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  • Madrid, Martha (2023)
    Food security is increasingly threatened in agrarian societies as environmental change has disrupted traditional food systems around the world, thus robbing the affected communities of their rights to food sovereignty. This thesis seeks to examine the role of traditional Indigenous (agri)cultural heritage maintenance in the present day, especially as impacted by climate change and land degradation. Using the case of Hek’o:we – or “waffle gardening” – in the Zuni Pueblo (known also as the Middle Place), the study aims to illuminate the benefits of youth-oriented education for the protection of food sovereignty, the continuance of ancestral knowledge, and the conservation of the land and natural resources. Existing literature was reviewed to evaluate the need for this research, as well as to illuminate the place of this study in the broad literature base of related topics in Western academia. The resulting literature review was compiled to serve also as a theoretical framework for narrowing down three key contexts in which this case study could be examined: 1. The history, development, and use of Hek’o:we, as understood currently in Western academia; 2. Indigenous food sovereignty; and 3. The role of youth education in the (re)production of agricultural knowledge. Much of the earlier research regarding Zuni (agri)cultural heritage maintenance and Hek’o:we agriculture has been conducted without considering the needs of the Zuni community. Thus, significant ethical considerations were central to the development of this study, including the goal of amplifying Zuni voices in the dissemination of the research results. Data collection was conducted over video chat; in a recorded group interview, organizers from the Zuni Youth Enrichment Project’s Food Sovereignty team shared stories and insight about the topics at hand. The results are presented primarily in the words of the participants. Three main topics emerged: Hek’o:we and community-wide resilience; intergenerational education that en-gages the whole family; and land-based considerations including climate change, water scarcity, and the overall notion of living with the land. Conclusions posit that traditional agricultural practices are promoting resilience, engagement with ancestral knowledge, conservation of the land and water, and many other ob-servable benefits. Climate change and land degradation, caused by intentional actions by the settler state, may pose threats to food sovereignty and the health of Zuni people, but the community is able to find strength in the practices developed by their ancestors.
  • Harmanen, Janina (2024)
    The objective of this thesis is to study resilient urban housing business ecosystems and the role and use of nature-based solutions (NBS) in these ecosystems. Thesis aims to gather knowledge on how nature-based solutions are perceived in urban residential building and planning regime and how these solutions are valued to increase urban resilience. Thesis aims to provide knowledge on who are the actors in key role in designing, implementing, or using nature-based solutions in the case cities urban built environment and residential buildings of the business ecosystem. The benefits from nature-based solutions are presented and challenges hindering the mainstreaming of nature-based solutions as well as ways to overcome them are addressed. This thesis is a qualitative study with an empirical research approach. The empirical part of the study consists of data collected from 11 expert interviews, and two expert workshops. Altogether the empirical data corpus consisted of 15 transcripts. The interviews were semi-structured, thematic interviews where experts from different organizations of urban planning and construction industry were interviewed. Two separate workshops were held during August of 2023 in both case cities Helsinki and Turku. Workshops consisted of researcher presentations and focus group work, and the expert participants represented versatility of the field. Study applies reflexive thematic analysis method for qualitative data analysis. It is a systematic and flexible method that is used for identifying, analysing, and reporting meaning-based multifaceted and conceptual patterns within data by generating codes and themes. Several actor groups and key actors were identified based on the analysis. Also, an open role for a champion was recognized from the analysis. Several benefits derived from NBS and barriers for mainstreamed use were identified. Multiple solutions such as land use planning, urban governance practices including green factor, and economical incentives help to increase use of NBS in urban settings, and to answer the future of more resilient city. Urban resilience can be increased through inclusion of NBS and the associated delivery of ecosystem services in urban areas. Urban greenery and green spaces are highly relevant for well-being of residents. A holistic approach for urban planning and residential housing building is called for with increase in implementation of NBS. City should be designed for people as well as to other species. Experts share a vision of greener and more sustainable city where nature becomes one with the city, and city with the nature. There is still need for more research on long-term review of follow-ups and next steps taken from pilot projects to answer how nature-based solutions could be transferred from experimentations for everyday use and how this knowledge could be transferred for wider audiences.
  • Hyppölä, Ronja (2019)
    Peatlands are roughly divided into bogs, which are dry and ombotrophic, and fens, which are wet and minerotrophic. Bog vegetation typically consists of dwarf shrubs, lichens, and especially of peat forming white mosses Sphagna spp. White mosses, yet different taxa, also occur on fens and are accompanied by various sedges Carex spp. and Eriophorum spp. Human activities are changing the climate. These activities increase greenhouse gas concentrations in the atmosphere, which in turn causes global climate warming. It is not yet resolved how the warming is affecting the ecosystems and what are the response mechanisms. Peatlands cover a considerable area, i.e. 4 million square kilometres of the Northern hemisphere, including continuous, intermittent or sporadic permafrost, the latter especially vulnerable to thawing. Since their formation following the deglaciation ca. 11 700 years ago, the Northern hemisphere peatlands have acted as carbon sinks storing great amount of atmospheric carbon as accumulated peat. This is due to the slow decomposition rate under cold climate. Simultaneously peatlands release carbon back to the atmosphere via microbial activity, which is largely regulated by hydrological conditions and associated plant composition. Carbon dioxide (CO2) release in aerobic conditions happens mainly through respiration of the living organisms, while in wet anaerobic conditions methane (CH4) is released due to methanogenic processes. The rate of peat, i.e. carbon, accumulation and release has varied over time due to for instance prevailing climate conditions. Mire surface is a mosaic of hydrological and thus vegetational patterns. Different taxa thrive in different growing conditions and furthermore, respectively, can affect the carbon dynamics. While long-term autogenic succession changes surface vegetation and microtopography, also allogenic forcing, such as climate and warming alter habitat conditions and for instance lead to permafrost thawing. Currently, especially thawing of permafrost is a concern worth noticing. Thawing ice might cause water saturated conditions, which in turn may lead to increase in methane emissions. Past changes in prevailing vegetation can be studied through stratigraphical examinations of peat. The accumulated peat layers reflect drier and wetter conditions, and these can be identified by distinguishing the remaining plant macrofossils. The reconstructed changes in past vegetation can be dated with radiometric methods and then compared with paleoecological climate data or meteorological measurements to evaluate if the changes in vegetation and carbon accumulation correspond to changes in climate. In this study I investigate the relationship between past changes and peatland vegetation, carbon accumulation and climate. The focus time period covers the last centuries. My thesis consists of two case studies from northern Sweden permafrost peatland areas, Abisko and Tavvavuoma. The two main taxa, which dominated the plant assemblage were Sphagnum fuscum and Dicranum elongatum. In Tavvavuoma the plant composition varied more than composition in Abisko. Also, the oldest peat section was from Tavvavuoma, where bottom age of the peat section was ca. 8000 years old. The peat and carbon accumulation data indicate similar patterns for both study sites. No clear signs of the generally warmer Medieval Climate Anomaly or colder Little Ice Age were found in my data, but at both study sites the warming after Little Ice Age has shifted vegetation towards a drier assemblage and this has affected the carbon accumulation rates positively especially since the turn to 20th century. According to my data, it can be suggested that vegetation composition and carbon accumulation follow the climatological and thus hydrological conditions, thus my results are in accordance with earlier studies.
