Peach Genome Refinement through Biparental Mapping
Four biparental mapping populations were used to refine the peach genome (Peach v1.0):
67 seedlings of the ‘Texas’ x ‘Earligold’ F2 population (TxE [46 (link)]), an interspecific cross between almond and peach, maintained at the experimental station of CREA-FRU in Rome, Italy (latitude: from 41°47'43.72"N to 41°47'46.75"N; longitude: from 12°33'48.78"E to12°33'52.58"E);
242 seedlings of the peach selection IF7310828 x Ferganensis BC1 population (PxF [52 (link)]) maintained at the experimental station of CREA-FRU;
305 seedlings of the ‘Contender’ x ‘Ambra’ F2 population (CxA [51 (link)]) maintained in a farm belonging to the Municipality of Castel San Pietro (Bologna, Emilia Romagna, Italy) leased to ASTRA (latitude: from 44u24944.180 N to: 44u24930.080 N; longitude: from 11u35947.210E, to: 11u3692.000E);
62 seedlings of the Maria Dolce x SD81 F1 cross (MDxSD) maintained at the experimental station of CREA-FRU.
Young leaves were collected from each seedling and lyophilized. DNA was extracted with the DNeasy Plant Mini Kit (QIAGEN), quantified with the NanoDrop spectrophotometer (Thermo Fisher Scientific, Waltham, MA, USA) and with the PicoGreen® Assay (Thermo Fisher Scientific) for samples genotyped on the IPSC 9 K SNP array. For Sequenom analysis, DNA was extracted from the seedlings of the CxA progeny after Mercado et al. [54 (link)].
Verde I., Jenkins J., Dondini L., Micali S., Pagliarani G., Vendramin E., Paris R., Aramini V., Gazza L., Rossini L., Bassi D., Troggio M., Shu S., Grimwood J., Tartarini S., Dettori M.T, & Schmutz J. (2017). The Peach v2.0 release: high-resolution linkage mapping and deep resequencing improve chromosome-scale assembly and contiguity. BMC Genomics, 18, 225.
Corresponding Organization : Istituto Sperimentale per la Frutticoltura
Other organizations :
HudsonAlpha Institute for Biotechnology, University of Bologna, University of Milan, Fondazione Edmund Mach, Joint Genome Institute
Four biparental mapping populations used to refine the peach genome (Peach v1.0):
I) 'Texas' x 'Earligold' F2 population (TxE)
Ii) Peach selection IF7310828 x Ferganensis BC1 population (PxF)
Iii) 'Contender' x 'Ambra' F2 population (CxA)
Iv) Maria Dolce x SD81 F1 cross (MDxSD)
dependent variables
Phenotypes of the seedlings in each mapping population
control variables
Location of the experimental stations and farms where the mapping populations were maintained
Collection of young leaves from each seedling and lyophilization
DNA extraction using the DNeasy Plant Mini Kit (QIAGEN)
DNA quantification using the NanoDrop spectrophotometer and PicoGreen® Assay
DNA extraction for the CxA progeny following the protocol by Mercado et al. [54]
controls
No positive or negative controls were explicitly mentioned in the given information.
Annotations
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