Biologische Hochschulschriften (Goethe-Universität)
Refine
Year of publication
- 2012 (34) (remove)
Document Type
- Doctoral Thesis (27)
- Article (6)
- Part of Periodical (1)
Has Fulltext
- yes (34)
Is part of the Bibliography
- no (34)
Keywords
- Bovidae (1)
- Carnivora (1)
- Entomologie (1)
- Genome (1)
- Giraffe (1)
- Honigbiene (1)
- Java (1)
- Konkurrenz (1)
- Kopplungskonstanten (1)
- Lineage Through Time (1)
Many hominin species are best physically represented and understood by the sum of their dental morphologies. Generally, taxonomic affinities and evolutionary trends in development (ontogeny) and morphology (phylogeny) can be deduced from dental analyses. More specifically, the study of dental remains can yield a wealth of information on many facets of hominin evolution, life history, physiology and ecological adaptation; in short, the organisms paleobiomics. Functionally, teeth present information about dietary preferences, that is, the dietary niche in ecological context and, in turn, masticatory function. As the amount and types of information that can be gleaned from 2-dimensional tooth measurement exhaust themselves, 3-dimensional microscopic modeling and analysis presents a largely fertile ground for reexamination and reinterpretation of dental characteristics (Bromage et al., 2005). As such, a novel, non-destructive approach has been developed which combines the work of two established technologies (confocal microscopy and 3D modeling) adapted specifically for the purpose of mineralized tissue imaging. Through this method, 3D functional masticatory and therefore occlusal molar microwear is able to be visualized, quantified and comparatively analyzed to assess dietary preference in Javanese Homo erectus. This method differs from other microwear investigative techniques (defining 'pits'- vs- 'scratches', microtexture analysis etc.) in that it defines a molars masticatory microwear functional interactions in 3-dimensions as its baseline dataset for further interpretations and analyses. Due to poor specimen collection techniques employed during the first half of the 20th century, the very complex geologic nature of the Sangiran Dome and disagreements over its chronostratigraphy, only very few scientific works have addressed the Sangiran 7 (S7) Homo erectus molar collection (n=25) (e.g. Grine and Franzen, 1994; Kaifu, 2006). Grine and Franzen's (1994) work was a predominantly qualitative initial assessment of the specimens and identified five specimens that might better be ascribed to a fossil pongid rather than H. erectus. They also noted several molars to which tooth position (M1 or M2) was unable to be ascribed (Grine and Franzen, 1994). Kaifu (2006) comparatively examined crown sizes in several S7 molars.
The Sangiran 7 collection originates from two distinct geologic horizons: ten from the older Sangiran Formation (S7a, ~1.7 to 1.0mya) and fifteen from the younger, overlying Bapang Formation (S7b, ~1.0 to .7mya). During this million year period, Java was connected to the mainland during various glacio-eustatic low-stands in sea level. These mainland connections varied in size, extent, climatic condition and therefore in faunal and floral composition. As the S7 sample may be representative of the earliest Homo erectus migrants into Java and spans long durations of occupation, its investigation yields potential to understand the various influences climatic and ecogeographic fluctuations had on these populations. Since the sample consists only of teeth, an ecodietary approach has been deemed the most logical and appropriate investigative approach. Questions regarding the intra- and inter- S7 sample
relationships will also be addressed.
By comparing various aspects of the H. erectus dentition against that of hunter/ gatherer's (H/G) whose diet is known, functional dietary similarity can be directly correlated. Thus a comparative molar sample consisting of the below historic hunter/ gather's (n=63) has been included in order to assess H. erectus's diet in ecological context: Inuit (n=9), Pacific Northwest Tribes (n=11), Fuegians (n=11), Australian Aborigines (n=12) and Bushman (n=20). Methodologically, this approach produces a 3D facet microwear vector (fmv) signature for each molar which can then be compared for statistical similarity.
Microwear (and, as such, the fmv signatures) was defined by the regular, parallel striations found on specific cusp facets known to arise from patterned, directional masticatory movements. This differs significantly from post-mortem or taphonomic microwear which produces striations at irregular angles on multiple, non-masticatory surfaces (Peuch et al.1985, Teaford, 1988). A 'match value' is produced to determine the similarity of two molars fmv's. The 'match values' are ranked (high to low) and these rankings are used to statistically analyze and infer dietary preference: between Sangiran 7 (as an entire sample) compared against that of the historic hunter/ gatherer H. sapiens whose diet and ecogeography is known; within S7a and S7b and then among the S7 sample (eg. S7a-vs-S7b); whether the purported Pongo molars actually affiliate well with H. erectus, the hunter-gatherer's or if they demonstrate distinctly different fmv signatures altogether; whether fmv signatures are useful in distinguishing molars whose tooth position is in doubt (eg. M1 or M2).