  • dos Reis Silva, Francisco (2023)
    Land-use change stands behind the current biodiversity crisis and all it entails in terms of ecosystem services. Guinea-Bissau, in West Africa, is originally characterized by a forest- savanna mosaic biome. However, while savannas have long been planted with rice, both rice paddies and forest remnants are now being converted into cashew monocultures – the only cash crop in the country – at unprecedented rates. The ecological impact of such rapid change is largely unknown. To help fill this gap, we examined how three diversity metrics – rarefied species richness, abundance and composition – varied across forest remnants, cashew orchards and rice paddies for amphibians and reptiles in northern Guinea-Bissau. To do so, visual encounter surveys were carried across 21 sampling sites, seven of each habitat type. A total of 703 amphibian and 266 reptile encounters was recorded from nine and 14 taxa, respectively. The results show class-specific responses to habitat type. Amphibians’ diversity in forest remnants and cashew orchards was similar across all metrics, but rice paddies had a higher abundance and unique composition compared to forest remnants. Reptiles’ abundance was highest in cashew orchards and this habitat had a distinct composition, when compared to forest remnants. Rice paddies sustained both lower reptile richness and abundance. Overall, our results are not in agreement with the expected detrimental impacts of cashew expansion, which might be due to the still high heterogeneity of habitat types within the landscape. Rice paddies proved particularly important for amphibians, and for open-habitat reptiles, boosting overall species diversity. In face of the eminent habitat conversion, maintaining heterogeneous landscapes, including the persistence of both forest remnants and rice paddies, will allow minimizing biodiversity loss in West Africa.
  • Suvanto, Maija Tellervo (2019)
    Sindbis virus belongs to the Alphavirus genus and it has spread around the globe. Sindbis virus is transmitted by mosquitoes and spread birds. Mosquitoes from Culex and Culiseta genera are able to spread Sindbis virus. In Finland game birds from Tetrao genus have been observed to act as host for Sindbis virus thus enabling viral amplification. In Finland Sindbis virus causes annual disease called Pogosta disease. Typically, Pogosta disease occurs from August to September. Symptoms of Pogosta disease include for example joint pain, arthritis, rash and fever. Pogosta disease is endemic in Finland and known endemic regions are e.g. Ilomantsi region. Even though Sindbis virus causes annual disease in Finland there is currently only six Sindbis virus strains isolated from Finland. These isolations were done in 2002 and in 2005. There is a need for new data. In this master thesis the aims were to describe how two new Finnish Sindbis virus strains were isolated and to compare them to each other and to other Sindbis virus strains isolated from Finland and around the globe. Mosquito samples were collected from Ilomantsi region in 2018 summer. Serum samples from serologically diagnosed patients with Sindbis virus infection were obtained from HUSLAB and included in this study. The mosquito and patient serum samples were cultivated on cells and later virus isolates were plaque purified. Conventional nested reverse transcriptase polymerase chain reactions (RT-PCR) for Alphavirus and Bunyavirus genera were used in order to screen mosquito and patient serum samples for viruses. Later a Sindbis virus specific real time reverse transcriptase PCR was used to test mosquito and patient serum samples. Cell cultures were also tested with immunofluorescence assays. Isolated Sindbis viruses were sent for next generation sequencing and based on that a phylogenetical tree was constructed. The phylogenetical tree represents the new Sindbis virus strains relation to Finnish and to other Sindbis virus strains around the globe. Mosquito samples were morphologically identified and subjected to genetic species identification analysis via COI sequences. These COI PCR products were sent for Sanger sequencing and compared to sequences in NCBI database in order to determine the mosquito species. In this master thesis two new Finnish Sindbis virus strains were isolated from mosquito and from human serum sample. This is the first time in Finland when Sindbis virus has been isolated from human serum sample. These two new Finnish Sindbis virus strains differ from each other. The strain isolated from the patient sample is more closely related to German strains than to Finnish Sindbis virus strains. The strain isolated from mosquitoes is closely related to pre-existing Finnish Sindbis virus strain Ilomantsi region-2005M which is isolated from mosquitoes. These finding suggest that currently there is two different Sindbis virus strains circulating in Finland. This master thesis provides valuable information of Finnish Sindbis virus strains which can be used in future studies e.g. when studying Sindbis virus pathogenesis, distribution, relation to other Sindbis virus strains or mapping Sindbis virus prevalence in Finland.
