Pseudo-chromosome length genome assembly of a double haploid ‘Bartlett’ pear (Pyrus communis L.)
Gareth Linsmith, Stéphane RombautsiD, Sara MontanariiD, Cecilia Hong DengiD, Jean‐Marc CeltoniD, Philippe Guérif, Chang LiuiD, Rolf Lohaus, Jason D. ZurniD, Alessandro CestaroiD, Nahla Victor BassiliD, Linda V. BakkeriD, Elio G. W. M. SchijleniD, Susan E. GardineriD, Yves Lespinasse, Charles-Eric Durel, Riccardo VelascoiD, David B Neale, David ChagnéiD, Yves Van de PeeriD, Michela TroggioiD, Luca BiancoiD
Abstract
We report an improved assembly and scaffolding of the European pear (Pyrus communis L.) genome (referred to as BartlettDHv2.0), obtained using a combination of Pacific Biosciences RSII Long read sequencing (PacBio), Bionano optical mapping, chromatin interaction capture (Hi-C), and genetic mapping. A total of 496.9 million bases (Mb) corresponding to 97% of the estimated genome size were assembled into 494 scaffolds. Hi-C data and a high-density genetic map allowed us to anchor and orient 87% of the sequence on the 17 chromosomes of the pear genome. About 50% (247 Mb) of the genome consists of repetitive sequences. Comparison with previous assemblies of Pyrus communis. and Pyrus x bretschneideri confirmed the presence of 37,445 protein-coding genes, which is 13% fewer than previously predicted.
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