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Herbicides have become a key component in modern agricultural production. Meanwhile, there is a concern that some herbicides persist past the growing season of the treated crop, and negatively influence the production of the subsequently planted crops. Amongst various herbicides used in western Canada, acetohydroxyacid synthase (AHAS)-inhibiting herbicides warrant special attention given their residual properties and acute plant toxicity at low concentrations in soil. Soil residual AHAS inhibitors have the potential to influence both leguminous host plants and their bacterial symbiotic partners; consequently, the use of an AHAS inhibitor in a given year can negatively influence the inoculation success and grain yield of legumes cropped in the following year. <p>The present thesis project focused on one of the AHAS inhibiting herbicides (flucarbazone) and studied its potential for carryover injury and negative influence on the success of inoculation in field pea. A series of growth chamber and field experiments were conducted to test the following null hypothesis: the presence of residual flucarbazone in soil does not affect nodulation of field pea by inoculum rhizobia. <p>A growth chamber experiment clearly demonstrated the susceptibility of field pea to the presence of flucarbazone in soil where the lowest concentration of flucarbazone amendment (5 ìg kg1) significantly reduced the crop growth. In contrast, a field study failed to reveal any negative effects of flucarbazone use on crop growth and N2 fixation. <p>It was concluded that if the weather and soil conditions favour decomposition of flucarbazone as described in the present study, flucarbazone applied at the recommended field rate will not persist into the following season at high enough concentrations to negatively influence field pea growth, grain yields, and inoculation success. To ensure safety of rotational crops, it is important to strictly adhere to the herbicide application guidelines. Additionally, producers are cautioned to be particularly aware of the environmental and soil conditions that may reduce the rate of herbicide degradation.

Herbicides have become a key component in modern agricultural production. Meanwhile, there is a concern that some herbicides persist past the growing season of the treated crop, and negatively influence the production of the subsequently planted crops. Amongst various herbicides used in western Canada, acetohydroxyacid synthase (AHAS)-inhibiting herbicides warrant special attention given their residual properties and acute plant toxicity at low concentrations in soil. Soil residual AHAS inhibitors have the potential to influence both leguminous host plants and their bacterial symbiotic partners; consequently, the use of an AHAS inhibitor in a given year can negatively influence the inoculation success and grain yield of legumes cropped in the following year. <p>The present thesis project focused on one of the AHAS inhibiting herbicides (flucarbazone) and studied its potential for carryover injury and negative influence on the success of inoculation in field pea. A series of growth chamber and field experiments were conducted to test the following null hypothesis: the presence of residual flucarbazone in soil does not affect nodulation of field pea by inoculum rhizobia. <p>A growth chamber experiment clearly demonstrated the susceptibility of field pea to the presence of flucarbazone in soil where the lowest concentration of flucarbazone amendment (5 ìg kg1) significantly reduced the crop growth. In contrast, a field study failed to reveal any negative effects of flucarbazone use on crop growth and N2 fixation. <p>It was concluded that if the weather and soil conditions favour decomposition of flucarbazone as described in the present study, flucarbazone applied at the recommended field rate will not persist into the following season at high enough concentrations to negatively influence field pea growth, grain yields, and inoculation success. To ensure safety of rotational crops, it is important to strictly adhere to the herbicide application guidelines. Additionally, producers are cautioned to be particularly aware of the environmental and soil conditions that may reduce the rate of herbicide degradation.