  • Mäkelä, Tiina-Kaisa (2020)
    Tiivistelmä – Referat – Abstract Celiac disease (CD) is a serious lifelong condition, in which the immune system attacks an individual’s own tissue when eating gluten. This leads to inflammation and damage to the small intestine. Celiac disease often goes undiagnosed because many of its symptoms are nonspecific. The prevalence of combined undiagnosed and diagnosed CD is estimated to affect 1 in 100 people throughout Europe and USA. CD is a polygenic disease, it is known that the human leukocyte antigen (HLA) system plays a crucial role. HLA-DQ2/DQ8 risk allele genotyping screening test from a whole blood sample (B -HLAKeli) is routinely used to estimate the genetic risk of a patient having CD. HLA genotyping test result is routinely used to rule out celiac disease rather than confirming it; if an individual does not have celiac disease related risk alleles, it is very unlikely that he or she has celiac disease. The Celiac disease diagnosis decision making process is based on the classic triple combination of serological antibody tests, the HLA-DQ2/DQ8 genotyping test and duodenal biopsies. The aim of this master’s thesis was to study evaluate how the two different risk classification praxis for HLA-DQx.5 allele used for celiac disease diagnostics in SYNLAB Finland and Estonia central laboratory and in SYNLAB Suomi central laboratory might influence the clinical process and final diagnosis. In SYNLAB Suomi central laboratory HLA-DQx.5 is classified and interpreted as a risk allele predisposing to celiac disease. In SYNLAB Finland and Estonia central laboratory this allele is classified as CD-non-risk-allele based on recommendations in international guideline. In addition, the aim was to get a general understanding of celiac disease prevalence and risk allele distributions among the study population. From the study population of 196 celiac disease suspect patients, 9% had a celiac disease positive laboratory result and the HLA risk genotype distribution among positive cases was well aligned with the expected values described in the literature. Study results indicated that there’s no additional clinical value if HLA-DQx.5 is classified as a celiac disease predisposing risk allele; the study data implies that it is very unlikely to find celiac disease positive cases from laboratory test perspective among HLA-DQx.5 carriers. Based on the study, approximately 7% of the celiac disease suspects carry the allele HLA-DQx.5 and therefore probably go through additional celiac disease related laboratory testing if this allele is interpreted as a risk allele. According to the study findings and general recommendations based on international guideline of celiac disease diagnosis, it seems that there is no clear clinical benefit if HLA-DQx.5 is classified as a CD risk allele.
  • Lehtonen, Anna (2017)
    Yersinia pseudotuberculosis voi aiheuttaa ihmiselle suolistoinfektion, yersinioosin. Se tarttuu kontaminoituneiden elintarvikkeiden välityksellä, ja Suomessa on todettu useita epidemioita viimeisen 20 vuoden aikana. Yersinia-suku kuuluu Enterobacteriaceae-heimoon, ja siihen kuuluu tällä hetkellä 18 lajia. Y. pseudotuberculosis-lajin lisäksi sukuun kuuluu kaksi ihmispatogeenia, Yersinia enterocolitica ja Yersinia pestis. Y. enterocolitica on myös elintarvikevälitteinen patogeeni, Y. pestis puolestaan tunnetaan ruton aiheuttajana. Y. pseudotuberculosis kasvaa hyvin jääkaappilämpötiloissa, jolloin nykyaikaiseen elintarvikehygieniaan oleellisena osana kuuluva kylmäsäilytys ei estä sen lisääntymistä elintarvikkeissa. Sen vuoksi onkin tärkeä tutkia tekijöitä, joilla on merkitystä Y. pseudotuberculosis-bakteerin kylmänsiedossa ja muissa stressiolosuhteissa. RNA-helikaasit ovat proteiineja, jotka avaavat kaksijuosteista RNA:ta. Niihin kuuluu useita proteiiniperheitä, mutta suurin niistä on DEAD-box-helikaasiperhe. DEAD-box-helikaaseja löytyy kaikista eliöryhmistä, ja ne osallistuvat kaikkiin RNA-metabolian vaiheisiin. Ne ovat ATP-riippuvaisia helikaaseja ja ne kykenevät avaamaan vain lyhyitä kaksijuosteisia alueita. Y. pseudotuberculosis IP32953- genomi sisältää viisi DEAD-box-helikaasia koodaavaa geeniä, csdA, dbpA, rhlB, rhlE ja srmB. RhlB osallistuu mRNA-molekyylien hajottamiseen osana RNA-degradosomia. Muut proteiinit osallistuvat pääasiassa ribosomin rakentumiseen. Escherichia coli -bakteerilla aiemmin tehdyn tutkimuksen perusteella tiedetään, että CsdA:n ja SrmB:n puuttuminen soluista saa aikaan kylmäherkän fenotyypin. CsdA:n roolia on tutkittu myös Y. pseudotuberculosis-lajilla, jossa toimimaton CsdA heikentää kasvua kylmässä. Tämän tutkielman tarkoituksena oli tutkia RNA-helikaasien vaikutusta Y. pseudotuberculosis IP32953-kannan kasvuun erilaisissa stressiolosuhteissa. RhlE-, DbpA- ja SrmB-deleetiomutanttikantoja kasvatettiin optimilämpötilan (28 °C) lisäksi kylmässä (3 °C), korkeassa suolapitoisuudessa sekä alhaisessa ja korkeassa pH:ssa. Kasvun aikana mitattiin bakteerien kasvua OD600nm-mittausten avulla, ja aineiston perusteella kannoille piirrettiin kasvukäyrät kaikissa olosuhteissa. Lisäksi aineistosta laskettiin käyrän alle jäävä pinta-ala, jonka perusteella tutkittiin kasvuerojen tilastollista merkitsevyyttä Studentin t-testillä. Kannoille määritettiin myös kasvunopeudet eri olosuhteissa. Deleetiomutanttien kasvussa huomattiin eroa alhaisessa lämpötilassa, jossa kaikki deleetiomutanttikannat tilastollisesti merkitsevästi kasvoivat villityypin kantaa huonommin. Lisäksi ΔsrmB -kanta kasvoi tilastollisesti merkitsevästi heikommin optimilämpötilassa ja korkeassa pH:ssa. Näyttääkin siis siltä, että DEAD-box-helikaasit ovat Y. pseudotuberculosis-bakteerilla suuremmassa roolissa kuin E. coli-bakteerilla, ja niitä tarvitaan erityisesti alhaisissa lämpötiloissa.
