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Resource:AFTOL

Name: Resource:AFTOL
Description: The goal of the NSF-funded AFTOL (Assembling the Fungal Tree Of Life) project is to enhance the understanding of the evolution of the Kingdom Fungi by sampling 1500+ species for eight gene loci across all major fungal clades, plus a subset of taxa for a suite of morphological and ultrastructural characters. Data from this project include: AFTOL Molecular Database (generated by WASABI), 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 our current knowledge regarding fungal subcellular features within this new phylogenetic framework.

The name of the bioinformatic package we developed for AFTOL is WASABI (Web Accessible Sequence Analysis for Biological Inference). WASABI 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.
Other Name(s): Assembling the Fungal Tree of Life
Abbreviation: AFTOL
Parent Organization: Oregon State University; Oregon; USA
Supporting Agency: National Science Foundation
Grant: EF-0228671, NSF 0090301
Resource Type(s): Topical portal, Data set, Data storage repository, Image
Resource: Resource
URL: http://www.aftol.org/
*Id: nlx_64804
PMID: PMID 17486962, 21652303
Keywords: cytology, morphology, phylogeny, ultrastructure, primer
Link to OWL / RDF: Download this content as OWL/RDF

Curation status: Uncurated

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Contributors

Aarnaud, Akash, Ccdbuser



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Facts about Resource:AFTOLRDF feed
AbbrevAFTOL  +
CurationStatuscurated  +
DefiningCitationhttp://www.aftol.org/  +
DefinitionThe goal of the NSF-funded AFTOL (Assembli The goal of the NSF-funded AFTOL (Assembling the Fungal Tree Of Life) project is to enhance the understanding of the evolution of the Kingdom Fungi by sampling 1500+ species for eight gene loci across all major fungal clades, plus a subset of taxa for a suite of morphological and ultrastructural characters. Data from this project include: AFTOL Molecular Database (generated by WASABI), 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 our current knowledge regarding fungal subcellular features within this new phylogenetic framework.

The name of the bioinformatic package we developed for AFTOL is WASABI (Web Accessible Sequence Analysis for Biological Inference). WASABI 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.
ExampleImageAFTOL.PNG  +
GrantCategory:EF-0228671   +, and Category:NSF 0090301   +
Has default formThis property is a special property in this wiki.Resource  +
Has roleTopical portal  +, Data set  +, Data storage repository  +, and Image  +
Idnlx_64804  +
Is part ofOregon State University; Oregon; USA  +
KeywordsCytology  +, Morphology  +, Phylogeny  +, Ultrastructure  +, and Primer  +
LabelResource:AFTOL  +
ModifiedDate25 July 2011  +
PMID17486962, 21652303  +
Page has default formThis property is a special property in this wiki.Resource  +
SuperCategoryResource  +
Supporting AgencyNational Science Foundation  +
SynonymAssembling the Fungal Tree of Life  +