/CRC AquaDiva /GRADUATE SCHOOL /Doctoral Researchers

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PhDs of the integrated Research Training Group AquaDiva


Doctoral Researchers






Nicolas Dalla Valle


Project: B02
Supervisors: Markus Reichstein, Thomas Wutzler


Deparment of Biogeochemical Integration,

Max Planck Institute for Biogeochemistry


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PhD thesis, working title: "Modeling vertical soil organic matter transport"


This study aims to understand the vertical distribution and transport of soil organic matter (SOM) under different land cover (forest vs. grassland) considering the role of short term non-equilibrium processes (bypass flow) or ecosystem distrubances (fire, insect pests). An important task of the work will be the further development of the SOMPROF model (Braakhekke et al. 2011) to accound for the processes mentioned above. The model will be calibrated using data from the Hainich, which will be gathered by several subprojects of the CRC AquaDiva.




Erik Fäßler


Erik Fäßler


Project: D01
Supervisor: Udo Hahn


JULIE Lab, Departement of Computer Linguistics,

Friedrich Schiller University Jena


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PhD thesis, working title: "Semantic search for biodiversity data"


The aim of my work is to facilitate life science applications by enriching scientific text with semantic metadata. These metadata can then be used for a range of applications, including the automatic construction of scientific fact databases, text mining support for scientific work in the fied of biodiversity or in life sciences in general.

Eventually, I seek to offer a semantic search engine that leverages the metadata to provide highly relevant information results to scientists who do literature search.






Michaela Brunzel


Project C05
Supervisor: Ulrich S. Schubert



Friedrich Schiller University Jena

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PhD thesis, working title


coming soon...




Nawras Ghanem

Nawras Ghanem


Project: A01

Supervisor: Lukas Y. Wick


Department of Environmental Microbiology,

UFZ Leipzig

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PhD thesis, working title: "Phages as vectors and indicators of biological information in the Earth's Critical Zone (PHAGE)"


Bacteriophages (short: phages) are viruses that infect specific host bacteria. In order to trace the hydrological flow and reactive transport of colloidal particles in the Critical Zone (CZ), the eligibility of marine phages as specific markers will be tested. Furthermore, the role of eukaryotic networks, i.e., fungal mycelia is going to be evaluated as a preferential translocation vector for phages and bacteria.




Tobias Jochum

Tobias Jochum (Alumni)


Project: B03

Supervisor: Torsten Frosch


Spectroscopy/Imaging Unit,

Leibniz Institute of Photonic Technology (IPHT)

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PhD thesis: "Highly sensitive Raman spectroscopy of biogenic gases"


The local atmosphere with its particular gas composition is on the one hand result of ambient biological processes and on the other hand impacts bioactivity. Therefore the monitoring of involved gases - main atmospheric gases like N2, O2, CO2, trace gases or process-specific gases - plays a crucial role in understanding complex interdependent environmental processes like the ones in the Hainich observatory.

Raman spectroscopy offers the possibility to analyze these gas compounds non-invasively, fast, continuously and on-site. Thus, I want to develop novel Raman gas sensor setups and optimize existing ones based on different signal enhancement techniques like cavity or fiber enhancement. Providing high sensitivity while maintaining versatility will be a major task of my work.




Katharina Reichel

Katharina Lehmann


Project: C03
Supervisors: Kai Uwe Totsche


Chair of Hydrogeology, Institute of Geosciences,

Friedrich Schiller University Jena


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PhD thesis, working title: "Tracking the release, transport, and transformation of soil-borne colloids"


Soil borne colloids (SBC), which encompass organics, mixed phases and biota, are materials that may fuel, stimulate and even trigger the biological activity in the subsurface compartments and the groundwater. Knowledge on the release, transfer and turnover of SBC might thus be key for understanding the biodiversity, ecology and functioning of the subsurface compartments. Also soil type, land use, and the extant geology determine composition and properties of SBC. Single events mobilize SBC that can then be transferred to deeper compartments of the SCZ. The characterization of the composition and properties of SBC by analysis of their chemical and mineralogical patterns provides the basis to trace land management signals and biodiversity patterns through the SCZ.

In all, in my study, 22 suction/tension-controlled lysimeters were installed at 7 monitoring sites for the collection and analysis of soil-borne colloids in the seepage water. We are focused on the seasonal effects in water flux (seepage water) and influence of land use on the mobilization and transport of colloids and organisms which were tracked with regular fortnight lysimeter sampling in depths of 30 cm and 60 cm below surface at different land management site (managed/unmanaged forest, pasture, cropland).




