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Open Access Research article

A scenario of mitochondrial genome evolution in maize based on rearrangement events

Aude Darracq123, Jean-Stéphane Varré23 and Pascal Touzet1*

Author Affiliations

1 Laboratoire de Genetique et Evolution des Populations Vegetales, UMR CNRS 8016, Universite Lille 1, 59655 Villeneuve d'Ascq Cedex, France

2 Laboratoire d'Informatique Fondamentale de Lille, UMR CNRS 8022, Universite Lille 1, 59655 Villeneuve d'Ascq Cedex, France

3 INRIA Lille-Nord Europe, 59650 Villeneuve d'Ascq, France

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BMC Genomics 2010, 11:233  doi:10.1186/1471-2164-11-233

Published: 9 April 2010

Additional files

Additional file 1:

Backbone DNA fragments. Each orthologous fragment between mitogenomes is represented by an arrow. Fragment with the smallest size is underlined in blue and fragment with the longest size in red.

Format: XLS Size: 79KB Download file

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Additional file 2:

Synteny anchor numbers and compositions. Synteny anchors contained in GSSs. A synteny anchor often contains more than one genome marker (gene, tRNA, rRNA, ORF, pseudogene or non-coding sequence from backbone DNA sequence).

Format: XLS Size: 28KB Download file

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Additional file 3:

Jackknife tests. Node values for percentage of conserved GSS blocks. For each percentage of conserved synteny anchors, 1000 GRIMM matrices were computed and 1000 trees were drawn from these matrices. Each node value obtained for the consensus of these 1000 trees was reported in the graph. For example, for 90% of conserved GSS synteny anchors, Jackknife value for the terminal node (separation between NB and the remaining two Zea mays mitogenomes) 96.1%.

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Additional file 4:

Hierarchical clustering. Hierarchical clustering obtained with the neighborhood graph using GSSs. Two synteny anchors closer to one another than the others were assigned to the same cluster.

Format: XLS Size: 26KB Download file

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Open Data