When compared against individual H/G molars, the results show that Sangiran 7 H. erectus most closely correlates with Bushmen across all areas of fmv signature analysis. However, within broader dietary categories (yearly reliant on proteinaceous foods; seasonally reliant on proteinaceous foods; not reliant on proteinaceous foods), it was found that H. erectus most closely allied with the two hunter/ gatherer subpopulations associated with the 'Seasonally reliant on proteinaceous foods' (Australian Aboriginals and Pacific Northwest Tribes). There was also evidence for dietary change or specialization over time. As the environment changed during occupation by the earlier Sangiran to the later Bapang individuals, the dietary preference shifted from a focus on vegetative foods to a diet much more inclusive of proteinaceous resources.
These results are considered logical within the larger ecogeographic and chronostratigraphic context of the Sangiran Dome during the Pleistocene. However, a larger sample would be needed to confirm this. Although general dietary preferences can be drawn from this method, it is not possible at present to define specific foods consumed on a daily basis (eg. tubers or tortoise meat).
Out of the five specimens possibly allied with Pongo, S7-14 matched at the 'high' designation with a hunter/ gatherer, S7-62 matched 'moderately', S7-20 matched 'low' while the remaining two were not able to be matched with any other teeth for various reasons. Although designation to Pongo cannot be ruled on at this time using this method, it does demonstrate that at least two of the teeth correlate well with various hunter/ gatherer's who do not share dietary similarity with Pongo. This suggests their designation as Pongo should be more closely reevaluated. As for the four specimens whose tooth position was unsure, S7-14 matched 'highly' with 1st molars, S7-62 and S7-78 matched 'moderately' with 2nd and 1st molars respectively while S7-20 only matched at the 'low' designation. Although this approach is still exploratory, it adds another analytical tool for use in defining tooth position.
In sum, this method has demonstrated its usefulness in defining and functionally analyzing a novel 3D molar microwear dataset to interpret dietary preference. Future work would include a pan- H. erectus molar sample in order to illuminate broader populational, taxonomic and dietary correlations within and amoung all H. erectus specimens. A larger, more heterogenous historic H/G sample would also be included in order to provide a wider dietary comparative population. This method can be further extended to include and compare any and all hominins as well as any organism which produces micro wear upon it molars. Also, the data obtained and resultant fmv signature diagrams have the potential to be incorporated into 3D VR reconstructions of mandibular movement thus recreating mastication in extinct organisms and leading to more robust anatomical and physiological investigations especially when viewed in the context of larger environmental conditions or changes.
Das geographische Verbreitungsgebiet von Arten ist ein fundamentales Struktur gebendes Merkmal der biologischen Welt. Warum Arten so verteilt sind, wie sie sind ist seit langem eine der zentralen Fragen in Ökologie, Biogeographie und Evolution. Gegenwärtig verändern sich, im Wesentlichen als unbeabsichtigtes Nebenprodukt menschlicher ökonomischen Aktivitäten und Populationsdynamik, die geographischen Verbreitungsgebiete von Arten mit entscheidender Bedeutung für Land- und Forstwirtschaft, als Krankheitsvektoren oder als Teil der biologischen Systeme, die Ökosystemfunktionen bereitstellen. Daher ist es dringend notwendig, dass wir unser Verständnis über die Dynamiken, aus denen die geographische Verbreitung von Arten erwachsen, verbessern. Mit dieser Doktorarbeit versuche ich, in drei Untersuchungen zur Dynamik der Verbreitungsgebiete von Singvögeln einen Beitrag zu unserem in Entwicklung begriffenen Verständnis der multiplen Faktoren die Artverbreitungsgebiete beeinflussen, zu leisten.
