NDLI: The Draft Genome Sequence of European Pear (Pyrus communis L. ‘Bartlett’)

Content Provider	PubMed Central
Author	David, Chagné Crowhurst, Ross N. Massimo, Pindo Thrimawithana, Amali Deng, Cecilia Ireland, Hilary Fiers, Mark Dzierzon, Helge Cestaro, Alessandro Fontana, Paolo Bianco, Luca Lu, Ashley Storey, Roy Knäbel, Mareike Saeed, Munazza Montanari, Sara Kim, Yoon Kyeong Nicolini, Daniela Larger, Simone Stefani, Erika Allan, Andrew C. Bowen, Judith Harvey, Isaac Johnston, Jason Mickael, Malnoy Michela, Troggio Laure, Perchepied Sawyer, Greg Claudia, Wiedow Won, Kyungho Viola, Roberto Hellens, Roger P. Brewer, Lester Bus, Vincent G. M. Schaffer, Robert J. Gardiner, Susan E. Velasco, Riccardo
Editor	Tinker, Nicholas A.
Copyright Year	2014
Abstract	We present a draft assembly of the genome of European pear (Pyrus communis) ‘Bartlett’. Our assembly was developed employing second generation sequencing technology (Roche 454), from single-end, 2 kb, and 7 kb insert paired-end reads using Newbler (version 2.7). It contains 142,083 scaffolds greater than 499 bases (maximum scaffold length of 1.2 Mb) and covers a total of 577.3 Mb, representing most of the expected 600 Mb Pyrus genome. A total of 829,823 putative single nucleotide polymorphisms (SNPs) were detected using re-sequencing of ‘Louise Bonne de Jersey’ and ‘Old Home’. A total of 2,279 genetically mapped SNP markers anchor 171 Mb of the assembled genome. Ab initio gene prediction combined with prediction based on homology searching detected 43,419 putative gene models. Of these, 1219 proteins (556 clusters) are unique to European pear compared to 12 other sequenced plant genomes. Analysis of the expansin gene family provided an example of the quality of the gene prediction and an insight into the relationships among one class of cell wall related genes that control fruit softening in both European pear and apple (Malus×domestica). The ‘Bartlett’ genome assembly v1.0 (http://www.rosaceae.org/species/pyrus/pyrus_communis/genome_v1.0) is an invaluable tool for identifying the genetic control of key horticultural traits in pear and will enable the wide application of marker-assisted and genomic selection that will enhance the speed and efficiency of pear cultivar development.
Related Links	http://dx.doi.org/10.1371/journal.pone.0092644
Starting Page	92644
File Format	PDF
ISSN	19326203
e-ISSN	19326203
Journal	PLoS ONE
Issue Number	4
Volume Number	9
Language	English
Publisher	Public Library of Science
Publisher Date	2014-04-01
Access Restriction	Open
Rights Holder	Public Library of Science
Subject Keyword	Biochemistry, Genetics and Molecular Biology(all) Agricultural and Biological Sciences(all) Medicine(all) Research in Higher Education
Content Type	Text
Resource Type	Article
Subject	Multidisciplinary

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1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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