L’intensification des pratiques d’élevage s’est accompagnée de l’émergence de pathologies de production, notamment des mammites. Il s’agit d’une inflammation de la glande mammaire, d’origine bactérienne dans la majeure partie des cas. Les mammites constituent à elles seules la première source de pertes financières des cheptels bovins laitiers en France et dans le monde. Néanmoins aucun traitement prophylactique ne permet à ce jour une action préventive à long terme. Parmi les agents étiologiques majeurs des mammites, Escherichia coli (E. coli) tient son importance du fait de sa prévalence et de son impact sur les rendements et la qualité du lait. La part des facteurs de l’hôte dans la capacité à éliminer le pathogène causal est relativement avérée, tandis que le lien entre caractéristiques bactériennes et sévérité de l’infection est plus délicat à établir. Cette étude s’attache donc à déterminer si les interactions entre E. coli et la glande mammaire, en particulier les cellules épithéliales mammaires (CEM) et les neutrophiles, peuvent expliquer des degrés de sévérité variables. L’influence du lait sur ces interactions a également été investiguée. / Along with agricultural intensification of animal production, some pathologies have emerge, especially mastitis. This disease corresponds to an inflammation of the udder, and is generally provoked by bacterial infection. Mastitis on their own constitute the main source of financial impairments within dairy herds in France and worldwide. So far, there is no treatment able to prevent mastitis over time. Among major mastitis pathogens Escherichia coli (E. coli) is of great importance, because of its prevalence and its impacts on milk yield and quality. The mastitis severity has proven to be linked to host factors, but the implication of bacterial characteristics remains unknown. Thus, this study aimed at deciphering whether interactions between E. coli and the mammary gland, especially the mammary epithelial cells (MECs) and neutrophils, may explain a variability in mastitis severity. Influence of milk on these interactions was also investigated.

Abstract Streams and rivers have been extensively altered by humans. Channelization and land use have changed stream habitats and water quality with adverse effects on biota and ecosystem functions. Impacted streams have been targets for restoration, but there is considerable lack of understanding how streams should be restored in an ecologically effective way. In this doctoral thesis, I studied the impacts of channelization (for timber floating) and agricultural diffuse pollution on stream biota. I also studied the effectiveness of restorations of forestry impacted streams stressed by excessive sand sedimentation from catchment drainage. Finally, I also studied the effects of mosses, fine sediment and enhanced dispersal on stream macroinvertebrate communities and ecosystem functions. I found that channelization did not have effect on diatom, macrophyte, macroinvertebrate and fish assemblages, whereas diffuse pollution had strong effects, with no interactions between the two stressors. I showed that excessive sedimentation from forest drainage was harmful for stream biota but had no effect on leaf decomposition and algal accrual rate. Restoration with boulders reduced sand cover and was more beneficial for in-stream biodiversity, whereas restoration with wood tended to increase hydrological retention of stream channels, thereby altering riparian plant assemblages toward more natural composition. In a mesocosm experiment, I found mosses to have a strong impact on macroinvertebrate communities and ecosystem functions. Mosses increased organic matter retention and reduced algal accrual rate and leaf decomposition. The effect of mosses on macroinvertebrates was stronger than that of sand sedimentation, and mosses mitigated some of the negative effects of sand. Extensive dispersal had a distinct imprint on invertebrate community composition but did not blur the effect of mosses and sand on communities, suggesting strong local-scale environmental control of composition. My thesis emphasizes that priority in stream restoration should be in the mitigation of diffuse pollution rather than restoration of channel morphology, especially in streams where channel alteration has been fairly modest, as in the case of timber floating. Addition of both boulders and large wood likely yields the best biodiversity response in the restoration of forestry impacted streams. Mosses are a key component of boreal lotic ecosystems; therefore, the recovery of mosses may be a prerequisite for the full recovery of biodiversity and ecosystem integrity of boreal streams. / Tiivistelmä Ihmisen toiminta on laajasti muokannut virtavesiä. Uomien kanavointi ja maankäyttö ovat muuttaneet virtavesien elinympäristöjä ja veden laatua, millä on ollut haitallisia vaikutuksia virtavesien luonnon monimuotoisuuteen ja ekosysteemin toimintaan. Huonokuntoisia virtavesiä on kunnostettu paljon, mutta ymmärrys siitä, kuinka virtavesiä tulisi kunnostaa parhaan ekologisen lopputuloksen saavuttamiseksi, on edelleen vajaata. Tutkin tässä väitöskirjassa uittoperkausten ja maatalouden hajakuormituksen merkitystä ja yhteisvaikutusta virtavesien eliöyhteisöihin. Tutkin myös kunnostusten vaikutusta hiekasta kärsivissä metsätalouden