VALORISATION AND TRACEABILITY OF MADE IN ITALY PRODUCTS: TRANSCRIPTOME ASSEMBLY AND MARKER DEVELOPMENT OF 'PUNTARELLE' - CHICORY STEMS.

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Abstract

The tender stems (turions) of chicory (Cichorium intybus L. Catalogna group) are widelyconsumed as fresh or processed food in central and southern Italy. They are also known as'puntarelle' and considered as elite groceries, cultivated as local varieties in Apulia and Lazio. Theproject CISIA has developed markers based on metabolic, transcriptional and allelic variationsaimed to identity, traceability and valorisation of the Galatina and Molfettese Apulian landracespropagated by local enterprises. A de novo reference transcriptome was assembled using RNA ofseveral organs (borne on young and adult plants of Galatina) and Illumina HiSeq2000 technology.Ca. 170M reads were generated (100bp paired-end) and assembled into 96,514 contigs of 1,168bpaverage length (N50 = 1,435bp). Among them, 68,260 (70.7%) showed significant similarity (Evalue<1e-5) to proteins in public databases (NCBI, TAIR, SwissProt, TrEMBL); 61,343 (63.6%)were classified based on gene ontology criteria and 13,536 (14.0%) were mapped onto 130 KEGGpathways. RNA-seq experiments (50bp single-end reads) were performed to collect genetranscriptional variation and polymorphism data using stems of Galatina and Molfettese grown inthe two regions. Ca. 1,700 genes were found to maintain the differential expression patterns,suggesting that they may be putative markers as being feebly dependent on the environment.Polymorphic SSR (ca. 100) and high-quality SNPs (ca. 71,000) were effective to discriminate thetwo varieties, representing potential tools for fingerprinting and map enrichment in assistedbreeding.

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  • TESTONE G.; MELE G. ; NICOLODI C. ; GONNELLA M.; SERIO F.; RENNA M.; SANTAMARIA P.; SOBOLEV A.; CAPITANI D.; MANNINA L.; DI GIACOMO E.; FRUGIS G.; IANNELLI A.; GIANNINO D.

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Anno di pubblicazione

2014

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ISBN

978-88-904570-4-3

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