Open Access Highly Accessed Research article

A genomics approach to understanding the role of auxin in apple (Malus x domestica) fruit size control

Fanny Devoghalaere1, Thomas Doucen2, Baptiste Guitton37, Jeannette Keeling2, Wendy Payne2, Toby John Ling4, John James Ross4, Ian Charles Hallett1, Kularajathevan Gunaseelan1, GA Dayatilake5, Robert Diak6, Ken C Breen5, D Stuart Tustin5, Evelyne Costes7, David Chagné3, Robert James Schaffer12 and Karine Myriam David2*

Author Affiliations

1 The New Zealand Institute for Plant & Food Research Limited (PFR), Private Bag 92169, Auckland 1142, New Zealand

2 School of Biological Sciences, University of Auckland, Private Bag 92019, Auckland 1142, New Zealand

3 PFR, Private Bag 11600, Palmerston North 4442, New Zealand

4 School of Plant Science, University of Tasmania, GPO Box 252-55, Hobart, Tasmania 7001, Australia

5 PFR, Private Bag 1401, Havelock North 4157, New Zealand

6 PFR, Old Mill Road, RD3, Motueka 7198, New Zealand

7 INRA, UMR AGAP, Equipe Architecture et Fonctionnement des Espèces Fruitières, Avenue Agropolis - TA-A-108/03, 34398 Montpellier Cedex 01, France

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BMC Plant Biology 2012, 12:7  doi:10.1186/1471-2229-12-7

Published: 13 January 2012

Additional files

Additional file 1:

List of auxin-related genes in apples. Table of Predicted Apple genes by MDP number [38], designated names and chromosome location (Gene and protein sequences can be obtained from GDR: http://www.rosaceae.org webcite).

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Additional file 2:

Accession numbers of proteins sequences from other species used to build phylogenetic tree.

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Additional file 3:

Phylogenetic trees for PIN, GH3 and Aux/IAA class of genes. Protein sequences of PIN, GH3, Aux/IAA from apple (green), strawberry (lilac), Arabidopsis (black) and tomato (red) were aligned using MUSCLE and phylogenetic trees were built using neighbour joining. Bootstraps of 1000 iterations are given. At: Arabidopsis thaliana, Fv: Fragaria vesca, Md: Malus x domestica, Pp: Physcomitrella patens, Sl: Solanum lycopersicu.

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Additional file 4:

List of qPCR primers used to measure gene expression patterns, and relative expression used for clustering.

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Additional file 5:

Mapping Quantitative Trait Loci (QTL)s for fruit weight in RGxBB and STKxGS.

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Additional file 6:

Genes identified within QTL interval for fruit weight on Ch15. List of the 133 predicted gene transcripts present within the QTL interval for fruit weight on LG15. The table displays gene location and putative function based on homology to known genes in Arabidopsis thaliana (pairwise comparison of the Malus x domestica genome predicted genes against the Arabidopsis TAIR10_pep_20100802 database using BLASTP with an EXP cut-off < 1e-30). Data were retrieved from the Genome Database for Rosaceae (http://www.rosaceae.org/projects/apple_genome webcite).

Format: XLSX Size: 37KB Download file

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