muokkaamissa puroissa, sekä vesisammalten, hiekan ja eliöiden levittäytymisen merkitystä purojen pohjaeläinyhteisöjen ja ekosysteemin toimintojen muovautumisessa. Havaitsin, että uoman perkauksilla ei ollut vaikutusta virtavesien eliöyhteisöihin, mutta hajakuormituksen vaikutus oli voimakas. Perkauksella ja hajakuormituksella ei ollut yhteisvaikutuksia eliöyhteisöihin. Osoitin, että metsäojituksista aiheutuva ylimääräinen hiekan sedimentaatio on haitallista virtavesien eliöille, mutta sillä ei ollut vaikutusta lehtikarikkeen hajotukseen tai päällyslevien tuotantoon. Kunnostukset joissa käytettiin kiveä vähensivät hiekan peittävyyttä ja olivat hyödyllisempiä uoman eliöstölle kuin kunnostukset, joissa tehtiin puurakennelmia. Puukunnostukset kuitenkin lisäsivät uoman vedenpidätyskykyä ja siten muokkasivat rantavyöhykkeen kasvillisuutta luonnontilaisemmaksi. Havaitsin, että vesisammalilla on voimakas vaikutus pohjaeläinyhteisöjen koostumukseen. Sammalet vaikuttivat ekosysteemin toimintoihin lisäämällä eloperäisen aineksen pidättymistä ja vähentämällä lehtikarikkeen hajotusta ja päällyslevien tuotantoa. Sammalten vaikutus pohjaeläimiin oli voimakkaampi kuin hiekan, ja sammalet kykenivät jopa lieventämään joitakin hiekan negatiivisia vaikutuksia. Eliöiden levittäytymisellä oli selvä vaikutus yhteisöjen koostumukseen, mutta se ei hävittänyt hiekan ja sammalen vaikutusta, mikä viittaa korkeaan ympäristötekijöiden merkitykseen yhteisöjen rakentumisessa. Tutkielmani korostaa, että maatalousjokien tilan parantamisessa hajakuormituksen hallinta tulisi olla ensisijainen kunnostustavoite uoman rakenteen kunnostamisen sijaan. Metsätalouden vaikutuksista kärsivissä puroissa kivi- ja puumateriaalin käyttö samanaikaisesti tuottaa luultavimmin laajimman vaikutuksen purojen monimuotoisuuteen. Sammalilla on merkittävä vaikutus muiden eliöiden yhteisökoostumukseen ja ekosysteemin toimintoihin, joten sammalten palautuminen on tärkeä kunnostustavoite virtavesissä, joissa on luonnostaan paljon sammalkasvustoa.

Promoter region is the key regulatory region, which enables the gene to be transcribed or repressed by anchoring RNA polymerase and other transcription factors, but it is difficult to determine experimentally. Hence an in silico identification of promoters is crucial in order to guide experimental work and to pin point the key region that controls the transcription initiation of a gene. Analysis of various genome sequences in the vicinity of experimentally identified transcription start sites (TSSs) in prokaryotic as well as eukaryotic genomes had earlier indicated that they have several structural features in common, such as lower stability, higher curvature and less bendability, when compared with their neighboring regions. In this thesis work, the variation observed for these DNA sequence dependent structural properties have been used to identify and delineate promoter regions from other genomic regions. Since the number of bacterial genomes being sequenced is increasing very rapidly, it is crucial to have procedures for rapid and reliable annotation of their functional elements such as promoter regions, which control the expression of each gene or each transcription unit of the genome. The thesis work addresses this requirement and presents step by step protocols followed to get a generic method for promoter prediction that can be applicable across organisms. The each paragraph below gives an overall idea about the thesis organization into chapters. An overview of prokaryotic transcriptional regulation, structural polymorphism adapted by DNA molecule and its impact on transcriptional regulation has been discussed in introduction chapter of this thesis (chapter 1). Standardization of promoter prediction methodology - Part I Based on the difference in stability between neighboring upstream and downstream regions in the vicinity of experimentally determined transcription start sites, a promoter prediction algorithm has been developed to identify prokaryotic promoter sequences in whole genomes. The average free energy (E) over known promoter sequences and the difference (D) between E and the average free energy over the random sequence generated using the downstream region of known TSS (REav) are used to search for promoters in the genomic sequences. Using these cutoff values to predict promoter regions across entire E. coli genome, a reliability of 70% has been achieved, when the predicted promoters were cross verified against the 960 transcription start sites (TSSs) listed in the Ecocyc database. Reliable promoter prediction is obtained when these genome specific threshold values were used to search for promoters in the whole E. coli genome sequence. Annotation of the whole E. coli genome for promoter region has been carried out with 49% accuracy. Reference Rangannan, V. and Bansal, M. (2007) Identification and annotation of promoter regions inmicrobial genome sequences on the basis of DNA stability. J Biosci, 32, 851-862. Standardization of promoter prediction methodology - Part II In this chapter, it has been demonstrated that while the promoter regions are in general less stable than the flanking regions, their average free energy varies depending on the GC composition of the flanking genomic sequence. Therefore, a set of free energy threshold values (TSS based