  • Raineva, Iona (2022)
    High-grade serous carcinoma (HGSC) is the most common and lethal subtype of ovarian cancer. To date, HGSC has typically been diagnosed late, and the survival rate is poor. Relapses are common despite standardised treatment options, and platinum-based chemotherapy resistance remains frequent. The tumours are generally heterogeneous, which makes HGSC complex. Molecular mechanisms of tumour initiation, progression and chemoresistance are insufficiently understood. Thus, efficacious treatment is challenging, and current options do not help some patients. In addition, a population of cancer cells having stem cell-like properties are suggested to play a role in tumour initiation, progression and chemoresistance. There is an urgent need to better understand prognostic biomarkers and treatment responses in HGSC. With diverse analytical methods, the treatment-unresponsive patients and their outcomes could be identified by predictive biomarkers. This thesis aimed to validate potential tissue biomarkers associated with cancer stem cells and poor prognosis in HGSC, evaluate the usability of the RNAscope technique and briefly review the hypotheses on cancer stem cells. Four putative biomarkers were studied: ALDH1A1, BMI1, MYC and SOX2. The RNAscope technique was used to detect and quantify the biomarker expression. Using diagnostic tumour tissue specimens from 95 patients allowed capturing the expression in situ. With comprehensive clinical information, we could test whether the biomarkers distinguished patients with similar background information but different outcomes. This thesis shows that BMI1 could be a potential prognostic biomarker in high-grade serous carcinoma. The results provide information about the expression patterns of previously identified potential HGSC stemness markers. Proteomics studies such as immunohistochemistry could provide complementary information. When the molecular mechanisms and prognostic markers are better understood, they will provide a promising opportunity to develop novel diagnostic methods for predicting the outcomes and deciding treatments for this complex disease.
  • Aung, July (2021)
    Epithelial cells line the surfaces of organs and tissues in a continuous and tightly packed manner, thereby functioning as a protective barrier between the tissue and the external environment known as the epithelium. During development, the epithelium undergoes a series of morphogenetic events which alters the shape and size of epithelial cells, enabling them to perform tissue specific functions in mature tissue. During morphogenesis, cells sense the mechanical forces and establish polarity through cell proliferation and rearrangement according to morphogenetic signalling pathways. This manoeuvre is achieved by the underlying actin cytoskeleton network which enables cells to resist the tension and stresses of morphogenesis via alteration of filament dynamics and network architecture. In vivo, numerous actin-regulatory proteins generate various polymerized forms of straight, branched, or contractile actin-myosin filaments, regulating dynamic actin filament turnover. The robust actin cytoskeleton provides the cell with protrusive and contractile forces that enable cells to migrate, maintain, and change its shape and form during morphogenetic events. Actin filament depolymerization is accomplished by ADF/cofilin (Drosophila homolog twinstar) binding to actin monomers (G-actin) and actin filaments. However, ADF/cofilin alone is not very efficient in promoting disassembly of actin monomers, especially in subcellular regions where ADF/cofilin is highly concentrated. AIP1 (Drosophila homolog flare) then enhances actin depolymerization via preferential binding to ADF/Cofilin rich regions in vitro. The aim of my thesis was to study the localization and roles of AIP1 and cofilin in follicular epithelium during Drosophila oogenesis. My results showed that Actin-Interacting-Protein-1 (AIP1) was expressed throughout oogenesis. AIP1 expression was increased in cell type-specific manner and AIP1 showed spatiotemporal localization in follicular epithelium during oogenesis. Silencing of AIP1 led to accumulation of ectopic F-actin aggregates, localization of which may reflect the cellular sites of dynamic actin reorganization in the follicular epithelium. My results also indicate that AIP1 may be indirectly responsible for maintaining epithelial integrity as its silencing resulted in formation of epithelial gaps throughout follicular epithelium. Also delays in border cell migration were observed. Considering the above, understanding how AIP1 functions in Drosophila morphogenetic events would therefore pave the way for a greater understanding of how this protein works in other organisms. The knowledge gained may also be used to extend the current understanding of the role of actin binding proteins in diseased states.
  • Jakobsson, Emma (2023)
    The lymphatic system is a network of vessels that permeate a substantial part of the whole body. It plays an essential role in fluid homeostasis by the drainage of interstitial fluid from the blood capillaries, after which the fluid, now called lymph, is transported through the vessel network and back to the blood circulation. The lymphatic system also plays an important role in the transportation of immune cells and in activation and maintenance of the immune system. Due to these crucial functions, there is a growing interest in exploiting the lymphatic system in the treatment of many immunological and inflammatory diseases. In many cases, an ideal treatment method would be to induce lymphatic growth (lymphangiogenesis) to boost immunological functions, facilitate resolution of inflammation and reduce the harm from lymphatic vascular abnormalities. However, there is a gap in knowledge in how to induce lymphangiogenesis in a controlled manner, with the major lymphangiogenic growth factor, vascular endothelial factor C (VEGF-C), tending to create disorganized lymphatic networks. The purpose of this thesis is to investigate factors influencing lymphangiogenesis, in an attempt to find ways to control it. Vaahtomeri research group has preliminary results showing a role of planar cell polarity (PCP) in control of dermal lymphatic vessel sprouting (the initial step for the formation of new lymphatic branches) and lymphatic network expansion. The focus of Vaahtomeri research group has been the core PCP protein Van Gogh-like protein 2 (VANGL2), which together with the other core PCP proteins is known to play an important role in the collective cell polarization and morphogenesis in many tissue types. The role of VANGL2 has previously been studied in the lymphatic system, and so far, VANGL2 has been implicated in both lymphatic valve morphogenesis and in flow-induced control of lymphatic endothelial cell (LEC) polarization. However, there still remains a gap in knowledge in what role VANGL2 plays in lymphangiogenesis and the lymphatic network as a whole. In this thesis, I investigated the role of VANGL2 in lymphangiogenesis, firstly by the use of an in vivo lymph node experiment, which offered a robust model to investigate the role of VANGL2 in the mature lymph node lymphatic network. In the experiment, I induced growth of the lymph node lymphatic network by means of an immunization reaction, and then I compared the lymphatic networks of Vangl2-deleted and control mice. Despite some minor differences between the Vangl2-deleted and control lymphatic networks, this experiment did not show a role for VANGL2 in the mature lymph node lymphatic network. Secondly, I investigated the potential mechanistic role of VANGL2 in control of dermal lymphatic vessel sprouting in growth conditions. This experiment showed a specific role for VANGL2 in sprouting of the lymphatic network, thus providing valuable research in understanding how lymphangiogenesis is regulated. Altogether, the results presented in this thesis work as a steppingstone for finding new treatments relating to the safe induction of lymphangiogenesis.
