Lancaster EPrints

T-Align, a web-based tool for comparison of multiple terminal restriction fragment length polymorphism profiles

Smith, Cindy and Danilowicz, Bret and Clear, Adrian and Costello, Fintan and Wilson, Bryan and Meijer, Wim (2005) T-Align, a web-based tool for comparison of multiple terminal restriction fragment length polymorphism profiles. FEMS Microbiology Ecology, 54 (3). pp. 375-380. ISSN 0168-6496

Full text not available from this repository.

Abstract

Terminal restriction fragment length polymorphism (tRFLP) is a potentially high-throughput method for the analysis of complex microbial communities. Comparison of multiple tRFLP profiles to identify shared and unique components of microbial communities however, is done manually, which is both time consuming and error prone. This paper describes a freely accessible web-based program, T-Align (http://inismor.ucd.ie/~talign/), which addresses this problem. Initially replicate profiles are compared and used to generate a single consensus profile containing only terminal restriction fragments that occur in all replicate profiles. Subsequently consensus profiles representing different communities are compared to produce a list showing whether a terminal restriction fragment (TRF) is present in a particular sample and its relative fluorescence intensity. The use of T-Align thus allows rapid comparison of numerous tRFLP profiles. T-Align is demonstrated by alignment of tRFLP profiles generated from bacterioplankton communities collected from the Irish and Celtic Seas in November 2000. Ubiquitous TRFs and site-specific TRFs were identified using TAlign.

Item Type: Article
Journal or Publication Title: FEMS Microbiology Ecology
Uncontrolled Keywords: tRFLP ; Computer algorithm ; Community analysis
Subjects: UNSPECIFIED
Departments: Faculty of Science and Technology > School of Computing & Communications
ID Code: 51707
Deposited By: ep_importer_pure
Deposited On: 01 Dec 2011 11:52
Refereed?: Yes
Published?: Published
Last Modified: 26 Jul 2012 19:55
Identification Number:
URI: http://eprints.lancs.ac.uk/id/eprint/51707

Actions (login required)

View Item