April 21, 2020  |  

Pseudo-chromosome length genome assembly of a double haploid ‘Bartlett’ pear (Pyrus communis L.)

Authors: Linsmith, Gareth and Rombauts, Stephane and Montanari, Sara and Deng, Cecilia H. and Celton, Jean-Marc and Guérif, Philippe and Liu, Chang and Lohaus, Rolf and Zurn, Jason D. and Cestaro, Alessandro and Bassil, Nahla V. and Bakker, Linda V. and Schijlen, Elio and Gardiner, Susan E. and Lespinasse, Yves and Durel, Charles-Eric and Velasco, Riccardo and Neale, David B. and Chagné, David and Van de Peer, Yves and Troggio, Michela and Bianco, Luca

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.

Journal: BioRxiv
DOI: 10.1101/651778
Year: 2019

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