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Conifer Genome Network PineRefSeq Project SMarTForests Project Conifer Translational Genomics Network TreeGenes Database Dendrome Plone Forestry Careers and Education Resource

Picea glauca - Genome Sequence Assembly

» General Description

The SMarTForests Project has released sequence data and a third assembly of the white spruce genome (Picea glauca).

» Project Leaders

Dr. John MacKay
Depts. of Wood Science and Forest
Universite Laval, Quebec, Canada

Dr. Joerg Bohlmann
Depts. of Forest Science
University of British Columbia, Vancouver, Canada

 

» Objective

The objective is to "Develop a spruce genome resource by integrating outcomes of genome sequence analyses and high-density genetic mapping. Our work will benefit from recent advances in sequencing technologies and previously developed resources (gene catalogues, gene maps). The expected outcome is a more complete characterization of the gene space, as well as a draft of the white spruce genome sequence. The genetic map will help to position thousands of gene sequences and genome scaffolds onto chromosomes (linkage groups), and generate a novel genome resource that will enhance future marker aided selection."

» Methods Used For Assembly

An initial assembly of the white spruce genome sequence of an individual, diploid tree was based on shotgun sequencing of 21 libraries using the HiSeq2000 platform. The assembly was built using the ABySS software and sequence reads of 150 bp length for an estimated 63X genome coverage. The assembly contains 6 million contigs >500 bp. The assembled genome (15.2 Gb) is covered at 50% by contigs >4,234 bp (N50= 4,234 bp, largest contig = 78,855 bp).

» Sequence Summary and Downloads

NCBI BioProject PRJNA83435
FTP Release Notice (Updated Dec. 3, 2013) [PDF]
Scaffolds [FASTA]

» Publications

Birol, I. et al. (2013). Assembling the 20 Gb white spruce (Picea glauca) genome from whole-genome shotgun sequencing data. Bioinformatics. doi: 10.1093/bioinformatics/btt17.

Icon 03 Updates

PineRefSeq project releases assembly (v2.0) of the Pinus taeda genome Walnut genome project releases assembly (v1.0) of the Juglans regia genome PineRefSeq project releases assembly (v1.0) of the Pseudotsuga menziesii genome PineRefSeq project releases assembly (v1.0) of the Pinus lambertiana genome CartograTree (v3.0), a map interface that works with DiversiTree to bring together genomics, ecological, and trait data is now live! PineRefSeq project releases assembly (v1.01) of the Pinus teada genome SMarTForests Project releases the third assembly of the Picea glauca genome

Icon 01 Events

AFoRGeN2017

Trentino, Italy
June 15-17, 2017
34th Southern Forest Tree Improvement Conference

Melbourne, Florida, USA
June 19-22, 2017

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treegenesdb@gmail.com

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