 1 gene per 12 kb to 1 gene per 103 kb with an average of 1 gene per 21 kb. In general, genes were organized into islands separated by large blocks of nested retrotransposons. Single genes in apparent isolation were also found. Genes occupied 11% of the total sequence, LTR retrotransposons and other repeated elements accounted for 51.9% and the remaining 37.1% could not be annotated.

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Authors and Affiliations

  1. Department of Crop and Soil Sciences, Washington State University, Pullman, WA 99164, USA
    Nils Rostoks, Arnis Druka & Robert Brueggeman
  2. Department of Biological Sciences, Purdue University, West Lafayette, IN 47907, USA
    Yong-Jin Park, Wusirika Ramakrishna, Jianxin Ma, Phillip J. SanMiguel & Jeffrey L. Bennetzen
  3. National Center for Genome Resources, 2935 Rodeo Park Drive East, Santa Fe, NM 87505, USA
    Bryan A. Shiloff & Zeyu Jiang
  4. G302 Agronomy Hall, Iowa State University , Ames, IA 50011–1010, USA
    Devinder Sandhu
  5. Department of Agronomy, University of Nebraska, Lincoln, NE 68583, USA
    Kulvinder Gill
  6. School of Molecular Biosciences and Department of Crop and Soil Sciences, Washington State University, Pullman, WA 99164, USA
    Andris Kleinhofs

Authors

  1. Nils Rostoks
  2. Yong-Jin Park
  3. Wusirika Ramakrishna
  4. Jianxin Ma
  5. Arnis Druka
  6. Bryan A. Shiloff
  7. Phillip J. SanMiguel
  8. Zeyu Jiang
  9. Robert Brueggeman
  10. Devinder Sandhu
  11. Kulvinder Gill
  12. Jeffrey L. Bennetzen
  13. Andris Kleinhofs

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Electronic Publication

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Rostoks, N., Park, YJ., Ramakrishna, W. et al. Genomic sequencing reveals gene content, genomic organization, and recombination relationships in barley.Funct Integr Genomics 2, 51–59 (2002). https://doi.org/10.1007/s10142-002-0055-5

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