Abstract
Forest trees are valued sources of pulp, timber and biofuels, and serve a role in carbon sequestration, biodiversity maintenance and watershed stability. Examining the relationships among genetic, phenotypic and environmental factors for these species provides insight on the areas of concern for breeders and researchers alike. The TreeGenes database is a web-based repository that is home to 1790 tree species and over 1500 registered users. The database provides a curated archive for high-throughput genomics, including reference genomes, transcriptomes, genetic maps and variant data. These resources are paired with extensive phenotypic information and environmental layers. TreeGenes recently migrated to Tripal, an integrated and open-source database schema and content management system. This migration enabled developments focused on data exchange, data transfer and improved analytical capacity, as well as providing TreeGenes the opportunity to communicate with the following partner databases: Hardwood Genomics Web, Genome Database for Rosaceae, and the Citrus Genome Database. Recent development in TreeGenes has focused on coordinating information for georeferenced accessions, including metadata acquisition and ontological framew...Continue Reading
References
Sep 4, 2003·Genome Research·Li LiDavid S Roos
Jan 24, 2007·Journal of Oral Pathology & Medicine : Official Publication of the International Association of Oral Pathologists and the American Academy of Oral Pathology·Eneida F VencioEduardo Zancope
Jul 25, 2007·Bioinformatics·Christopher J MungallUNKNOWN FlyBase Consortium
Aug 30, 2008·International Journal of Plant Genomics·Jill L WegrzynDavid B Neale
Nov 21, 2008·Clinical and Experimental Dermatology·I Dei-CasK Acuña
Jul 3, 2009·Genome Research·Mitchell E SkinnerIan H Holmes
May 6, 2010·Genome Biology·Lincoln D Stein
Jan 20, 2011·Nature Reviews. Genetics·David B Neale, Antoine Kremer
Nov 24, 2011·Nucleic Acids Research·David M GoodsteinDaniel S Rokhsar
Apr 19, 2012·Biology Direct·Grzegorz M BoratynThomas L Madden
Aug 31, 2012·Frontiers in Physiology·Rosemary ShresthaElizabeth Arnaud
Oct 29, 2013·Database : the Journal of Biological Databases and Curation·Lacey-Anne SandersonDorrie Main
Nov 15, 2013·Nucleic Acids Research·Sook JungDorrie Main
Nov 18, 2014·Nature Methods·Benjamin BuchfinkDaniel H Huson
Apr 16, 2015·Genetics Research International·Arun Prabhu Dhanapal, Mahalingam Govindaraj
Aug 6, 2015·Genome Biology·David M Emms, Steven Kelly
Oct 16, 2015·Nucleic Acids Research·Janna HastingsChristoph Steinbeck
Apr 14, 2016·Genome Biology·Robert BuelsIan H Holmes
Apr 19, 2016·Evolutionary Applications·Sally N Aitken, Jordan B Bemmels
May 4, 2016·Nucleic Acids Research·Enis AfganJeremy Goecks
Nov 16, 2016·Plant Methods·Hanna Ćwiek-KupczyńskaPaweł Krajewski
Dec 3, 2016·Nucleic Acids Research·Bronwen L AkenPaul Flicek
Oct 13, 2017·Frontiers in Plant Science·Riccardo LudovisiAntoine Harfouche
Nov 16, 2017·Nucleic Acids Research·Dennis A BensonEric W Sayers
Dec 1, 2017·Nucleic Acids Research·Laurel CooperPankaj Jaiswal
Dec 9, 2017·Database : the Journal of Biological Databases and Curation·Ming ChenMargaret Staton
Citations
May 23, 2019·Journal of Health and Social Behavior·Tjeerd W PiersmaEva-Maria Merz
Mar 2, 2019·International Wound Journal·David A JenkinsSabine N van der Veer
Jul 23, 2019·Database : the Journal of Biological Databases and Curation·Shawna SpoorStephen P Ficklin
Jul 13, 2020·The Plant Journal : for Cell and Molecular Biology·Matthew WeissAmanda R De La Torre
Jul 12, 2019·Frontiers in Plant Science·Jill L WegrzynStephen Ficklin
Jan 2, 2020·Evolutionary Applications·Jill L WegrzynNic Herndon
Oct 6, 2020·Frontiers in Plant Science·Unai López de HerediaÁlvaro Soto
Oct 13, 2020·Frontiers in Plant Science·Jun-Jun LiuAngelia Kegley
Sep 20, 2020·G3 : Genes - Genomes - Genetics·Alison D ScottDavid B Neale
Jul 24, 2021·BMC Genomics·Jun-Jun LiuBenjamin Rancourt