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Location of low copy genes in chromosomes of Brachiaria spp.

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Abstract

Repetitive DNA sequences have been widely used in cytogenetic analyses. The use of gene sequences with a low-copy-number, however, is little explored especially in plants. To date, the karyotype details in Brachiaria spp. are limited to the location of rDNA sites. The challenge lies in developing new probes based on incomplete sequencing data for the genus or complete sequencing of related species, since there are no model species with a sequenced genome in Brachiaria spp. The present study aimed at the physical location of conserved genes in chromosomes of Brachiaria ruziziensis, Brachiaria brizantha, and Brachiaria decumbens using RNAseq data, as well as sequences of Setaria italica and Sorghum bicolor through the fluorescent in situ hybridization technique. Five out of approximately 90 selected sequences generated clusters in the chromosomes of the species of Brachiaria studied. We identified genes in synteny with 5S and 45S rDNA sites, which contributed to the identification of chromosome pairs carrying these genes. In some cases, the species of Brachiaria evaluated had syntenic segments conserved across the chromosomes. The use of genomic sequencing data is essential for the enhancement of cytogenetic analyses.

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(Adapted from Nani et al. [20]). (Color figure online)

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Acknowledgements

The authors are thankful to Dr. Ryan Douglas at University of Missouri for helping in designing the centromeric retrotransposons of maize 1 probe (CRM1), and to the Brazilian agencies of research support as Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq), Fundação de Amparo à Pesquisa do Estado de Minas Gerais (FAPEMIG), and the program “Science without Borders” of the Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES).

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Authors and Affiliations

  1. Department of Biology, Federal University of Lavras, Lavras, Minas Gerais State, Brazil

    Thaís Furtado Nani, Welison Andrade Pereira & Vânia Helena Techio

  2. University of Nebraska Lincoln, Lincoln, NE, USA

    James C. Schnable

  3. Division of Biological Sciences, University of Missouri, Columbia, MO, USA

    Jacob D. Washburn, Patrice Albert & James A. Birchler

  4. Empresa Brasileira de Pesquisa Agropecuária (Embrapa), Embrapa Gado de Leite (CNPGL), Juiz de Fora, Minas Gerais State, Brazil

    Fausto Souza Sobrinho

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  1. Thaís Furtado Nani
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Correspondence to Vânia Helena Techio.

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Nani, T.F., Schnable, J.C., Washburn, J.D. et al. Location of low copy genes in chromosomes of Brachiaria spp.. Mol Biol Rep 45, 109–118 (2018). https://doi.org/10.1007/s11033-018-4144-5

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