GigaSciencePlant BiologyPeer-reviewed journal article
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.
- organism: plant (other)
- assay: whole-genome sequencing
- research focus: genome assembly
- approach: experimental assay
- Citations
- 129
- FWCI
- 4.55
- Field percentile
- top 4%
Reproducibility ledger
Nobody has reported trying to reproduce this paper yet. Did you replicate an experiment or run the code? Your report saves the next lab a week.
Sign in to file a reproducibility report.
Related papers
- A chromosome-scale assembly for dAnjou pear
Alan E. Yocca, Mary F. Akinyuwa, … Alex Harkess·G3 Genes Genomes GeneticsPeer-reviewed·Jan 8, 2024
- Chromosome-scale genome assembly of Japanese pear (Pyrus pyrifolia) variety 'Nijisseiki
Kenta Shirasawa, Akihiro Itai, Sachiko Isobe·DNA ResearchPeer-reviewed·Feb 24, 2021
- Towards a catalog of pome tree architecture genes: the draft 'd'Anjou' genome (Pyrus communis L.)
H. Zhang, E. K. Wafula, … L. A. Honaas·bioRxiv·Nov 17, 2021
- Improved genome assembly of double haploid Prunus persica siblings Lovell 2D and Lovell 5D and the peach NLRome
Christopher Gottschalk, Jordan R. Brock, … Chris D Dardick·Scientific ReportsPeer-reviewed·Apr 21, 2026
- A new genome assembly of the pea cultivar Cameor provides resources for functional genomics and genetics
Jonathan Kreplak, Petr Novák, … Judith Burstin·Scientific DataPeer-reviewed·May 12, 2026
- The draft chromosome-level genome assembly of tetraploid ground cherry (Prunus fruticosa Pall.) from long reads
Thomas Wöhner, Ofere Francis Emeriewen, … Henryk Flachowsky·GenomicsPeer-reviewed·Nov 1, 2021