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Open Access Highly Accessed Research article

The family of DOF transcription factors in Brachypodium distachyon: phylogenetic comparison with rice and barley DOFs and expression profiling

Sara Hernando-Amado, Virginia González-Calle, Pilar Carbonero and Cristina Barrero-Sicilia*

Author Affiliations

Centro de Biotecnología y Genómica de Plantas (UPM-INIA). Escuela Técnica Superior de Ingenieros Agrónomos, Universidad Politécnica de Madrid. Campus de Montegancedo, Pozuelo de Alarcón, Madrid, 28223, Spain

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BMC Plant Biology 2012, 12:202  doi:10.1186/1471-2229-12-202

Published: 5 November 2012

Additional files

Additional file 1:

Deduced amino acid sequences of all the Brachypodium Dof TFs annotated. The DOF domain sequences used for the alignment are highlighted in bold.

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Open Data

Additional file 2:

Distribution of the conserved motifs along the BdDOF transcription factors clustered in Figure2. Motifs identified by means of the MEME software using the deduced amino acid sequences of the 27 Brachypodium BdDof genes represented in Figure 2. Position of the identified motifs is relative to the DOF domain. Multilevel consensus sequences for the MEME defined motifs are listed in Additional file 3.

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Open Data

Additional file 3:

Group and sub-group of consensus specific conserved amino acid motifs. Numbers correspond to the motifs described in Additional file 2. Consensus sequences obtained from the analysis of the 27 Brachypodium DOF proteins with the MEME software. Motif 1 corresponds to the DOF DNA-binding domain.

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Open Data

Additional file 4:

Primer sequences used for RT-qPCR analyses, amplicon length and PCR efficiency. The corresponding RT-PCR efficiency (E) of one cycle in the exponential phase has been calculated according to the ecuation E=10(−1/slope).

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Open Data

Additional file 5:

Expression patterns of the BdDof genes in varios organs of the Brachypodium distachyon plants. The numbers indicate the relative expresion levels standardized to BdGAPDH (mean ± standard error).

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Open Data

Additional file 6:

Joined phylogenetic tree of the Brachypodium, barley, rice and the most importantDofgenes functionally characterized.

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Open Data

Additional file 7:

BdGAPDHexpression in different organs (A) and at developmental stage of maturating (B) and germinating (C) seed.

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Open Data