Microbial community assembly in an evolving ecosystem: Ecological succession and functional properties of soil microbes

Francisco Dini Andreote

Microbial community assembly in an evolving ecosystem: Ecological succession and functional properties of soil microbes

Francisco Dini Andreote

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Thema’s omtrent “gemeenschapssamenstelling” en “ecologische successie in bodems” zijn traditionele concepten binnen de ecologie, doch minder gewaardeerd in bodemmicrobiologie. Dit proefschrift is gericht op integratie van deze thema’s in microbiële ecologie door gebruik te maken van een natuurlijk gevormde kwelder als studiesysteem (ofwel een bodem chronosequentie). Voor dit doel maak ik gebruik van een tweeledig perspectief: (i) middels het verkrijgen van een beter inzicht in hoe verschillende mechanismen en ecologische processen samenspelen tijdens het samenstellen van microbiële gemeenschappen en hoe de spatio-temporele dynamiek door ecologische successie langs de chronosequentie bevorderd wordt; hier worden de fylogenetische en functionele aspecten van de gemeenschappen besproken — ‘het ecosysteem ecologie perspectief’, en (ii) middels het verkennen van dit natuurlijke ecosysteem om algemene ecologische principes en mechanismen in microbiële ecologie te vinden die potentieel toepasbaar zijn op andere systemen — ‘het microbiële ecologie perspectief’. Het eerste perspectief zorgt voor een beter begrip van variatie in microbiële gemeenschappen en verbind deze met potentiële veranderingen in het functioneren van een ecosysteem. Deze data zijn van cruciaal belang voor het ontwikkelen van modellen voor beter toezicht van kwelders, vooral met betrekking tot het toezicht op en het mitigeren van klimaatverandering en (andere) antropogene invloeden. Het tweede perspectief heeft als doel bij te dragen aan de voortdurende integratie van microbiële ecologie binnen het bredere veld van (theoretische) ecologie. Ik heb concepten van gemeenschapsecologie ontwikkeld en toegepast binnen de microbiologie, in een poging om onze kennis van mechanismen, welke de samenstelling van microbiële gemeenschappen en de dynamiek van successies reguleren, te verbeteren.

Originele taal-2	English
Kwalificatie	Doctor of Philosophy
Toekennende instantie	Rijksuniversiteit Groningen
Begeleider(s)/adviseur	Falcao Salles, Joana, Supervisor van Elsas, Jan Dirk, Supervisor
Datum van toekenning	9-sep.-2016
Plaats van publicatie	[Groningen]
Uitgever	University of Groningen
Gedrukte ISBN's	978-90-367-8997-4
Elektronische ISBN's	978-90-367-8996-7
Status	Published - 2016

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Title and contents Final publisher's version, 103 KB
Chapter 1 Final publisher's version, 1,1 MB
Chapter 2 Final publisher's version, 1,48 MB
Chapter 3 Final publisher's version, 1,09 MB
Chapter 4 Final publisher's version, 2,12 MB
Chapter 5 Final publisher's version, 1,15 MB
Chapter 6 Final publisher's version, 1,12 MB
Chapter 7 Final publisher's version, 578 KB
Summary-SamenvattingFinal publisher's version, 227 KB
AcknowledgementsFinal publisher's version, 80,8 KB
Curriculum Vitae Final publisher's version, 163 KB
Author affiliationsFinal publisher's version, 62,8 KB
Complete dissertationFinal publisher's version, 8,17 MB
PropositionsFinal publisher's version, 35,7 KB

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@phdthesis{503da2fc8f2e4a0d889f11b7758a2048,

title = "Microbial community assembly in an evolving ecosystem: Ecological succession and functional properties of soil microbes",