  • Saari, Jeremia (2024)
    Lymphatic vasculature lines densely the outer borders of the body, such as the skin, the lungs, and the gut. The peripheral lymphatic system drains interstadial fluid from tissues and returns it to circulation. In turn, poor lymphatic vascularization of tissue causes swelling, i. e. lymphedema, and has been linked to worsened inflammation resolution, and heightened reoccurrence of Crohn’s disease. In colorectal cancer, lymphatic invasion to the tumor margin can either improve or worsen prognosis, depending on anti-tumor immune response or the lack thereof. Association with pathological conditions such as these drives research into developmental and post-developmental lymphatic growth. The most important growth factor for lymphatic endothelium is VEGF-C. The exposure of mature lymphatics to VEGF-C increases vascular density by inducing growth of new branches but the details of this “sprouting lymphangiogenesis” are not completely understood. One important effector in lymphatic endothelium is VE-cadherin, an adhesion molecule found in endothelial cell junctions. VE-cadherin plays a role in endothelial permeability, integrity, and suppression of VEGF-C signaling. This thesis includes the characterization of subcellular VE-cadherin localization in sprouting lymphatic endothelium via immunofluorescence microscopy. Subsequently, the role of VE-cadherin in sprouting lymphatic endothelium was functionally validated. Research into lymphatic sprouting is motivated not only by the prospect of gaining insight into vascular development but translational potential. While VEGF-C has been used to induce lymphatic growth in a therapeutical context, its potency as a growth-stimulating compound results in unpredictable and chaotic network expansion. Exploration into the molecular regulators of lymphatic sprouting aims to reveal new therapeutical targets for harnessing the peripheral lymphatics against inflammation-related disease, with precision.
  • Gelman, Valeria (2014)
    The increased rates of population growth and urbanization worldwide raises the question of food security and self-reliance in cities. In view of this situation, in recent years there has been a re-emergence of urban agriculture in its traditional form and in new variations, such as on urban rooftops. A number of rooftop urban farms exist in the world; however, very few studies have been done to establish the quality of crops they produce, specifically concerning the concentrations of contaminants. The main purpose of this study was to investigate levels of contamination in edible plants grown on urban rooftops. I determined concentrations of polycyclic aromatic hydrocarbons (PAH) and trace metals in the biomass of three types of horticultural crops grown in the city of Helsinki, Finland. Lettuce, radish and peas were planted on five rooftops in various areas of Helsinki and control samples were acquired from local food stores and markets. Both groups of crops were analyzed for concentrations of 11 trace elements using the Elan 6000 ICP-MS and 16 PAHs using Shimadzu GC-MS-QP2010 Ultra system with the AOC-20i /AOC-20s autosampler. Additionally, lettuce and pea samples from the roofs were analyzed washed and unwashed to establish levels of particulate contamination on the surface of plants that can be mechanically removed through washing. Results obtained suggest that concentrations of PAHs and trace metals in rooftop vegetables in Helsinki are very low and the differences in their concentrations compared to control (store) samples are insignificant. This demonstrates that the consumption of vegetables produced in uncontaminated soil on urban roofs in Helsinki is safe. All samples showed concentrations well below the safety limits for heavy metals and PAHs established in the European Union (EC, 2006). Finally, there was a difference in concentration of PAHs and trace metals between washed and unwashed samples, however most of the results did not show statistical significance.
  • Hämäläinen, Lotta (2023)
    Norway rats are common commensal species across the world. Despite their long history with humans, the ecology of urban rats is still relatively unknown. Which is why in my thesis, I model the population dynamics of wild urban rats of Helsinki using trap data from a professional pest management company. To protect the privacy of the company’s customers, the data are on the scale of postal code areas. Using a generalized linear mixed model, I investigate several different factors that might affect rat populations. As the data come from a pest management company, trapping factors need to be considered. Other factors include environmental, such as the proportion of parks or the type of sewer present in the postal code area. But as urban rats live in cities, anthropogenic factors such as human density and income matter too. In the span on seven and half years, 8 415 rats were trapped all across Helsinki, in some places more than others. Of all the factors only the trapping factors along with household median income were significant. Median income was negatively associated with trapped rats, so more rats were trapped in areas with lower income. Future studies should try to uncover for what unknown factor income acts as a proxy for.
