Please use this identifier to cite or link to this item: http://hdl.handle.net/10773/26361
Title: Assessment of variation in bacterial composition among microhabitats in a mangrove environment using DGGE fingerprints and barcoded pyrosequencing
Author: Cleary, Daniel F. R.
Smalla, Kornelia
Mendonça-Hagler, Leda C. S.
Gomes, Newton C. M.
Issue Date: 2012
Publisher: Public Library of Science
Abstract: Here, we use DGGE fingerprinting and barcoded pyrosequencing data, at six cut-off levels (85-100%), of all bacteria, Alphaproteobacteria and Betaproteobacteria to assess composition in the rhizosphere of nursery plants and nursery-raised transplants, native plants and bulk sediment in a mangrove habitat. When comparing compositional data based on DGGE fingerprinting and barcoded pyrosequencing at different cut-off levels, all revealed highly significant differences in composition among microhabitats. Procrustes superimposition revealed that ordination results using cut-off levels from 85-100% and DGGE fingerprint data were highly congruent with the standard 97% cut-off level. The various approaches revealed a primary gradient in composition from nursery to mangrove samples. The affinity between the nursery and transplants was greatest when using Betaproteobacteria followed by Alphaproteobacteria data. There was a distinct secondary gradient in composition from transplants to bulk sediment with native plants intermediate, which was most prevalent using all bacteria at intermediate cut-off levels (92-97%). Our results show that PCR-DGGE provides a robust and cost effective exploratory approach and is effective in distinguishing among a priori defined groups.
Peer review: yes
URI: http://hdl.handle.net/10773/26361
DOI: 10.1371/journal.pone.0029380
ISSN: 1932-6203
Appears in Collections:CESAM - Artigos
DBio - Artigos

Files in This Item:
File Description SizeFormat 
Cleary et al. - 2012 - Assessment of Variation in Bacterial Composition a.pdf971.6 kBAdobe PDFView/Open


FacebookTwitterDeliciousLinkedInDiggGoogle BookmarksMySpace
Formato BibTex MendeleyEndnote Degois 

Items in DSpace are protected by copyright, with all rights reserved, unless otherwise indicated.