threshold values), from the genomic DNA with varying GC content in the vicinity of experimentally identified TSSs have been obtained. These threshold values have been used as generic criteria for predicting promoter regions in E. coli and B. subtilis and M. tuberculosis genomes, using an in-house developed tool ‘PromPredict’. On applying it to predict promoter regions corresponding to the 1144 and 612 experimentally validated TSSs in E. coli (genome %GC : 50.8) and B. subtilis (genome %GC : 43.5) sensitivity of 99% and 95% and precision values of 58% and 60%, respectively, were achieved. For the limited data set of 81 TSSs available for M. tuberculosis (65.6% GC) a sensitivity of 100% and precision of 49% was obtained. Reference Rangannan, V. and Bansal, M. (2009) Relative stability of DNA as a generic criterion for promoter prediction: whole genome annotation of microbial genomes with varying nucleotide base composition. Mol Biosyst, 5, 1758 - 1769. Standardization of promoter prediction methodology - Part III In this chapter, the promoter prediction algorithm and the threshold values have been improved to predict promoter regions on a large scale over 913 microbial genome sequences. The average free energy (AFE) values for the promoter regions as well as their downstream regions are found to differ, depending on their GC content even with respect to translation start sites (TLSs) from 913 microbial genomes. The TSS based cut-off values derived in chapter 3 do not have cut-off values for both extremes of GC-bins at 5% interval. Hence, threshold values have been derived from a subset of translation start sites (TLSs) from all microbial genomes which were categorized based on their GC-content. Interestingly the cut-off values derived with respect to TSS data set (chapter 3) and TLS data set are very similar for the in-between GC-bins. Therefore, TSS based cut-off values derived in chapter 2 with the TLS based cut-off values have been combined (denoted as TSS-TLS based cutoff values) to predict promoters over the complete genome sequences. An average recall value of 72% (which indicates the percentage of protein and RNA coding genes with predicted promoter regions assigned to them) and precision of 56% is achieved over the 913 microbial genome dataset. These predicted promoter regions have been given a reliability level (low, medium, high, very high and highest) based on the difference in its relative average free energy, which can help the users design their experiments with more confidence by using the predictions with higher reliability levels. Reference Rangannan, V. and Bansal, M. (2010) High Quality Annotation of Promoter Regions for 913 Bacterial Genomes. Bioinformatics, 26, 3043-3050. Web applications PromBase : The predicted promoter regions for 913 microbial genomes were deposited into a public domain database called, PromBase which can serve as a valuable resource for comparative genomics study for their general genomic features and also help the experimentalist to rapidly access the annotation of the promoter regions in any given genome. This database is freely accessible for the users via the World Wide Web http://nucleix.mbu.iisc.ernet.in/prombase/. EcoProm : EcoProm is a database that can identify and display the potential promoter regions corresponding to EcoCyc annotated TSS and genes. Also displays predictions for whole genomic sequence of E. coli and EcoProm is available at http://nucleix.mbu.iisc.ernet.in/ecoprom/index.htm. PromPredict : The generic promoter prediction methodology described in previous chapters has been implemented in to an algorithm ‘PromPredict’ and available at http://nucleix.mbu.iisc.ernet.in/prompredict/prompredict.html. Analysing the DNA structural characteristic of prokaryotic promoter sequences for their predominance Sequence dependent structural properties and their variation in genomic DNA are important in controlling several crucial processes such as transcription, replication, recombination and chromatin compaction. In this chapter 6, quantitative analysis of sequences motifs as well as sequence dependent structural properties, such as curvature, bendability and stability in the upstream region of TSS and TLS from E. coli, B. subtilis and M. tuberculosis has been carried out in order to assess their predictive power for promoter regions. Also the correlation between these structural properties and GC-content has been investigated. Our results have shown that AFE values (stability) gives finer discrimination rather than %GC in identifying promoter regions and stability have shown to be the better structural property in delineating promoter regions from non-promoter regions. Analysis of these DNA structural properties has been carried out in human promoter sequences and observed to be correlating with the inactivation status of the X-linked genes in human genome. Since, it is deviating from the theme of main thesis; this chapter has been included as appendix A to the main thesis. General conclusion Stability is the ubiquitous DNA structural property seen in promoter regions. Stability shows finer discrimination for promoter prediction rather than directly using %GC-content. Based on relative stability of DNA, a generic promoter prediction algorithm has been developed and implemented to predict promoter regions on a large scale over 913 microbial genome sequences. The analysis of the predicted regions across organisms showed highly reliable predictive performance of the algorithm.