abstract = "The themes of community assembly and ecological succession in soils constitutes rather traditional concepts in ecology, that are as yet not fully appreciated in soil microbiology. This thesis aimed at integrating these themes within microbial ecology by making use of a study system that represents a natural salt marsh landscape formation (i.e. a soil chronosequence). I purposely focused the work carried out throughout this within a two-pronged perspective: (i) fostering the understanding of how different mechanisms drive community assembly and promote spatiotemporal dynamics through ecological succession of the microbial communities along the chronosequence; here I provide both the phylogenetic and functional aspects of the communities, i.e. {\textquoteleft}the ecosystem ecology perspective{\textquoteright}; and (ii) explore this natural system for general ecological principles and mechanisms that are potentially applicable across other systems: {\textquoteleft}the microbial ecology perspective{\textquoteright}. With respect to the first perspective, the knowledge gained in this thesis provides a better understanding of microbial community variations, connecting these to potential changes in ecosystem functioning. As such, the data are of critical importance for the development of models that aim to better manage salt marsh ecosystems, in particular with respect to monitoring and mitigating anthropogenic and climate change impacts. The second perspective, however, aims at contributing to the continued integration of microbial ecology into the broader field of (theoretical) ecology. I developed and applied concepts from the field of community ecology within microbiology, in an effort to improve our knowledge on the mechanisms that mediate microbial community assembly and successional dynamics.",

author = "{Dini Andreote}, Francisco",

year = "2016",

language = "English",

isbn = "978-90-367-8997-4",

publisher = "University of Groningen",

school = "University of Groningen",

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TY - BOOK

T1 - Microbial community assembly in an evolving ecosystem

T2 - Ecological succession and functional properties of soil microbes

AU - Dini Andreote, Francisco

PY - 2016

Y1 - 2016

N2 - The themes of community assembly and ecological succession in soils constitutes rather traditional concepts in ecology, that are as yet not fully appreciated in soil microbiology. This thesis aimed at integrating these themes within microbial ecology by making use of a study system that represents a natural salt marsh landscape formation (i.e. a soil chronosequence). I purposely focused the work carried out throughout this within a two-pronged perspective: (i) fostering the understanding of how different mechanisms drive community assembly and promote spatiotemporal dynamics through ecological succession of the microbial communities along the chronosequence; here I provide both the phylogenetic and functional aspects of the communities, i.e. ‘the ecosystem ecology perspective’; and (ii) explore this natural system for general ecological principles and mechanisms that are potentially applicable across other systems: ‘the microbial ecology perspective’. With respect to the first perspective, the knowledge gained in this thesis provides a better understanding of microbial community variations, connecting these to potential changes in ecosystem functioning. As such, the data are of critical importance for the development of models that aim to better manage salt marsh ecosystems, in particular with respect to monitoring and mitigating anthropogenic and climate change impacts. The second perspective, however, aims at contributing to the continued integration of microbial ecology into the broader field of (theoretical) ecology. I developed and applied concepts from the field of community ecology within microbiology, in an effort to improve our knowledge on the mechanisms that mediate microbial community assembly and successional dynamics.

AB - The themes of community assembly and ecological succession in soils constitutes rather traditional concepts in ecology, that are as yet not fully appreciated in soil microbiology. This thesis aimed at integrating these themes within microbial ecology by making use of a study system that represents a natural salt marsh landscape formation (i.e. a soil chronosequence). I purposely focused the work carried out throughout this within a two-pronged perspective: (i) fostering the understanding of how different mechanisms drive community assembly and promote spatiotemporal dynamics through ecological succession of the microbial communities along the chronosequence; here I provide both the phylogenetic and functional aspects of the communities, i.e. ‘the ecosystem ecology perspective’; and (ii) explore this natural system for general ecological principles and mechanisms that are potentially applicable across other systems: ‘the microbial ecology perspective’. With respect to the first perspective, the knowledge gained in this thesis provides a better understanding of microbial community variations, connecting these to potential changes in ecosystem functioning. As such, the data are of critical importance for the development of models that aim to better manage salt marsh ecosystems, in particular with respect to monitoring and mitigating anthropogenic and climate change impacts. The second perspective, however, aims at contributing to the continued integration of microbial ecology into the broader field of (theoretical) ecology. I developed and applied concepts from the field of community ecology within microbiology, in an effort to improve our knowledge on the mechanisms that mediate microbial community assembly and successional dynamics.

M3 - Thesis fully internal (DIV)

SN - 978-90-367-8997-4

PB - University of Groningen

CY - [Groningen]

ER -

Microbial community assembly in an evolving ecosystem: Ecological succession and functional properties of soil microbes

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