Open Access Highly Accessed Research article

The miRNAome of globe artichoke: conserved and novel micro RNAs and target analysis

Domenico De Paola1, Federica Cattonaro2, Domenico Pignone1 and Gabriella Sonnante1*

Author Affiliations

1 Institute of Plant Genetics (IGV), National Research Council (CNR), Via Amendola 165/A, 70126 Bari - Italy

2 Istituto di Genomica Applicata (IGA), Via Linussio 51, 33100 Udine - Italy

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BMC Genomics 2012, 13:41  doi:10.1186/1471-2164-13-41

Published: 24 January 2012

Additional files

Additional file 1:

Small RNA categories. Classification of small RNAs in artichoke tissues and their relative abundance (expressed as % of reads in each library).

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Additional file 2:

Artichoke miRNAs. Conserved and novel miRNAs from artichoke, and their count as transcripts per million (TPM) in four sRNA libraries.

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Additional file 3:

Folding miRNA structures. Secondary structures of conserved and novel miRNAs from artichoke.

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Additional file 4:

miRNA conservation. Conservation of known artichoke miRNAs across 46 plant species.

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Additional file 5:

miRNA electrophoretic profiles. Agarose gel separation of qPCR products of selected artichoke miRNAs.

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Additional file 6:

Identification of putative targets for conserved and novel artichoke miRNAs. Function was inferred using artichoke sequences as query for BLASTx searches against Arabidopsis thaliana proteins

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Additional file 7:

Target annotation. Artichoke miRNA targets annotated according to GO terms for Arabidopsis homologous proteins.

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Additional file 8:

qPCR primers. Reverse transcription (RT), forward and reverse primers used for artichoke miRNA validation and quantitative real-time PCR analyses.

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Additional file 9:

Target validation primers. Gene specific primers (GSP) used for reverse transcription (GSP1) and PCR amplifications (GSP2 and GSP3) for the validation of miRNA targets.

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