<p><b>Part I: Micromechanics of dense suspensions</b></p><p>Particulate suspensions are ubiquitous in the industry & nature. Fresh concrete, uncured solid rocket fuel, & biomass slurries are typical industrial applications, while milk & blood are examples of naturally occurring suspensions. These suspensions exhibit many non-Newtonian properties like rate-dependent rheology & normal stresses. Other than volume fraction, particle material, inter-particle interactions determine the rheological behavior of suspension. The average inter-particle gaps between the neighboring particles decrease significantly as the suspension volume fraction approaches the maximum packing fraction in dense suspensions. So, in this regime, the short-ranged non-contact interactions are important. In addition, the particles come into contact due to asperities on their surfaces. The surface asperities are present even in the case of so-called smooth particles, as particles in real suspensions are not perfectly smooth. Hence, contact forces become one of the essential factors to determine the rheology of suspensions.</p><p> </p><p>Part I of this thesis investigates the effects of microscopic inter-particle interactions on the rheological properties of dense suspensions of non-Brownian particles by employing discrete particle simulations. We show that increasing the roughness size results in a rise in the viscosity & normal stress difference in the suspensions. Furthermore, we observe that the jamming volume fraction decreases with the particle roughness. Consequently, for suspensions close to jamming, increasing the asperity size reduces the critical shear rate for shear thickening (ST) transition, resulting in an early onset of discontinuous ST (DST, a sudden jump in the suspension viscosity) in terms of volume fraction, & enhances the strength of the ST effect. These findings are in excellent agreement with the recent experimental measurements & provide a deeper understanding of the experimental findings. Finally, we propose a constitutive model to quantify the effect of the roughness size on the rheology of dense ST suspensions to span the entire phase-plane. Thus, the constitutive model and the experimentally validated numerical framework proposed can guide experiments, where the particle surface roughness is tuned for manipulating the dense suspension rheology according to different applications. </p><p> </p><p>A typical dense non-Brownian particulate suspension exhibits shear thinning (decreasing viscosity) at a low shear rate followed by a Newtonian plateau (constant viscosity) at an intermediate shear rate values which transition to ST (increasing viscosity) beyond a critical shear rate value and finally, undergoes a second shear-thinning transition at an extremely high shear rate values. This part unifies & quantitatively reproduces all the disparate rate-dependent regimes & the corresponding transitions for a dense non-Brownian suspension with increasing shear rate. The inclusion of traditional hydrodynamic interactions, attractive/repulsive DLVO (Derjaguin and Landau, Verwey and Overbeek), contact interactions, & constant friction reproduce the initial thinning as well as the ST transition. However, to quantitatively capture the intermediate Newtonian plateau and the second thinning, an additional interaction of non-DLVO origin & a decreasing coefficient of friction, respectively, are essential; thus, providing the first explanation for the presence these regimes. Expressions utilized for various interactions and friction are determined from experimental measurements, resulting in an excellent quantitative agreement with previous experiments. </p><p><br></p><p><b>Part II: Motion in a stratified fluid</b></p><p>Density variations due to temperature or salinity greatly influence the dynamics of objects like particles, drops, and microorganisms in oceans. Density stratification hampers the vertical flow & substantially affects the sedimentation of an isolated object, the hydrodynamic interactions between a pair, and the collective behavior of suspensions in various ways depending on the relative magnitude of stratification inertia (advection), and viscous (diffusion) effects. This part investigates these effects and elicits the hydrodynamic mechanisms behind some commonly observed fluid-particle transport phenomena in oceans, like aggregation in horizontal layers. The physical understanding can help us better model these phenomena and, hence, predict their geophysical, engineering, ecological, and environmental implications. </p><p><br></p><p>We investigate the self-propulsion of an inertial swimmer in a linear density stratified fluid using the archetypal squirmer model, which self-propels by generating tangential surface waves. We quantify swimming speeds for pushers (propelled from the rear) and pullers (propelled from the front) by direct numerical solution. We find that increasing stratification reduces the swimming speeds of swimmers relative to their speeds in a homogeneous fluid while reducing their swimming efficiency. The increase in the buoyancy force experienced by these squirmers due to