1) Zu einem mechanistischeren Verständnis von Artmerkmalen und Verbreitungsgebietsgrößen: Ein wichtiger, ungelöster Fragenkomplex in der Makroökologie ist, die immense interspezifische Variation in der Größe geographischer Verbreitungsgebiete zu verstehen. Während man davon ausgeht, dass Artmerkmale wie Fekundität und Körpergröße einen Effekt auf Verbreitungsgebietsgrößen haben, fehlt ein allgemeines Verständnis davon, wie Verbreitungsgebietsgrößen von mehreren Merkmalen gemeinsam beeinflusst werden. Hier beurteilen wir den Effekt von Lebensgeschichtsmerkmalen (Fekundität, Ausbreitungsfähigkeit), ökologischen Merkmalen (Habitatnische, Nahrungsnische, Zugverhalten, Flexibilität im Zugverhalten) und morphologischen Merkmalen (Körpergröße) auf die globale Verbreitungsgebietsgröße von 165 europäischen Singvögeln. Wir identifizieren Hypothesen zur Beziehung von Artmerkmalen und Verbreitungsgebietsgrößen aus der Literatur und verwenden die Methodik der Pfadanalyse, um sie zu testen. Die Größe der globalen geographischen Verbreitungsgebiete europäischer Singvögel wurde von Lebensgeschichtsmerkmalen (Fekundidtät und Ausbreitungsfähigkeit), ökologischen Merkmalen (Habitatnischenbreite, Nahrungsnischenposition und Zugverhalten) und von Körpergröße beeinflusst. Artmerkmale beeinflussten Verbreitungsgebietsgrößen auf direktem und indirektem Weg. Insbesondere der Einfluss von Körpergröße war komplex mit positiven und negativen Effekten über verschiedene Pfade. Die Größe von Verbreitungsgebieten ist sehr wahrscheinlich auch von anderen Faktoren als von Artmerkmalen abhängig. Wir zeigen, dass es notwendig ist, den direkten und indirekten Einfluss einer Vielzahl von Merkmalen zu entwirren, um die Mechanismen, die makroökologische Beziehungen generieren, aufzuklären.
2) Konkurrenz und Ausbreitungsfähigkeit interagieren bei der Bestimmung der geographischen Verbreitung von Vögeln: Es ist weiterhin eine Herausforderung für Ökologie und Evolutionsbiologie, die Faktoren zu verstehen , die die geographische Verbreitung von Arten beeinflussen. Wir untersuchen wie Konkurrenz, Ausbreitungsfähigkeit, das Alter eines Taxons und Habitatverschiebungen seit dem letzten glazialen Maximum das Ausmaß beeinflussen, in dem Arten der Vogelgattung Sylvia in allen Gegenden mit geeigneten Umweltbedingungen vorkommen (d.h. range filling).
Wir haben range filling in der Vogelgattung Sylvia (Grasmücken) unter Verwendung von Boosted Regression Trees und Ridge-Regression quantifiziert. Mittels multipler Regression haben wir für die Effekte von intragenerischer Konkurrenz, Ausbreitungfähigkeit, Alter des Taxons und Habitatverschiebung seit dem letzten glazialen Maximum auf range filling getestet.
Grasmücken mit hoher Ausbreitungsfähigkeit zeigten höheres range filling, aber nur wenn Konkurrenz in Gebieten mit weniger geeignetem Habitat innerhalb ihres potentiellen Verbreitungsgebietes niedrig war. Das Alter eines Taxon und Habitatverschiebung seit dem letzten glazialen Maximum hatten keinen konsistenten Effekt. Wir zeigen, dass die Verbreitungsgebiete von Grasmücken mit hoher Wahrscheinlichkeit durch den simultanen, interaktiven Effekt von Konkurrenz und Ausbreitungsfähigkeit geformt werden. Wenn biotische Interaktionen wie Konkurrenz generell die Fähigkeit von Arten beeinflussen auf der kontinentalen Skala neue Gebiete zu kolonisieren, wird es eine Herausforderung sein, den Effekt von Klimawandel auf Biodiversität vorherzusagen.
3) Nischenverfügbarkeit in Zeit und Raum: Vogelzug der Grasmücken: Im Kontext neuer Fortschritte in der ökologischen Nischenmodellierung sind sowohl die Umwelt als auch die ökologische Nische einer Art als statische Entitäten behandelt und quantifiziert worden. In der Realität sind aber die Umwelt und die Nischenanforderungen einer Art auf einer Vielzahl von Skalen dynamisch. Wir schlagen ein konzeptionelles System vor das berücksichtigt, wie die realisierte Nische und geographische Verbreitung von Arten durch die entkoppelte raumzeitliche Verfügbarkeit unterschiedlicher Umweltbedingungen und durch Veränderungen der Nischenanforderungen über die Lebenszeit eines Organismus geformt werden. Das Testen von aus dem konzeptionellen System abgeleiteten Vorhersagen am Beispiel des Vogelzugs der Grasmücken ergab neue Erkenntnisse: Das Verfolgen der Klimanische im geographischen Raum war höchstwahrscheinlich nicht die treibende Kraft für Migration in der Gattung und steht potentiell im Konflikt mit dem Verfolgen der Landnutzungsnische. Die Nischen der Grasmücken waren während der Brutsaison schmaler, was zeigt, dass Nischenanforderungen zeitlich dynamisch sein können. Wir legen nahe, dass die Berücksichtigung dynamischer Umwelten und Nischenanforderungen zu einer entscheidenden Verbessserung unseres Verständnisses der treibenden Faktoren hinter der Bewegung von Organismen im Raum und der Dynamik ihrer Nischen und Verbreitungsgebiete führt.
