title: Databases and information integration for the Medicago truncatula genome and transcriptome.
abstract: An international consortium is sequencing the euchromatic genespace of Medicago truncatula. Extensive bioinformatic and database resources support the marker-anchored bacterial artificial chromosome (BAC) sequencing strategy. Existing physical and genetic maps and deep BAC-end sequencing help to guide the sequencing effort, while EST databases provide essential resources for genome annotation as well as transcriptome characterization and microarray design. Finished BAC sequences are joined into overlapping sequence assemblies and undergo an automated annotation process that integrates ab initio predictions with EST, protein, and other recognizable features. Because of the sequencing project's international and collaborative nature, data production, storage, and visualization tools are broadly distributed. This paper describes databases and Web resources for the project, which provide support for physical and genetic maps, genome sequence assembly, gene prediction, and integration of EST data. A central project Web site at medicago.org/genome provides access to genome viewers and other resources project-wide, including an Ensembl implementation at medicago.org, physical map and marker resources at mtgenome.ucdavis.edu, and genome viewers at the University of Oklahoma (www.genome.ou.edu), the Institute for Genomic Research (www.tigr.org), and Munich Information for Protein Sequences Center (mips.gsf.de).
authors.affiliation: Department of Plant Pathology, University of Minnesota, St. Paul, Minnesota 55108, USA.
authors.forename: Steven B
authors.initials: SB
authors.lastname: Cannon
authors.forename: John A
authors.initials: JA
authors.lastname: Crow
authors.forename: Michael L
authors.initials: ML
authors.lastname: Heuer
authors.forename: Xiaohong
authors.initials: X
authors.lastname: Wang
authors.forename: Ethalinda K S
authors.initials: EK
authors.lastname: Cannon
authors.forename: Christopher
authors.initials: C
authors.lastname: Dwan
authors.forename: Anne-Francoise
authors.initials: AF
authors.lastname: Lamblin
authors.forename: Jayprakash
authors.initials: J
authors.lastname: Vasdewani
authors.forename: Joann
authors.initials: J
authors.lastname: Mudge
authors.forename: Andrew
authors.initials: A
authors.lastname: Cook
authors.forename: John
authors.initials: J
authors.lastname: Gish
authors.forename: Foo
authors.initials: F
authors.lastname: Cheung
authors.forename: Steve
authors.initials: S
authors.lastname: Kenton
authors.forename: Timothy M
authors.initials: TM
authors.lastname: Kunau
authors.forename: Douglas
authors.initials: D
authors.lastname: Brown
authors.forename: Gregory D
authors.initials: GD
authors.lastname: May
authors.forename: Dongjin
authors.initials: D
authors.lastname: Kim
authors.forename: Douglas R
authors.initials: DR
authors.lastname: Cook
authors.forename: Bruce A
authors.initials: BA
authors.lastname: Roe
authors.forename: Chris D
authors.initials: CD
authors.lastname: Town
authors.forename: Nevin D
authors.initials: ND
authors.lastname: Young
authors.forename: Ernest F
authors.initials: EF
authors.lastname: Retzel
mesh_terms: D001483:Base Sequence; D022202:Chromosomes, Artificial, Bacterial; D030541:Databases, Genetic; D018745:Genome, Plant; D020407:Internet; D046913:Medicago truncatula / Q000235:genetics*; D014158:Transcription, Genetic