the trapping of lighter fluid in their respective recirculatory regions as they move in the heavier fluid is one of the reasons for this reduction. Stratification also stabilizes the flow around a puller, keeping it axisymmetric even at high inertia, thus leading to otherwise absent stability in a homogeneous fluid. On the contrary, a strong stratification leads to instability in the motion of pushers by making the flow around them unsteady 3D, which is otherwise steady axisymmetric in a homogeneous fluid. Data for the mixing efficiency generated by individual squirmers explain the trends observed in the mixing produced by a swarm of squirmers. </p><p><br></p><p>In addition, the ubiquitous vertical density stratification in aquatic environments significantly alters the swimmer interactions affecting their collective motion &consequently ecological and environmental impact. To this end, we numerically investigate the interactions between a pair of model swimming organisms with finite inertia in a linear density stratified fluid. Depending on the squirmer inertia and stratification, we observe that the squirmer interactions can be categorized as i) pullers getting trapped in circular loops, ii) pullers escaping each other with separating angle decreasing with increasing stratification, iii) pushers sticking to each other after the collision and deflecting away from the collision plane, iv) pushers escaping with an angle of separation increasing with stratification. Stratification also increases the contact time for squirmer pairs. The results presented can help understand the mechanisms behind the accumulation of planktonic organisms in horizontal layers in a stratified environment like oceans and lakes. </p><p><br></p><p>Much work has been done to understand the settling dynamics of spherical particles in a homogeneous and stratified fluid. However, the effects of shape anisotropy on the settling dynamics in a stratified fluid are not entirely understood. To this end, we perform numerical simulations for settling oblate and prolate spheroids in a stratified fluid. We find that both the oblate and prolate spheroids reorient to the edge-wise and partially edge-wise orientations, respectively, as they settle in a stratified fluid completely different from the steady-state broad-side on orientation observed in a homogeneous fluid. We observe that reorientation instabilities emerge when the velocity magnitude of the spheroids falls below a particular threshold. We also report the enhancement of the drag on the particle from stratification. The torque due to buoyancy effects tries to orient the spheroid in an edge-wise orientation, while the hydrodynamic torque tries to orient it to a broad-side orientation. The buoyancy torque dominates below the velocity threshold, resulting in reorientation instability.<br></p>

Of concern in this research were the ecological parameters associated with the establishment of a model invasive plant species, Imperata cylindrica, across a scale of ecological organization. Specifically, the study addressed the species’ ability to: differentially respond to abiotic and biotic constraints during seedling establishment, exhibit a novel underground competitive interference mechanism, and alter the decomposition dynamics in newly invaded ecosystems. Finally, the last portion of the research was centered around creating a predictive habitat model that will provide information on the most important variables responsible for creating habitat for this species. The population level seedling study indicated that soil characteristics and light availability play a significant role in seedling establishment. There were large trends in biomass allocation attributable to soil type with seedlings performing best in high nutrient soils representative of the Mississippi Alluvial Valley physiographic region. I. cylindrica seedlings also showed a positive response to increased seedling density during the initial stages of seedling establishment. The community level research examining a hypothesized novel interference mechanism deployed by I. cylindrica showed a significant and robust pattern of I. cylindrica damaging its own belowground tissue more often than that of its surrounding neighbors. Therefore, it is highly unlikely that I. cylindrica gains a competitive advantage by exposing the native plant assemblage to pathogen invasion (via ruptured tissue) as the plant would expose itself to these pathogens (to which it is evolutionarily naive) at much higher volumes. The ecosystem level examination of this globally important invasive species indicated that I. cylindrica invasion into native systems will significantly accelerate ambient rates of decomposition. Furthermore, fungal community composition in invaded areas was drastically altered as well as bacterial community functional activity in relation to several key enzymes responsible for the decomposition of plant tissue which were produced more abundantly in invaded areas.The landscape-scale analyses and modeling work validated decades of anecdotal evidence and indicated that anthropogenic disturbance factors associated with road maintenance and construction (soil disturbance and vegetation removal) are the principal factors responsible for creating habitat suitable for invasion by this species.

