From NeuroLex

Jump to: navigation, search
Abbrev AFTOL  +
Availability The community can contribute to this resource +
CurationStatus curated  +
DefiningCitation  +
Definition To enhance the understanding of the evolut To enhance the understanding of the evolution of the Kingdom Fungi, 1500+ species were sampled for eight gene loci across all major fungal clades, plus a subset of taxa for a suite of morphological and ultrastructural characters with resulting data: AFTOL Molecular Database (generated by WASABI - Web Accessible Sequence Analysis for Biological Inference), Blast search the AFTOL Database (generated by WASABI), AFTOL primers (generated by WASABI), AFTOL primers by species (generated by WASABI), AFTOL alignments, and the AFTOL Structural and Biochemical Database. Users may submit samples to the AFTOL project. AFTOL is a collaboration centered around four universities in the United States: Duke University (Francois Lutzoni and Rytas Vilgalys), Clark University (David Hibbett), Oregon State University (Joey Spatafora), and University of Minnesota (David McLaughlin). Participants throughout the world have donated vouchers, taxon samples, and gene sequences. The aim of the project is to reconstruct the fungal tree of life using all available data for eight loci (nuclear ribosomal DNA: LSU, SSU, ITS (including 5.8s, ITS1 and ITS2); RNA polymerase II: RPB1, RPB2; elongation factor 1-alpha; mitochondrial SSU rDNA, and mitochondrial ATP synthase protein subunit 6). A further objective of this study is to summarize and integrate current knowledge regarding fungal subcellular features within this new phylogenetic framework. The name of the bioinformatic package developed for AFTOL is WASABI which provides an efficient communication platform to facilitate the collection and dissemination of molecular data to (and from) the laboratories and participants. All molecular data can be viewed, downloaded, verified, and corrected by the participants of AFTOL. A central goal of the WASABI interface is to establish an automated analysis framework that includes basecalling of newly generated chromatograms, contig assembly, quality verification of sequences (including a local BLAST), sequence alignment, and congruence test. Gene sequences that pass all tests and are finally verified by their authors will undergo automated phylogenetic analysis on a regular schedule. Although all steps are initially carried out noninteractively, the users can verify and correct the results at any step and thus initiate the reanalysis of dependent data. initiate the reanalysis of dependent data.
ExampleImage AFTOL.PNG +
Grant Category:EF-0228671   +, Category:NSF 0090301   +
Has default formThis property is a special property in this wiki. Resource  +
Has role Data set +, Biospecimen repository +, Data repository +
Id nlx_64804  +
Is part of Oregon State University; Oregon; USA +
Keywords Cytology +, Morphology +, Phylogeny +, Ultrastructure +, Primer +, Alignment +, BLAST +, Sequence +, Taxonomy +, Structure +, Biochemical +, Subcellular +, Organism-related portal +, Data analysis service +, Culture +, Sporocarp +, DNA +, PCR product +, Molecular +, Molecule +, Gene sequence +
Label Resource:AFTOL  +
Modification dateThis property is a special property in this wiki. 2 February 2015 03:57:16  +
ModifiedDate 2 February 2015  +
PMID 17486962, 21652303  +
Page has default formThis property is a special property in this wiki. Resource  +
Species Fungi +
SuperCategory Resource  +
Synonym Assembling the Fungal Tree of Life  +
Categories Resource
hide properties that link here 
  No properties link to this page.


Enter the name of the page to start browsing from.

*Note: Neurolex imports many terms and their ids from existing community ontologies, e.g., the Gene Ontology. Neurolex, however, is a dynamic site and any content beyond the identifier should not be presumed to reflect the content or views of the source ontology. Users should consult with the authoritative source for each ontology for current information.