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          Institute: MPI für Evolutionsbiologie     Collection: Ecophysiology     Display Documents



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ID: 380066.0, MPI für Evolutionsbiologie / Ecophysiology
TRiFLe, a program for in silico terminal restriction fragment length polymorphism analysis with user-defined sequence sets
Authors:Junier, Pilar; Junier, Thomas; Witzel, Karl-Paul
Language:English
Date of Publication (YYYY-MM-DD):2008-10
Title of Journal:Applied and Environmental Microbiology
Journal Abbrev.:Appl. Environ. Microbiol.
Volume:74
Issue / Number:20
Start Page:6452
End Page:6456
Review Status:not specified
Audience:Not Specified
Abstract / Description:We describe TRiFLe, a freely accessible computer program that generates theoretical terminal restriction fragments (T-RFs) from any user-supplied sequence set tailored to a particular group of organisms, sequences from clone libraries, or sequences from specific genes. The program allows a rapid identification of the most polymorphic enzymes, creates a collection of T-RFs for the data set, and can potentially identify specific T-RFs in T-RF length polymorphism (T-RFLP) patterns by comparing theoretical and experimental results. TRiFLE was used for analyzing T-RFLP data generated for the amoA and pmoA genes. The peaks identified in the T-RFLP patterns show an overlap of ammonia- and methane-oxidizing bacteria in the metalimnion of a subtropical lake.
External Publication Status:published
Document Type:Article
Affiliations:MPI für Evolutionsbiologie/Abt. Ökophysiologie
External Affiliations:Ecole Polytech Fed Lausanne, ENAC ISTE, CE 1 644, Environm Microbiol Lab,Stn 6, CH-1015 Lausanne, Switzerland; Univ Geneva, Computat Evolutionary Genom Grp, CH-1211 Geneva, Switzerland
Identifiers:ISSN:0099-2240 [ID-No:1]
DOI:10.1128/AEM.01394-08 [ID-No:2]
LOCALID:2639/S 38910 [Listen-Nummer/S-Nummer]
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