Diatoms contribute largely to the total primary production of the ecosphere and are key players in global biogeochemical cycles. Their chloroplasts are surrounded by four membranes owing to their secondary endosymbiotic origin. Their thylakoids are arranged into three parallel bands and differentiation of thylakoid membranes into grana or stroma is not observed. The fucoxanthin chlorophyll a/c binding proteins act as the light harvesting proteins and play a role in photoprotection during excess light as well. The diatom genome encodes three different families of antenna proteins. Family I are the classical light harvesting proteins called "Lhcf". Family II are the red algae related Lhca-R1/2 proteins called "Lhcr" and family III are the photoprotective LI818 related proteins called "Lhcx".
All known Fcps have a molecular weight in the range of 17-23 kDa. They are membrane proteins and have shorter loops and termini compared to LHCs of higher plants and are therefore extremely hydrophobic. This makes the isolation of single specific Fcps using routine protein purification techniques difficult.
The purification of a specific Fcp containing complex has not been achieved so far and until this is done several questions concerning light harvesting antenna systems of diatoms cannot be answered. For e.g. Which proteins interact specifically? Are various Fcps differently pigmented? Which pigments interact with each other and how? Which proteins contribute to photosystem specific antenna systems? Can pure Fcps be reconstituted into crystals like LHCII proteins? In order to answer these questions specific Fcp containing complexes have to be purified. ...
Termite mounds represent abundant microhabitats of high biodiversity in tropical savanna ecosystems and are an important source of landscape heterogeneity in Sub–Saharan West Africa. Floristic composition as well as density, structure and zonation of plant cover on the mounds were investigated in northern Benin and compared to the adjacent savanna vegetation. A total of 57 abandoned and densely vegetated termite mounds of comparable size and similarly affected by erosion located in different types of savannas inside and outside of the W National Park and in cotton fields were studied. This study revealed that termitaria are special habitats differing in density, composition and structure from surrounding savannas. The plant cover of termite mounds showed a distinctive zonation. Succulents, geophytes, and lianas were much more abundant on mounds, the family Capparaceae was found exclusively on mounds. The floristic composition and vegetation on termitaria proved to be rather homogeneous; although those mounds located in cotton fields differed by higher abundance of Poaceae and lower species richness.
Climate and subsequent environmental changes are regarded as one driver of species evolution. Against this background the present study investigates the evolutionary history of the mammalian family Bovidae (Cetartiodactyla, Mammalia), today the most species-rich family of large herbivores on the African continent. Temporal and spatial patterns in that group’s evolution are the focus of the present study and were investigated using methods and data deriving from multiple disciplines (palaeontology, genetics, climatology, conservation biology). The results serve as a validation of macroevolutionary hypotheses of species evolution.
A major proportion of African mammalian fossils can be assigned to that family. Due to their morphological adaptations, bovid species are highly indicative of their habitats. Hence, bovids are of great importance for paleontology. However, a strong taphonomic bias is present in the fossil record of bovids, favoring large and arid- adapted species. Molecular phylogenies of extant species and species distribution modelling combined with climate reconstructions can help to overcome these limitations.
A molecular phylogeny, based on the cytochrome b gene of 136 bovid species served as basis for analysis of temporal patterns. Divergence events were dated using the relaxed molecular clock approach. The tree was time calibrated at 30 nodes using information inferred from the fossil record. Lineage-Through-Time plots and the respective statistical analyses reveal detailed temporal patterns in the evolutionary history of tribes and groups combining arid- and humid-adapted tribes. The resulting pattern shows three distinct phases. Phase 1 (P1) is dominated by speciation events within the humid group, while the second phase (P2) is marked by a dominance of speciation within the arid group. The switch in diversification rates (BDS) from P1 to P2 is dated to 2.8 million years ago. The third phase (P3) shows low diversification rates for all groups, starting around 1.4 million year ago and culminates in a significantly reduced diversification rate for the complete family at 0.8 million years ago. Both transitions are contemporaneous with global climate changes and turnover events in fossil faunal communities.
