Microbial Community Ecology of Temperate Coastal Sands

  • Emerging high-throughput molecular techniques coupled with community ecology theories offer promising opportunities to better understand microbial ecology. In this thesis, patterns of diversity, community structure and ecology were investigated on temperate coastal sands over a 2-year period. Contextual environmental parameters were measured and bacterial diversity was described by applying automated rRNA intergenic spacer analysis (ARISA) and 454 massively parallel tag sequencing (MTPS) on sandy samples. In the first chapter, comparing ARISA with 454 MPTS led to high differences in community turnover (i.e. 50% with ARISA and 70-80% with 454 MPTS), but to similar patterns in community structure and its response to the environment. This study validates the robustness of applying ARISA together with 454 MPTS for a high resolution description of microbial ecology. The second chapter proposes a pipeline (MultiCoLA, www.ecology-research.com), which systematically truncates proportions of rare or dominant bacterial types from complex community data sets and tests its effect on the resulting ecological interpretation. With about 40% of the rare bacterial types removed from the original data set, a similar ecological signal was still obtained. This confirmed the importance of defining subsets of the microbial community for a consistent ecological interpretation. The third chapter gives a more thorough interpretation of each fraction of the bacterial community in temperate coastal sands. Dominant bacterial types presented similar ecological patterns as that of the overall community while rare types patterns were different. Rare types fluctuations were driving the really high turnover of the microbial community through depth and time and such fluctuations were linked to biogeochemical parameters. The accomplishments of this PhD thesis shed light on main processes shaping microbial communities, by constructing robust bases in microbial community ecology.

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Publishing Institution:IRC-Library, Information Resource Center der Jacobs University Bremen
Granting Institution:Jacobs Univ.
Author:Angélique Gobet
Referee:Antje Boetius, Matthias Ullrich, Alban Ramette
Advisor:Antje Boetius
Persistent Identifier (URN):urn:nbn:de:101:1-2013052411070
Document Type:PhD Thesis
Date of Successful Oral Defense:2010/12/13
Date of First Publication:2011/11/07
PhD Degree:Biology
School:SES School of Engineering and Science
Other Organisations Involved:Max-Planck-Institut für Marine Mikrobiologie (marmic)
International Max Planck Research School of Marine Microbiology (MarMic)
Library of Congress Classification:Q Science / QH Natural history - Biology / QH301-705.5 Biology (General) / QH540-549.5 Ecology / QH541.5.S35 Seashore ecology
Call No:Thesis 2010/49

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