  • Tornikoski, Taru (2023)
    Social behaviour can be divided into neutral, positive, and negative, depending on the social context. Positive social behaviour involves affiliative prosocial interactions that encourage social and emotional cohesion. Rat (Rattus norvegicus) is a globally distributed common rodent species adapted to living near humans. Rats are intelligent and social animals with reciprocal prosocial behaviour. However, research on the social behaviour of rats is concentrated in laboratory settings and very little is known about the social behaviour of free-living rats. Rats arouse strong prejudice in humans and are considered aggressive. Despite a long history of coexistence, there are still strong conflicts between humans and rats. In this study, I used camera trap data to investigate the types of social behaviour in free-living rats and the time allocation of different behaviours. I investigated how the rats' behaviour is divided into socially neutral or positive and negative behaviour in relation to the total time spent on the behaviour. I also investigated the types of social behaviour that occur when rats approach each other and the frequencies of these different behavioural models. For the behavioural analyses, I used data-driven ethograms that I made and the behavioural analysis software BORIS. I found that the majority (over 96.2 %) of the social behaviour of the free-living rats in my study population was neutral or positive behaviour as measured by the duration of the behaviour categories. I also found that the most significant proportion of social behavioural models in rats was socially neutral or positive. Agonistic behavioural models were rare and occurred mostly between adults. In contrast, rats exhibited a moderate amount of prosocial behaviour, particularly in the form of food sharing and muzzle touching. My study brings new information to the limited previous research on the behaviour of free-living rats. The results suggest that most of the social behaviour in free-living rats would be neutral or positive behaviour, and agonistic behaviour in rats would be relatively rare. To the best of my knowledge, this work is the first study to analyse the social behaviour of free-living rats from camera trap data. Objective research data on the social behaviour of rats may mitigate prejudice against rats and attitudes towards rats may become more positive. This can mitigate conflict between humans and rats and promote peaceful coexistence. This work can be used as a pilot for future studies. The information this work provides can also be used, for example, to educate people about their attitudes towards rats.
  • Jäntti, Tuomas (2023)
    The external nutrient load of the Archipelago Sea weakens the state of the sea. Gypsum is applied to fields in the catchment area because it has been found to reduce phosphorus leaching from fields. Gypsum treatment of fields is organised by the the Centre for Economic Development, Transport and the Environment (ELY) of Southwest Finland through "KIPSI-hanke" (GYPSUM Project). Participation in gypsum treatment is free of charge for farmers. To achieve water protection objectives, more farmers in the area should participate in gypsum treatment. I study what factors that influence the participation of farmers in the catchment area in gypsum treatment of their fields. The underlying motivation for this study was to promote gypsum treatment of fields and improve the state of the Archipelago Sea. My research is a qualitative interview study. My interview data consists of nine farmer interviews. In my analysis, I also use scientific and social research literature and other sources. I compare the interviewees' perceptions of the effects of gypsum with the information presented in the natural science literature. On the other hand, I will unpack social phenomena and events that affect farmers' perception of gypsum treatment and their activities. According to my observations, farmers' participation is influenced by knowledge about gypsum treatment, or the lack of thereof. Also, farmers' perceptions of the effects of gypsum treatment affect their participation decisions. Yield and yield impacts are at the heart when a farmer decides on participation in gypsum treatment, even though gypsum treatment is free of charge for the farmer. Based on my results, farmers' participation in gypsum treatment of their fields is promoted by available solid, experience based, research data on effects of gypsum, especially on the effects on yields. Agricultural advice also proved to be a factor influencing participation in gypsum treatment. At least some farmers would receive information on gypsum treatment of fields as part of other agricultural advice. According to my research, agricultural advisors' knowledge of the effects of gypsum was variable and partly incomplete. According to my research, expert and active gypsum advice would promote participation in gypsum treatment. The historical tensions between rural and urban areas, as well as tension between the implementors and targets of environmental projects, have an impact on farmers' attitudes towards the KIPSI-hanke. From the point of view of the rural population, unjust and top-down environmental projects will also hamper future projects if the design of projects does not consider the involvement of the rural population as participants of the projects, not only as targets of measures.
  • Ruotsalainen, Elise (2024)
    In Sápmi, the traditional homelands of the Indigenous Sámi, climate change and green transition have created together a double burden for the Arctic ecosystems and the Sámi. As an effort to mitigate the climate change, the transition towards green sources of energy and mineral intensive technologies have created conflicting interests for land use in Sápmi, as extractivist activities have been located for instance to their traditional reindeer pasture lands. This thesis focuses on representations of Western edited media about green transition related extractive activities in Sámi context. Construction and operation of Fosen wind farm in Norway and expansion of mineral extraction in Giron, Sweden, act as examples of such activities. The research question is: what issues the Western edited media represents when discussing extractive activities regarding green transition, in the Sámi context? The thesis derives from the identified research gap of the matter, as this kind of research regarding the Sámi has not been conducted before. The thesis uses inductive thematic analysis to identify issues the news media articles represent regarding cases of Fosen and Giron. The research data consists of 35 news articles, published between 2016-2024. The applicable case examples were identified in data collection as illustrating the green transition related extractivist activities having significant impact on the Sámi communities. Through thematic analysis, six themes were identified and further analyzed through the framework of Indigenous Environmental Justice (IEJ). The analysis shows that the media represents green transition related extractivism in both negative- and positive lights. Whereas wind power and mineral extraction are represented as essential drivers for sustainable future, they also have negative impacts for the ecosystems in Sápmi and to the Sámi culture and livelihoods. The activities are represented as causing disputes between the Sámi and other stakeholders, due to conflicting interests of land-use and the Sámi’s experiences of violation of rights and unfairness. The activities taking place in Sápmi are often represented as continuation of Western colonialism, planned without sufficient consultation and involvement of the local Sámi communities. Yet, the Sámi are represented as solution-oriented, aiming to actively protect their traditional lands. The struggle of the Sámi with Western extractivism was also represented as part of wider global struggle of Indigenous people, whose traditional homelands these activities have penetrated to. These issues identified support the notions of IEJ about Western legal systems as failing to resolve environmental injustices and current extractivist activities as a form of on-going colonialism. The analysis also shows that the provision of multiple ontologies and legal orders, intergenerational- and other-than-human justice and acknowledgement of the distinct legal status of Indigenous peoples are needed, as argued by IEJ scholars. In the future, as the extractivist activities in the Arctic are expected to intensify, there is an urgent need for critical assessment of the manner the green transition is currently carried out in Western societies, participatory evaluation of impacts of the extractive projects and emphasis on aspects of fairness.