To investigate the impact of climate changes onto the habitat availability within the last 3 million years and its putative influence on diversification rates, the species distribution modeling method was applied. For 85 African species and subspecies the climate niches were established and grouped into 5 climate-groups based on their climate preferences. For each group the available habitat for the period before and after the BDS was calculated on continental scale using reconstructed climate scenarios. To evaluate the modeled habitat distributions, regional analyses were performed in test areas surrounding well studied fossil sites (Laetoli, Olduvai, Chiwondo Beds, Lothagam, Koobi Fora, West Turkana, Swartkrans, Sterkfontain und Toros-Menalla). Habitat profiles (HP) permitted the comparison of the model based habitat reconstruction with the interpretations of classic paleontological reconstruction. The validity of the habitat modeling has been shown in particular for East African test areas. The reconstructions for the northern and southern fossil sites does not support the modeled habitats in these areas. Yet, the method of habitat- profiling may serve as suitable tool for environmental reconstruction of areas lacking sufficient paleontological material. A comparison of habitat availability before and after the BDS on continental scale identified a significant loss of habitat for humid adapted groups (7-22%) and habitat gain for arid adapted groups (19-173%). The climatically intermediate group experiences a tremendous gain of habitat (3366%). The greatest environmental change was modeled for East Africa, initiated by a progressive regional aridification.
In addition to the distribution modeling for past climate conditions, the geographical distribution was modeled for the future, i.e. for climate scenarios representing the years 2050 and 2080 under a putative climate change scenario (global surface warming). It was shown that in particular the arid groups have to expect a remarkable loss of habitat (41-76%), while a gain of available habitat can be expected for the humid adapted groups (114-577%). The climatically intermediate group suffers the strongest habitat loss (85%). Regions with locally stable climate conditions were detected and may serve as potential refugia and are already today known as Africa’s hot spots of biodiversity.
The results show a positive correlation of high diversification rates and increasing habitat availability. None of the tested speciation hypotheses taken alone explains the observations (e.g., Turnover-pulse Hypothesis, Relay Model). A major element in these hypotheses is the passive fragmentation of populations induced by unfavorable climate changes. In contrast, the Periodic Model (Grubb 1999) considers natural, periodically recurring climate changes and moreover, the active dispersal of individuals and resulting founder events. I added the effect of a superimposed directed climate trend – like the progressive aridification since the late Pliocene in Africa – which leads to a bias in the proportion and probability towards leading edge effects. This Directed Periodic Model explains the patterns found in the evolution of Bovidae.
The combination of a molecular phylogeny and species distribution modeling, together with information inferred from the fossil record, reveals remarkable temporal and spatial patterns in the evolution of bovids, and helps overcome the limitations of the fossil record. The present study highlights the importance of active dispersal and founder populations in speciation processes. A point widely unattended in speciation hypotheses. The fully dated molecular phylogeny is the most densely sampled tree for the family Bovidae to date and may serve as a framework for a connection of present and future population studies, permitting the connection of medium-scale with long- term effects induced by climate and environmental changes.
The four subunit (SU) aa3 cytochrome c oxidase (CcO) from Paracoccus denitrificans is one of the terminal enzymes of the respiratory chain. It uses electrons from cytochrome c to reduce molecular oxygen to water. Its binuclear active center, residing in SU I, contains hemeÊa3 and CuB, the latter being liganded by three histidine residues. Apart from its oxygen reductase activity, the protein possesses a peroxidase and a catalase activity.
To compare variants and the wild type (WT) protein in a more stringent way, a recombinant (rec.) WT CcO was constructed, carrying the gene for SUÊI on a low copy number plasmid. This rec. WT showed, as expected, no difference in oxygen reductase activity compared to the American Type Culture Collection (ATCC) WT CcO but surprisingly its catalase activity was increased by a factor of 20. The potential overproduction of SUÊI due to plasmid coding and the resulting deficiency in metal inserting chaperones might impair the correct insertion of hemeÊa3 and CuB because of a deficiency in metal inserting chaperones. This in turn might lead to differences in side chain orientation and to changes in the water network. However, slight changes might cause an increased accessibility of the active center for hydrogen peroxide, resulting in an increased catalase activity. The availability of chaperones and therefore the proposed structural reasons for the difference was improved by cloning the genes for the two metal inserting chaperones CtaG and Surf1c on the same plasmid together with SUÊI. This new rec. WT CcO showed in fact a reduced catalase activity. Another WT with a deletion in the chromosomal second, non expressing gene of SU I was analysed to prove plasmid coding as the reason for the difference of the ATCC WT and the rec. WT. This strain showed an increased kcat of the catalase activity as well, additionally pointing to a regulatory effect of the non expressed gene for SU I in the chromosome. To fathom the structural difference of the increased catalase activity, differential scanning calorimetry was used, but no significant difference in thermal stability between the ATCC WT CcO and the rec. WT CcO was detected. However, upon aging, the thermal stability of the rec. WT CcO declined faster than that of the ATCC WT CcO pointing to a decreased structural stability of the rec. WT CcO.