Johanna Metzger

Johanna Metzger


Project: B02

Supervisor: Anke Hildebrandt


Chair of Ecological Modelling, Institute of Geosciences,

Friedrich Schiller University Jena

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PhD thesis, working title: "Hotspots of soil water movement induced by vegetation canopies"


Investigating water flow in the Hainich forest, I want to find out how vegetation impacts the soil water budged downwards below the root zone.
Forest vegetation channels precipitation water via stemflow and throughfall. Can these patterns be recovered in soil water dynamics? With an extensive soil sensor network, I want to register flow heterogeneities and identify preferential flow lines. Spatial and temporal patterns of soil moisture and below-canopy precipitation distribution are analyzed. By comparison to each other and to open area measurements, I want to explore if strong heterogeneities within forests possibly result in altered ground water recharge.



narr

Anja Narr


Project: A01

Supervisor: Antonis Chatzinotas


Department of Environmental Microbiology,

UFZ Leipzig

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PhD thesis, working title: "Phages as vectors and indicators of biological information in the Earth's Critical Zone"


Bacteriophages are viruses that infect specific bacteria and thus have a vast influence on their hosts in terms of mortality, community structure and biogeochemical cycles. Although they represent the most abundant biological entities on earth, research has focused mainly on marine ecosystems neglecting terrestrial habitats. Moreover, the implications of viruses for the genetic landscape of the deep subsurface biosphere in terrestrial ecosystems are still almost terra incognita.
The overall aim of my project is to study (transducing) phages as vectors of the soil bacterial metagenome in the subsurface part of the Earth's Critical Zone. I want in particular to generate an overall inventory of viral communities (morphotype and molecular diversity) in selected field core samples and to investigate the viral functional metagenome using 454 shotgun sequencing. Furthermore I aim at identifying 16S rRNA genes transduced by bacteriophages using 454 pyrosequencing to reveal bacteria participating in transduction-mediated gene transfer in different layers of the Earth's Critical Zone.




ali nawaz

Ali Nawaz


Project: A03

Supervisor: François Buscot


Department of Soil Ecology,

UFZ Halle

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PhD thesis, working title: "Links between surface and sub-surface fungal communities along land use gradients"


In the project titled "Towards functional microbial subsurface biodiversity research (A03)", we want to unravel the hidden diversity within the Critical Zone (CZ) in the Hainich groundwater observation transects. Employing a pyrosequencing approach, we will target bacteria, archaea, fungi and protozoans. To evaluate the importance of lithoautotrophy we will use quantitative PCR to estimate the proportion of members harboring genes coding for CO2 fixation within the total groundwater community. The autochthonous carbon transfer from prokaryotes to higher trophic levels will be followed using a stable isotope probing (SIP) approach in aquifer mesocosms.




Anne Bachmann

Anne Sieburg


Project: B03

Supervisor: Torsten Frosch


Spectroscopy/Imaging Unit,

Leibniz Institute of Photonic Technology (IPHT)

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PhD thesis, working title: "Raman gas spectroscopy for environmental monitoring"

 

This study aims to develop innovative cavity-enhanced Raman gas sensors and apply them for biogenic gas sensing. We want to establish new in situ optical sensors capable of continuous and simultaneous measurements of a suite of gases over a wide range of concentrations. A further goal is to combine the Raman spectroscopy with other analytical techniques to enhance the capabilities for monitoring of microbiological metabolism. In such way we can contribute to establish models of gas transport for the interpretation of gas profiles.







Associated Doctoral Researchers








Martin Nowak

  Martin Nowak (Alumni)

  Project: B03

  Supervisor: Susan Trumbore


 



Swanatar Kumar_cut
 

Swatantar Kumar

Project: A03

Supervisor: Kirsten Küsel




PhD thesis: "The role of microbial CO2 fixation for belowground carbon cycling and its influence on carbon isotopic signatures"



PhD thesis, working title: "Elucidation of the microbial N-cycle in the subsurface - key microbial players and processes"


Carsten Simon

  Carsten Simon

  Project: A02

  Supervisor: Gerd Gleixner





Katharina Stolze
 

Katharina Stolze

Project: C03

Supervisor: Kai Uwe Totsche



PhD thesis, working title: "Identification of ecosystem-specific marker compounds"



PhD thesis, working title: "Role of biopores for fluid flow and matter transport from topsoil upon (extreme) weather events"


Su Ding

  Su Ding

  Project: C03

  Supervisor: Valérie Schwab-Lavric





Constantinos Xenophontos
 

Constantinos Xenophontos

Project: A03

Supervisor: Kirsten Künsel



PhD thesis, working title: "Carbon sources of

microbial communities in pristine aquifers"




  PhD thesis, working title: "Testing Ecological

  Theories with Microbial Communities"













Simon Benk

 Simon Benk

 Project: A02

 Supervisor: Gerd Gleixner








Patricia Lange

Patricia Geesink

 Project: A03

 Supervisor: Kirsten Küsel



PhD thesis, working title: "Ecosystem influence on dissolved organic matter composition"






PhD thesis, working title: "Interactions and metabolic potential of groundwater microorganisms"