title: YeastIP: a database for identification and phylogeny of Saccharomycotina yeasts.
abstract: With the advances in sequencing techniques, identification of ascomycetous yeasts to the species level and phylogeny reconstruction increasingly require curated and updated taxonomic information. A specific database with nucleotide sequences of the most common markers used for yeast taxonomy and phylogeny and a user-friendly interface allowing identification, taxonomy and phylogeny of yeasts species was developed. By 1 September 2012, the YeastIP database contained all the described Saccharomycotina species for which sequences used for taxonomy and phylogeny, such as D1/D2 rDNA and ITS, are available. The database interface was developed to provide a maximum of relevant information and data mining tools, including the following features: (1) the blast n program for the sequences of the YeastIP database; (2) easy retrieval of selected sequences; (3) display of the available markers for each selected group of species; and (4) a tool to concatenate marker sequences, including those provided by the user. The concatenation tool allows phylogeny reconstruction through a direct link to the Phylogeny.fr platform. YeastIP is thus a unique database in that it provides taxonomic information and guides users in their taxonomic analyses. YeastIP facilitates multigenic analysis to encourage good practice in ascomycetous yeast phylogeny (URL: http://genome.jouy.inra.fr/yeastip.).
authors.affiliation: INRA, UMR1319 Micalis, CIRM-Levures, Thiverval-Grignon, France; AgroParisTech, UMR Micalis, Thiverval-Grignon, France.
authors.forename: Stéphanie
authors.initials: S
authors.lastname: Weiss
authors.forename: Franck
authors.initials: F
authors.lastname: Samson
authors.forename: David
authors.initials: D
authors.lastname: Navarro
authors.forename: Serge
authors.initials: S
authors.lastname: Casaregola
mesh_terms: D022126:Access to Information; D001203:Ascomycota / Q000145:classification* / Q000235:genetics / Q000302:isolation & purification; D001483:Base Sequence; D004271:DNA, Fungal / Q000235:genetics; D004275:DNA, Ribosomal / Q000235:genetics; D030561:Databases, Nucleic Acid; D016681:Genome, Fungal / Q000235:genetics*; D020407:Internet; D008969:Molecular Sequence Data; D010802:Phylogeny; D017422:Sequence Analysis, DNA
chemical_list: D004271:DNA, Fungal; D004275:DNA, Ribosomal