To characterize the catalase reaction, several known inhibitors were used to probe the contribution of the different metal cofactors in the catalase reaction. In addition variants in aromatic amino acids near the active center were constructed to conclude on a possible reaction mechanism of the catalase activity of CcO. These variants in combination with the wild type forms were analysed for radical signals by EPR-spectroscopy. A radical relevant for the catalase reaction of CcO was found in the F-intermediate of all variants and all wild type forms. This narrow 12 G radical signal was assigned to a porphyrine radical probably involved in the catalase reaction of CcO. Moreover, gas chromatography-mass spectrometry measurements were used to analyse isotopically labelled oxygen produced in the catalase reaction.
As a result of these experiments, a reaction cycle of the catalase activity of CcO is postulated and the structural difference between the ATCC and rec. WT CcO is outlined. The catalase activity appears to be a true catalase activity and not a "pseudocatalase" activity.
In the primary visual cortex of primates and carnivores, functional architecture can be characterized by maps of various stimulus features such as orientation preference (OP), ocular dominance (OD), and spatial frequency. It is a long-standing question in theoretical neuroscience whether the observed maps should be interpreted as optima of a specific energy functional that summarizes the design principles of cortical functional architecture. A rigorous evaluation of this optimization hypothesis is particularly demanded by recent evidence that the functional architecture of orientation columns precisely follows species invariant quantitative laws. Because it would be desirable to infer the form of such an optimization principle from the biological data, the optimization approach to explain cortical functional architecture raises the following questions: i) What are the genuine ground states of candidate energy functionals and how can they be calculated with precision and rigor? ii) How do differences in candidate optimization principles impact on the predicted map structure and conversely what can be learned about a hypothetical underlying optimization principle from observations on map structure? iii) Is there a way to analyze the coordinated organization of cortical maps predicted by optimization principles in general? To answer these questions we developed a general dynamical systems approach to the combined optimization of visual cortical maps of OP and another scalar feature such as OD or spatial frequency preference. From basic symmetry assumptions we obtain a comprehensive phenomenological classification of possible inter-map coupling energies and examine representative examples. We show that each individual coupling energy leads to a different class of OP solutions with different correlations among the maps such that inferences about the optimization principle from map layout appear viable. We systematically assess whether quantitative laws resembling experimental observations can result from the coordinated optimization of orientation columns with other feature maps.
In the first part of this work, the development of a novel two-dimensional native gel electrophoretic system (2-D BN/hrCNE) is described. This new system simplifies proteomics and biochemical analysis of mega protein complexes that are dissociated into the constituent complexes during 2-D electrophoresis, thereby reducing the complexity of the system considerably. This technique is exceptionally well suited for the in-gel detection of fluorescence-labeled proteins and the identification of individual enzymes and protein complexes by specific in-gel assays on native gels.
In the second part, a new technique for the native immunoblotting of blue native gels (NIBN) was developed. This new technique allows for the identification of conformation-specific antibodies and the discrimination of antibodies recognizing linear epitopes of denatured proteins. Identification of conformation-specific antibodies is becoming increasingly important not only for the electron microscopic identification of native proteins but also for structural investigations in general. For this purpose, a commonly used protocol for Western blotting of blue native gels was modified in such a way that the native state of proteins and protein complexes was retained throughout the complete protocol. Instead of using the denaturing methanol in Western blotting protocols, mild detergents such as Tween 20, digitonin and Brij 35 were used for the obligatory removal of protein bound Coomassie-dye.
The detection of respiratory complex I by activity staining on the blot membrane demonstrated that all three non-ionic detergents preserved the native state of complex I. The native state of the enzyme on the blot membrane was also monitored and confirmed with the help of a set of conformation-specific antibodies. NIBN can be used as a simple alternative method to the demanding native ELISA to screen for conformation-specific antibodies for structural studies. Unlike the time consuming native ELISA, NIBN does not require introduction of appropriate affinity tags and purification of the target protein by chromatography. Thus, the NIBN technique is especially useful for microscale projects and for proteins not easily accessible to genetic manipulation.
The third part aimed at identification of the immediate protein interaction partners of Cox26, a hydrophobic protein that has been identified by our group as a novel component of yeast respiratory supercomplex. Multi-dimensional electrophoretic techniques were applied to identify non-covalent and covalent protein-protein interactions of Cox26. Three-dimensional electrophoresis (BNE/BNE/SDS-PAGE) gave both qualitative and quantitative information on covalent and non-covalent interactions of Cox26 and subunits of cytochrome c oxidase (complex IV), and showed that most of the Cox26 protein was non-covalently bound to the complex IV moiety of the respirasomes. Four-dimensional electrophoresis (BNE/BNE/SDS/SDS-PAGE) applying reducing and non-reducing conditions revealed that a minor fraction of Cox26 used a single cysteine residue in the center of a predicted transmembrane helix to form a disulfide bond with the Cox2 subunit of complex IV. A structural role of Cox26 protein in the assembly/stability of respiratory strings or patches has been suggested.