  • Kiviluoma, Juha (2003)
    Työn tavoitteena oli muodostaa kokonaiskuva sähköjärjestelmän sisäisistä ja ulkoisista vuorovaikutussuhteista. Sähköntuotantoa tarkasteltiin ympäristöönsä kytkeytyvänä systeeminä tieteidenvälisestä näkökulmasta. Tätä tarkoitusta varten rakennettiin menetelmä laajan kokonaisuuden hahmottamiseksi ja sovellettiin sitä sähköntuotannon alalle. Menetelmäperustuu grounded theoryyn ja systeemiajatteluun: Aineisto kerättiin ja luokiteltiin grounded theorya soveltaen. Systeemiajattelua käytettiin aineiston analyysissä ja aihealuetta kuvaavien mallien luomisessa. Aineisto kerättiin haastattelemalla sähköntuotannon ja -kulutuksen asiantuntijoita. Sen pohjalta rakennettiin useita alamalleja kuvaamaan sähköntuotantokompleksin osajärjestelmiä sekä näitä yhdistävä päämalli. Alamallien aihealueiksi muodostuivat tekninen sähköjärjestelmä, sähköjärjestelmän talous, sähkönsäästö, yhteiskunnallinen vaikuttaminen, ympäristö sekä tuotantorakenteen uusiminen. Lisäksi työssä esitettiin aineistosta nousseita kriteerejä hyvälle sähköjärjestelmälle ja sähköjärjestelmään liittyviä toimijoita. Mallien yhteydessä käsiteltiin myöseri tuotantomuotojen ominaisuuksia. Työn tuloksia tarkasteltiin kriittisesti kirjallisuuden valossa ja arvioitiin luotujen mallien sovellettavuutta. Malleja on mahdollista hyödyntää tieteenalarajoja ylittävän energiatutkimuksen jäsentäjänä sekä arvioitaessa kestävämmän energiapolitiikan edellytyksiä järjestelmätasolla.
  • Mäkilouko, Miia (2019)
    Antibioottien ylenmääräinen käyttö ja uusien antibioottien puute ovat johtaneet antibiooteille vastustuskykyisten bakteerien aiheuttamien sairauksien yleistymiseen. Lisääntynyt antibioottiresistenssi on maailmanlaajuinen ongelma, joka uhkaa globaalia terveyttä ja ruoan turvallisuutta. Staphylococcus aureus ja Pseudomonas aeruginosa ovat sairaaloissa yleisiä infektioita aiheuttavia mikrobeja. Metisilliiniresistentti S. aureus eli MRSA pystyy aiheuttamaan infektioita lähes missä tahansa kudoksessa. P. aeruginosa on akvaattisissa ympäristöissä yleinen mikrobi, joka on usein luonnollisesti vastustuskykyinen useille antibiooteille. Lisäksi molemmat bakteerit kykenevät biofilmin muodostamiseen, joka heikentää entisestään antibioottien tehoa. Jätevesien puhdistamoilla on yleisesti havaittu esiintyvän S. aureus- ja P. aeruginosa -bakteereita, mutta suurin osa tutkimuksista on keskittynyt tulevan ja käsitellyn jäteveden mikrobimääriiin ja/tai aktiivilietteeseen. Jätevesillä on ehdotettu olevan merkittävä rooli antibioottiresistenssin kehittymisessä ja leviämisesessä. Jätevesien puhdistamot keräävät yhteen kotitalouksien, teollisuuden ja sairaaloiden jätevesiä ja luovat niiden mukana tulleille mikrobeille tilaisuuden sekoittua ja vaihtaa geneettistä materiaalia, kuten antibioottiresistenssigeenejä. Toisaalta ne ovat myös paikkoja, joissa antibioottiresistenssejä bakteereita vastaan voi kehittyä uusia antimikrobiaalisia aineita tuottavia mikrobeja. Pro Gradu tutkielmani on osa TWIN-A konsortion hanketta ”uusia antibiootteja jätteistä”, jonka päämääränä on uusien antimikrobiaalisten aineiden löytäminen jätevesistä ja teollisista komposteista. Pro Gradu tutkielmassani kartoitan S. aureus ja P. aeruginosa bakteerien esiintymistä jätevedenpuhdistamoiden eri prosesseissa reaaliaika-PCR:n perusteella. Tutkimukseni tuloksia voidaan käyttää hankkeen jatkotutkimuksissa sekä jätevedenpuhdistamoiden riskinarvioinnissa. S. aureus -bakteeria kartoitettiin metisilliiniresistenttiä koodaavan mecA-geenin avulla ja S. aureus -bakteerille spesifistä nukleaasia koodaavan nucA-geenien avulla. P. aeruginosa -bakteeria kartoitettiin gyrB- ja ecfX-geenien avulla. Lisäksi näiden geenien kartoituksessa oli apuna koettimet.GyrB- ja ecfX-geeneissä olevilla muutoksilla on havaittu olevan vaikutusta bakteerin virulenssikykyyn. Kartoitettuja geenejä havaittiin esiintyvän yleisesti jätevedenpuhdistamojen prosesseissa, mutta pitoisuudet olivat alle määritysrajan. MecA-geenin esiintymisfrekvenssi oli nucA-geeniä suurempi, joka voi johtua siitä, että mecA-geeniä esiintyy myös muilla stafylokokki-lajeilla, kun nucA-geeni on spesifinen S. aureus-lajille. Myös gyrB-geenin esiintymisfrekvenssi oli korkeampi kuin ecfX-geenin, joka selittynee gyrB-geenin heikommalla lajispesifisyydellä. Kaikkien kartoitettujen geenien esiintyminen oli painottunut välppeeseen, aktiivilietteisiin, raakalietteeseen, palautuslietteeseen