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Open Access Publications from the University of California

A 2600-locus chromosome bin map of wheat homoeologous group 2 reveals interstitial gene-rich islands and colinearity with rice

  • Author(s): Conley, EJ
  • Nduati, V
  • Gonzalez-Hernandez, JL
  • Mesfin, A
  • Trudeau-Spanjers, M
  • Chao, S
  • Lazo, GR
  • Hummel, DD
  • Anderson, OD
  • Qi, LL
  • Gill, BS
  • Echalier, B
  • Linkiewicz, AM
  • Dubcovsky, J
  • Akhunov, ED
  • Dvořák, J
  • Peng, JH
  • Lapitan, NLV
  • Pathan, MS
  • Nguyen, HT
  • Ma, XF
  • Miftahudin
  • Gustafson, JP
  • Greene, RA
  • Sorrells, ME
  • Hossain, KG
  • Kalavacharla, V
  • Kianian, SF
  • Sidhu, D
  • Dilbirligi, M
  • Gill, KS
  • Choi, DW
  • Fenton, RD
  • Close, TJ
  • McGuire, PE
  • Qualset, CO
  • Anderson, JA
  • et al.

The complex hexaploid wheat genome offers many challenges for genomics research. Expressed sequence tags facilitate the analysis of gene-coding regions and provide a rich source of molecular markers for mapping and comparison with model organisms. The objectives of this study were to construct a high-density EST chromosome bin map of wheat homoeologous group 2 chromosomes to determine the distribution of ESTs, construct a consensus map of group 2 ESTs, investigate synteny, examine patterns of duplication, and assess the colinearity with rice of ESTs assigned to the group 2 consensus bin map. A total of 2600 loci generated from 1110 ESTs were mapped to group 2 chromosomes by Southern hybridization onto wheat aneuploid chromosome and deletion stocks. A consensus map was constructed of 552 ESTs mapping to more than one group 2 chromosome. Regions of high gene density in distal bins and low gene density in proximal bins were found. Two interstitial gene-rich islands flanked by relatively gene-poor regions on both the short and long arms and having good synteny with rice were discovered. The map locations of two ESTs indicated the possible presence of a small pericentric inversion on chromosome 2B. Wheat chromosome group 2 was shown to share syntenous blocks with rice chromosomes 4 and 7.

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