Doctoral Thesis
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- Dendrochronologie , Moor , Kiefer <Gattung> (1)
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- Institut für Botanik und Landschaftsökologie & Botanischer Garten (3) (remove)
Peatlands are wetland ecosystems covering a relatively small area of the World (~3%), but at the same time storing excessive amounts of carbon for a very long time (equivalent to the four times global annual net primary production). As carbon sinks, peatlands work in spite of their slow growth, absorbing carbon dioxide (CO2) through the photosynthetic activity of the peatland plants and their low growth rates, and because high groundwater table removes oxygen from the soil and slows down the decomposition of the dead plant matter. Because of the relative lack of the oxygen in the peat, especially compared to the mineral soils, methanogen populations in the peatlands are abundant, and releasing methane (CH4), a potent greenhouse gas, to the atmosphere. Therefore, peatlands are generally at the same time significant carbon sinks and stores as well as the methane sources. The balance among the two peatland gass fluxes (CO2 and CH4) will dictate the impact of any given peatland on the global climate and primarily driven by hydrology, in the form of the groundwater table levels.
Because of the slow decomposition rates, and from radiocarbon dating of the peat as well as the subfossil records buried in it, carbon stored in peatlands is locked for a very long time (centuries to millennia). It is, therefore, crucial to gain insights into the development of peatlands and their gas balance through time. One way to get both is by studying peatland hydrology in the form of the groundwater table levels and their historical variations. Unfortunately, intensive monitoring of peatland groundwater table, when available, is an only a recent endeavor. Therefore, we need to employ proxies to reconstruct the past by leveraging the present. In statistics, proxy variables are often used when the observations of the variable of interest, are either missing or too difficult to obtain.
In this thesis, I tested whether we can use the radial growth of the Scots pines growing on peat as proxies to the peatland hydrology. To that end, I studied growth responses of the peatland Scots pines. Other proxies can and are used for the reconstructions of the groundwater table levels, but tree-growth is widely used as one of the proxies to reconstruct past environments which is at the same time annually resolved.
First, I examined the growth ecology of the peatland Scots pines by looking at their intra-annual development and trying to find relationships between it and environmental factors while at the same time comparing it with the Scots pines growing at the forest sites. I first tried with wood anatomy and found that, unfortunately, peatland Scots pines do not form enough wood cells, and consequently do not have high temporal resolution, necessary to investigate the intra-annual patterns of the radial growth. Initial results from wood anatomical investigations were interesting none-the-less, indicating that peatland Scots pines might have smaller cell features than the Scots pines from forests, but might at the same time maintain Early/Latewood ratios of those same features.
After I found that wood anatomical series were not resolved enough I decided to go with dendrometers, linear displacement sensors which constantly monitor the variations of stem radius, to get insights into the intra-annual growth patterns of the peatland Scots pines. Before using dendrometers for ecological investigations, I was involved in implementing routines commonly used in the analysis of the dendrometer signals and bringing them to R in the form of the dendrometeR package.
At one peatland complex, I installed dendrometers on ten trees in total at both peatland and forest sites and compared the pattern of the standardized signal. I inferred from the comparisons and classifications that the signal from two sites was indistinguishable for the dendrometer series shorter than five days. Furthermore, the most important environmental factor driving the radial variation at the peatland site was hydrological, daily relative humidity, indicating further that peatland hydrology might indeed be the driver behind peatland Scots pine growth.
Finally, I looked at the growth responses of peatland Scots pines from central Estonia using dendrochronological methods. Peatland hydrology, in the form of the groundwater table levels, was indeed the environmental factor with the strongest, and also stationary, correlations with the radial growth of the peatland Scots pine. That relationship indicated that peatland Scots pines are indeed possible proxies for reconstructing past levels of the peatland groundwater tables.
My study further indicated that the growth response of the peatland Scots pines was non-linear, further complicating the reconstructions of the past peatland hydrology. However, the strength of the growth response was proportional to the general hydrological regime, expressed as median groundwater table level. As the hydrological regime of the peatland does not vary considerably on the annual scales, but more on decadal it might be more appropriate to find another, independent, proxy to the hydrological regime first, and than use annually resolved radial growth of the peatland Scots pine to reconstruct past levels of the peatland groundwater table.