<div> <p>Despite its location in the rain shadow of the southern Sierra Nevada, the Panamint Range within Death Valley National Park, CA hosts a complex aquifer system that supports numerous springs. These springs, in turn, support unique groundwater-dependent ecological communities. Spring emergences range in elevation from 2434 m above sea level (within the mountain block) to 77 m below sea level (in the adjacent basins). Waters were collected from representative Panamint Range springs and analyzed for environmental isotopes and geochemical tracers to address the following questions: 1) What is the primary source of recharge for the springs? How much recharge occurs on the Panamint Range? 2) What groundwater flowpaths and geologic units support springflow generation? and 3) What are the residence times of the springs? The stable isotopic composition (δ¹⁸O and δ²H) of spring water and precipitation indicate that localized high-elevation snowmelt is the dominant source of recharge to these perennial springs, though recharge from rainfall is not wholly insignificant. Geochemical evolution was evaluated using principle component analysis to compare the concentrations of all major spring cations and anions in a multidimensional space and group them according to dominant geochemical signatures. These resulting geochemical groups are controlled primarily by topography. The Noonday Dolomite and other carbonate units in the range are identified as the water-bearing units in the mountain block based on the ⁸⁷Sr/⁸⁶Sr of spring waters and rock samples. These units also offer higher hydraulic conductivities than other formations and are chemically similar. Radiocarbon- and ³H derived residence times of these spring waters range from modern to approximately 1840 years, with the shortest residence times at higher altitudes and Hanaupah Canyon and increasing residence times with decreasing altitude. This residence time-altitude relationship is likewise likely topography-driven though there are significant disparities in mountain block storage between the various canyons of the range resulting in variable residence times between drainages. Lower Warm Springs A and B, however, are the exceptions to this trend as they emerge at lower altitudes (750m above sea level) and are likely driven by the transport of groundwater to the surface along faults which increases both the temperature and groundwater residence times of waters from these springs. Benthic macroinvertebrates and benthic and planktonic microbes were also sampled for each spring studied. BMI and microbial community structure in the Panamint Range is likewise topography-controlled with more tolerant communities at lower elevations (within more chemically evolved waters) and less tolerant species in the unevolved waters at higher elevations.</p></div>

Master´s thesis deals with the issue of internal microclimate of clean rooms. The experimental part focuses on aerosol and microbial microclimate. Different operating and intervention rooms were measured and then evaluated whether the cleanroom would comply with the standard cleanliness class even in normal operation after previous validations. The microbial examination of different clean spaces investigated the extent to which the exact passive fall method and its evaluation were time-dependent. From the data the correct desing of the air-conditioning system and its subsequent realization and regultion were verified. The theoretical part describes requirements for clean rooms according to SÚKL-LEK 17 and ČSN EN ISO 14644-1. In addition, a detailed methodology of the procedure of air-conditioning implementation is elaborated to the final validation and testing of clean rooms.