The last part of this work focused on the isolation and characterization of native and morphologically intact nucleoids from bovine heart mitochondria, since only a few studies on nucleoid organization and composition have been carried out on mammalian tissues. The nucleoids appeared as distinct bands (apparent mass around 30-36 MDa) in blue native-PAGE on large pore gels. The moderate variation in particle size seems to reflect variations in the binding of loosely nucleoid-associated components like respiratory chain complexes. The estimated 30-36 MDa mass of nucleoids on native gels suggested that each nucleoid contains one mtDNA molecule provided that nucleoids contains equal amounts of DNA, protein and RNA (Miyakawa et al., 1987).
Electron microscopic analysis of native nucleoids, which was performed by Dr. Karen Davies from the Max-Planck-Institute of Biophysics, Department of Structural Biology, Frankfurt, showed homogenous pool of particles with dimensions in 85x100 nm (in negative stain) and 100x150 nm (in cryo-tomography). Some of the nucleoids showed dumbbell-shape indicating dimerization of nucleoids. Recent EM and high-resolution light microscopy analysis of mammalian nucleoids have reported that nucleoids have a size of 70 nm in average. We also observed the same size of 70 nm in cryo-tomogramms when we applied harsher treatment of the native nucleoid particles with dimensions 100x150 nm. This observation is in agreement with published nucleoid sizes from both EM and high-resolution light microscopy, if we assume that native nucleoids have been dissociated under harsher treatment.
The protein composition of bovine heart mt-nucleoids was analyzed by a number of complementary approaches to identify low and highly abundant, easily dissociating and tightly bound proteins, and to rank the 90 most abundant mt-nucleoid proteins. Native and denaturing gel electrophoresis techniques were coupled to LC-MS/MS to achieve a comprehensive protein component analysis. Qualitative MS analysis of highly purified nucleoids identified more than 400 proteins, including well known nucleoid proteins such as mitochondrial transcription factor and mtDNA-binding protein (TFAM), mitochondrial single-stranded DNA-binding protein (mtSSB), mitochondrial DNA polymerase subunit gamma-2 (POLG2) and mitochondrial helicase C26H10ORF2 protein (Twinkle). These proteins were ranked according to Mascot scores, and sorted according to presumed functional properties. A large group of proteins involved in protein synthesis comprised an almost complete set of subunits of mitochondrial ribosomes suggesting that the nucleoids contained significant amounts of mitochondrial ribosomes. Identification of sixty six proteins from the oxidative phosphorylation (OXPHOS) system comprising around 100 proteins in total suggested that OXPHOS proteins are also associated with mt-nucleoids.
Interestingly, TFAM, described as a main mtDNA packaging factor in human and other mammalian cells, was not confirmed here as a major nucleoid component from bovine heart mitochondria. Fluorescence staining of protein spots on 2-D IEF/SDS gels clearly identified TFAM, but according to the stain intensity, this protein did not rank in the list of the 90 most abundant nucleoid proteins. Western blot analysis of sucrose gradient fractions revealed an enrichment of putative TFAM isoform in nucleoid fractions. Unexpectedly, the uncharacterized mitochondrial protein Es1 was identified as the most abundant nucleoid protein in bovine heart nucleoids instead. This implicates that nucleoid organization may differ between species and tissues. A functional characterization of Es1 is required to clarify its role in mammalian nucleoids.
Die Bromeliaceae umfassen mehr als 3.100 fast ausschließlich neotropische Arten. Bekannt für ihre außergewöhnliche ökologische Vielseitigkeit haben sich Bromelien erfolgreich in terrestrischen und epiphytischen Lebensräumen ausgebreitet.
Eine umfassende Untersuchung des Gefährdungsgrades aller Bromelienarten Panamas und Costa Ricas stand bisher noch aus und ist insbesondere aufgrund des großen Reichtums an Lebensräumen, der beide Länder auszeichnet, und den vielfältigen Veränderungen geboten.
Im Rahmen der vorliegenden Arbeit wurden während der insgesamt etwa achtmonatigen Feldarbeit 54 Exkursionen in Westpanama durchgeführt und Belege von 61% (126 Arten) der für Panama bekannten Arten gesammelt.