Durch zymografische Untersuchungen und Massenspektrometrie (MS) wurden neun Proteasen vom Subtilisin-Typ im Wurzelexsudat von Nicotiana tabacum identifiziert. Ein Peptid-Antikörper wurde produziert, der die affinitätschromatografische Anreicherung einer tobacco root exuded subtilase (TREXS, XP_016501597.1) und zweier Isoformen sowie eines Peroxidase-artigen und eines SERK2-artigen Proteins ermöglichte. Basierend auf dem Subtilase-EST, der in der MS identifiziert worden war, wurde die full-length cDNA von TREXS durch 5'RACE und 3'RACE sequenziert und die gDNA kloniert. Das intronfreie TREXS-Gen codiert eine 756 Aminosäuren lange Subtilase mit Signalpeptid, I9-Inhibitordomäne, PA- und Fn-III-artiger Domäne. Der Nachweis von TREXS-mRNA in Blattgewebe zeigte, dass TREXS nicht exklusiv auf Wurzeln beschränkt ist. Phylogenetische Analysen zeigten, dass SDD1 die ähnlichste Subtilase aus A. thaliana zu TREXS ist. Mit großer Wahrscheinlichkeit ist TREXS jedoch nicht das Ortholog zu SDD1, weil zum einen strukturähnlichere Subtilasen zu SDD1 in Tabak existieren und zum anderen SDD1 an der Ausprägung von Stomata in der Blattepidermis beteiligt ist, TREXS hingegen im Wurzelexsudat vorkommt. Das
MS-identifizierte SERK2-artige Protein, das bei der Peptid-Antikörper-Affinitätschromatografie zusammen mit TREXS angereichert wurde, ist Kandidat als Substrat für TREXS, weil es potenziell durch IgG–TREXS–SERK2-like-Interaktion co-angereinigt wurde, die in-silico docking-Vorhersagen zwischen den modellierten Molekülen von TREXS und SERK2-like einen proteolytisch relevanten Bindungszustand vorhersagt und es strukturelle Ähnlichkeit mit LRP, einem bekannten Substrat der Subtilase P69C, hat. Die transiente Expression rekombinanter TREXS in N. benthamiana war möglich, zeigte sich jedoch kritisch gegenüber C- und N-terminal fusionierten Anhängen: Transiente Transformation mit TREXS oder TREXS:Strep-tag führte zu proteolytisch aktivem Protein. Jedoch war der C-terminale Strep-tag nicht funktionell. Längere C-terminale Anhänge und auch TREXS-Mutanten mit inaktiviertem katalytischen Zentrum erbrachten kein Genprodukt. C-terminales GFP erbrachte – auch bei mutiertem katalytischen Zentrum – stets nur den GFP-Anteil des Fusionsproteins.
Global climate change is occurring all over the world, but in the Arctic the climate is changing more rapidly and drastically than in many other parts of our planet. Many species that are already at their climatic limit need to adapt to recent climate conditions or migrate in order to not go extinct. The possibilities of adaption include phenotypic plasticity and adaptation to various extents. This is also the case for white spruce P. glauca, which belongs to the conifers and thus in the largest group of gymnosperms still living today. Among the approx. 600 extant conifer species white spruce is one of the most widespread trees in North American boreal forests. Its range extends from 69° N in the Canadian Northwest Territories to the Great Lakes at about 44° N, where it occurs from sea level to an altitude of about 1520 m (Burns and Honkala, 1990). Site related, climate-dependent differences in white spruce reproduction can be seen as a strategy to survive under the harsh climatic conditions at Alaska's treelines: Besides sexual reproduction, the vegetative propagation occurs in the white spruce as an additional reproductive mechanism. This can be realized by "layering" when the lower branches of the tree crown touch the ground and develop roots to later grow as a separate individual with or without a connection to the mother tree. Known as other mechanisms of vegetative propagation are also the rooting of fallen trees which were not completely uprooted, and the "root suckering", in which new shoots sprout from the roots of the tree. However, the latter was not yet observed in the genus Picea. With the help of short, repetitive, non-coding sequences in the genome, which are therefore not subject to selection and are called microsatellites, these clones can be determined by genotyping.
