期刊
PLOS ONE
卷 7, 期 1, 页码 -出版社
PUBLIC LIBRARY SCIENCE
DOI: 10.1371/journal.pone.0029380
关键词
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资金
- Deutsche Forschungsgemeinschaft [SM59/4-1, SM59/4-2]
- FAPERJ-Brazil
- Centre for Environmental and Marine Studies (CESAM, Portugal)
- Foundation for Science and Technology (FCT, Portugal) [PTDC/AAC-CLI/107916/2008]
- European Regional Development Fund (ERDF) through COMPETE [FCOMP-01-0124-FEDER-008657]
- Fundação para a Ciência e a Tecnologia [PTDC/AAC-CLI/107916/2008] Funding Source: FCT
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.
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