Auf der Basis der Feldarbeit und der in verschiedenen Herbarien durchgeführten Studien (Überprüfung und Digitalisierung von > 8.000 Aufsammlungen) wurden Diversität, Endemismus, Areale und räumliche Muster der Artenvielfalt der Bromeliaceae in Panama und Costa Rica erfasst, dokumentiert und analysiert.
Nur drei der derzeit bekannten acht Unterfamilien der Bromeliaceae finden sich in Panama und vier in Costa Rica. Zwanzig Arten werden hier erstmals für Panama gemeldet. Sechs bisher für Panama gemeldete Bromelienarten wurden als irrtümlich gemeldet identifiziert. Die Flora der Bromeliaceae umfasst nun 16 Gattungen und 206 Arten in Panama sowie 18 Gattungen und 199 Arten in Costa Rica.
33 Arten sind endemisch in Panama, 32 Arten in Costa Rica und 36 Arten sind auf das Gebiet beider Länder beschränkt. Die Gattung Werauhia hat ihr Diversitätszentrum in Panama (47 von insgesamt 87 Arten) und Costa Rica (59/87 Arten) und ist gleichzeitig die artenreichste Gattung in beiden Ländern.
In Panama treten 113 Arten (54,9 %) zwischen 1.000 und 2.000 Höhenmetern auf. Die Art mit der niedrigsten Höhengrenze ist Pitcairnia halophila, die am höchsten angetroffene Art ist Werauhia ororiensis.
Für jede der für Panama und Costa Rica (259 Arten) gemeldeten Bromelienarten wurde eine Verbreitungskarte erstellt; für die in beiden Ländern auftretenden 191 Arten wurde darüber hinaus die potenzielle Verbreitung modelliert.
In Panama ist der prämontane Regenwald mit 138 Arten (einschließlich 25 der insgesamt 33 endemischen Arten) die Holdridge-Vegetationszone mit der höchsten Anzahl an Bromelien. In Costa Rica hat der untere Bergregenwald einen besonders hohen Anteil endemischer Bromelien (13 von insgesamt 32 Arten).
In Panama und Costa Rica beherbergen mittlere Höhenlagen den größten Artenreichtum der Bromeliaceae mit Maximalwerten von etwa 125 Arten im Osten Costa Ricas und in Westpanama. Einige Regionen Panamas verfügen nicht über ausgewiesene Schutzgebiete, weisen jedoch einen hohen Artenreichtum an Bromelien auf (z.B. Teile Westpanamas, El Valle de Anton und benachbarte Gebiete sowie die Serranía de Cañazas).
In der hier vorgestellten Klassifizierung des Gefährdungsgrades gemäß den Richtlinien der IUCN werden für Panama 32 Arten als vom Aussterben bedroht (CR), 36 Arten als Stark Gefährdet (EN) und 36 Arten als Gefährdet (VU) eingestuft. In Costa Rica wird Aechmea aquilega als Ausgestorben (EX) eingeschätzt. Vier Arten werden als vom Aussterben bedroht (CR), 30 Arten als Stark Gefährdet (EN) und 39 Arten als Gefährdet (VU) klassifiziert.
In Panama wurden 184 Arten (89% der insgesamt 206 Arten) in Schutzgebieten nachgewiesen. 122 Arten (59%) wurden sowohl innerhalb als auch außerhalb und 19 Arten (9%) nur außerhalb von Schutzgebieten nachgewiesen. In Costa Rica kommen 182 Bromelienarten (91% der insgesamt 199 Arten) in Schutzgebieten vor, 168 Arten (84%) wurden sowohl innerhalb als auch außerhalb und 14 Arten (7%) nur außerhalb von Schutzgebieten nachgewiesen.
Die Schätzungen zeigen, dass die zu erwartende Gesamtzahl der Bromelienarten in Panama zwischen 224 und 250 Arten liegt, und die zu erwartende Gesamtzahl der Bromelienarten in Costa Rica liegt zwischen 207 und 221 Arten. Den Ergebnissen der Modellierung zufolge wird für eine Anzahl bisher nur für Costa Rica gemeldeter Arten das Auftreten in Panama mit erheblicher Wahrscheinlichkeit prognostiziert (z.B. Guzmania blassi, Werauhia ampla), wie auch umgekehrt das Vorkommen bisher nur für Panama bekannter Arten in Costa Rica (z.B. Aechmea strobilina, Pitcairnia kressii).
Der Erhalt der bestehenden Schutzgebiete sollte ein vorangiges Ziel sein. Darüber hinaus ist es wünschenswert, einige dieser Gebiete auszudehnen und neue Schutzgebiete auszuweisen, um biologisch hochdiverse Gebiete mit einem hohen Anteil endemischer Arten zu schützen.