For this purpose, using different polymorphic microsatellites, an individual multilocus genotype is created for each tree, by means of which it can be compared with all other trees of the same species.
In the first part of this work (article I), the occurrence of clones in three study areas at Alaskan treelines are examined and the reasons for their appearance in variable numbers are discussed. For this purpose, 2571 white spruces (P. glauca) were genotyped and their position was determined via differential GPS in the field. The percentage of clonal trees is higher in areas with harsh climatic conditions and correlates with the height of the lowest branches of the tree crown. This suggests that the vegetative propagation of white spruce is a backup strategy for times when climatic conditions hamper sexual reproduction. The correlation between clone numbers and tree crown height suggests "layering" as the main mechanism for cloning whereas selection for vegetative reproduction seems to be very unlikely shown by the results for genetic differentiation between the clonal and the singleton trees in this study.
In the second part of this work (articles II and III), the influence of environmental factors and phenotypic traits on the mycobiome of the needles (including all fungi living on (epiphytic) and in (endophytic) the needles) in our study areas in Alaska was investigated. The mycobiome of the white spruce needles was chosen as a proxy for the parasite infection rate by fungi and thus serves as a fitness parameter. For this purpose, all epiphytic and endophytic fungal species were analyzed by a metabarcoding analysis.
In article II, 48 trees of one study area at Alaska’s northern treeline (Brooks Range) were examined for differences in mycobiome due to genetic differentiation, phenotypic characteristics and / or habitat characteristics. The trees used for this study were sampled from two adjacent plots on a south-facing mountain slope with an elevation gradient from 875 to 950 meters above sea level. It could be shown that, in contrast to the trees genotype, the height above sea level, the mountain slope, as well as the height and age of the trees have a significant impact on the mycobiome. The genetic differentiation between the tree individuals, however, showed no significant effect.
Based on article II we examined the mycobiome composition of a total of 96 trees in 2 plots (16 trees each) at three sites in Alaska over a distance of 500 kilometers. Additionally, we sampled needles of two different ages for each tree (current year and three years old needles) summing up to 192 samples in total. The incentive of this study (article III) was to investigate the influence of origin and age of spruce needles on their mycobiome and if there is a genetic predisposition that is related to the fungal species community. In addition, the sampling design was improved by collecting needles from all four orientations (North, South, East and West) and sampling trees at a standardized distance to each other to avoid systematic errors. Comparable to article II the influence of the trees genetics on the species community of the epiphytic and endophytic fungi of the white spruce needles seems to be very unlikely. In contrast, a significant influence of the geographic origin and the needle age on the species structure of the needle inhabiting fungal species was found. The phenotypic tree traits height and dbh (diameter at breast height) had only minor influence and did in fact explain less than 2% of the mycobiome variance. Using Illumina sequencing, 10.2 million reads from the nucleotide sequence between the internal transcribed spacer (ITS) genes could be obtained, which yielded in 1575 ribotypes (called operational taxonomic unit, OTU) for the fungi. These were compared with a reference database to compare and assign them to known fungal species. For example, 942 OTUs with >95% similarity could be identified as known species, with 1975 samples identified on genus level and 2683 when determined to family level. The most pronounced difference between the two studies (article II and III) were due to the fungal species of the class of Pucciniomycetes, more specifically the genus Chrysomyxa which belongs to the rust fungi and is plant pathogenic. In the study of article II (sampling in 2012), Pucciniomycetes accounted for only a minor portion of the assigned DNA sequences. In the second study (article III, sampling in 2015) they accounted for more than half of all basidiomycetes found, which in turn contain 20.0% of all DNA sequences, the second largest phylum found beside Ascomycetes (51.4%).