ja tiivistämölietteisiin. Välppeen läheinen kontakti ihmisen kanssa ja suuri orgaanisen aineen määrä selittävät korkeita esiintymisfrekvenssejä tässä prosessissa. Mikrobeille otolliset olot ja mikrobien sorptio aktiivilietteeseen selittävät kartoitettujen bakteerien yleisyyden aktiivilietteissä ja sen jälkeisissä prosesseissa mädättämölle asti. Mädättämöllä anaerobinen mädätys johtaa kartoitettujen geenien vähenemiseen. Mädättämöliete käsitellään Suomessa pääosin kompostoimalla, jossa lämpötilan nousu tappaa suurimman osan patogeeneistä. Kartoitettujen geenien poistuminen jätevedenpuhdistusprosesseista aktiivilietteen mukana, selittää myös geenien matalamman esiintymisfrekvenssin käsitellyssä jätevedessä verrattuna tulevaan jäteveteen. Tulosten perusteella kartoitetut bakteerit ja niiden antibioottiresistenssigeenit eivät aiheuta riskiä ympäristölle. Vaikka havaitut pitoisuudet olivat alle määritysrajan on kuitenkin hyvä pitää mielessä, että ympäristötekijöistä riippuen antibioottiresistenssigeenit ja bakteerit voivat kertyä ympäristöön ja sopivissa olosuhteissa lisääntyä ekspotentiaalisesti. Multiresistenssien bakteerien on myös havaittu selviävän paremmin jätevedenpuhdistusprosesseista, jonka vuoksi tilannetta olisi hyvä seurata tulevaisuudessa.
  • Kiuru, Jukka (2020)
    Tiivistelmä – Referat – Abstract Ikääntymiseen liittyvien biologisten ilmiöiden, kuten rappeutumisen ja sairauksien tutkiminen on ensiarvoisen tärkeää, koska näistä ilmiöistä on haittaa niin yksilölle kuin koko yhteiskunnalle. Erityisen kiinnostavaa on, jos sairaudet ja rappeutuminen pystytäisiin parantamaan tai niiden haitallisia vaikutuksia voitaisiin vähentää. Ikääntymiseen voidaan yhdistää monia vakavia sairauksia kuten hermostorappeumasairaudet, syöpä ja diabetes. Hermostorappeumasairauksille on tunnusomaista proteiiniaggregaattien muodostuminen. SBC003-yhdiste on luonnon yrtistä eristetty molekyyli, joka on potentiaalinen lääke hermostorappeumasairauksiin. Aikaisemmin tehdyt tutkimukset hermostorappeuma sairausmalleilla osoittavat yhdisteellä olevan voimakas konsentraatiosta riippuvainen hermosoluja suojaava vaikutus. Malliorganismit ovat tärkeitä, koska niillä pystytään testaamaan potentiaalisten molekyylien vaikutusta vahingoittamatta kuitenkaan ihmistä. Hiivasta on tullut mielenkiintoinen malliorganismi ikääntymisen ja ikääntymiseen liittyvien sairauksien tutkimuksessa. Monet biologiset prosessit ja aineenvaihduntareitit ovat konservoituneet hiivasta aina ihmiseen asti. Lisäksi geneettiset muutokset on helppo jäljittää. Ikääntymisen tutkimisessa leivinhiiva (Saccharomyces cerevisiae) on osoittautunut erinomaiseksi malliorganismiksi. Hiivan kronologinen ikääntyminen on osoittautunut myös hyväksi menetelmäksi tutkittaessa solujen post-mitoottista ikääntymistä. Hiivasoluissa pystytään havaitsemaan nopeasti, edullisesti ja helposti proteiiniaggregaattien aiheuttamat haitalliset vaikutukset. Käytettäessä hiivaa malliorganismina tutkimuksessa pystytään luomaan suora linkki geenien ja kemiallisten yhdisteiden välille. Hiivalla tehdyt solujen sairausmekanismien tutkimukset ovat vertailukelpoisia ihmisten sairauksien kanssa. Nämä seikat tekevät hiivasta kiinnostavan malliorganismin myös hermostorappeumasairauksien lääkeainetutkimuksessa. Työn tavoitteena oli selvittää, voidaanko hiivasairausmalleja käyttää SBC003-yhdisteen vaikutuksien arvioimiseen hermostorappeumasairauksissa, ja onko tutkittavalla yhdisteellä pelastava vaikutus haitallisia aggregaatteja muodostavia proteiineja vastaan hiivasairausmalleissa. Lisäksi tarkoitus oli tutkia, onko SBC003-yhdisteellä vaikutusta ikääntymisestä aiheutuvaan elinvoimaisuuden heikkenemiseen hiivasoluissa. Tutkimuksissa käytettiin seuraavia menetelmiä ja koejärjestelyjä 1. spottitestejä ja 2. elinkiertotestejä ravistelukasvatuksina, joiden elinvoimaisuutta mitattiin näytteillä, joita puolestaan analysoitiin edelleen Bioscreen-kasvatuksia apuna käyttäen. Spottitestien ja elinkiertotestien tuloksien mukaan SBC003-yhdisteellä saattaa olla pelastava vaikutus haitallisia FUS-aggregaatteja vastaan hiivan ihmisen sairausmallin soluissa. Tutkimustulosten mukaan SBC003-yhdisteellä on solun elinvoimaisuutta parantava vaikutus soluihin, jotka rappeutuvat ikääntymisen seurauksena. Saatujen tulosten varmentamiseksi pitäisi elinkierotestit ja spottitestit toistaa ja lisäksi tehdä sekä geneettisiä että epigeneettisiä tutkimuksia.