Logo: to the web site of Uppsala University

uu.sePublications from Uppsala University
Change search
Refine search result
1234567 51 - 100 of 1218
CiteExportLink to result list
Permanent link
Cite
Citation style
  • apa
  • ieee
  • modern-language-association
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf
Rows per page
  • 5
  • 10
  • 20
  • 50
  • 100
  • 250
Sort
  • Standard (Relevance)
  • Author A-Ö
  • Author Ö-A
  • Title A-Ö
  • Title Ö-A
  • Publication type A-Ö
  • Publication type Ö-A
  • Issued (Oldest first)
  • Issued (Newest first)
  • Created (Oldest first)
  • Created (Newest first)
  • Last updated (Oldest first)
  • Last updated (Newest first)
  • Disputation date (earliest first)
  • Disputation date (latest first)
  • Standard (Relevance)
  • Author A-Ö
  • Author Ö-A
  • Title A-Ö
  • Title Ö-A
  • Publication type A-Ö
  • Publication type Ö-A
  • Issued (Oldest first)
  • Issued (Newest first)
  • Created (Oldest first)
  • Created (Newest first)
  • Last updated (Oldest first)
  • Last updated (Newest first)
  • Disputation date (earliest first)
  • Disputation date (latest first)
Select
The maximal number of hits you can export is 250. When you want to export more records please use the Create feeds function.
  • 51.
    Andersson, Jonatan
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    FÖRUTSÄTTNINGAR FÖR VILDA POLLINATÖRER: JÄMFÖRELSE MELLAN EN NATURSKOG OCH EN PRODUKTIONSSKOG2020Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Abstract [sv]

    Pollinering är en viktig ekosystemtjänst, där insekter är några av de viktigaste pollinatörerna. Under de senaste åren har mängden av pollinatörer minskat på grund av olika faktorer somklimatförändring och minskning av både antal habitat och mängd arealyta i habitat. Några avde habitat som är viktiga för pollinatörer finns i skogslandskapet, exempel glesare skogar,betesmarker i skogen, hyggen samt häll- och alvarmarker.

    Denna studie tittar närmare på två olika skogsområden belägna på Gotland. Ett område utgören produktionsskog (finns i Träkumla socken) och ett en naturskog (Ojnareskogen i Bunge socken). Naturskogen har en större totalyta av lämpliga habitat än produktionsskogen i Träkumla. Det fanns typer av habitat som var både lika och olika i och inom i respektiveområde där olika arter av pollinatörer kan gynnas. I naturskogen var den i areal största habitattypen glesare tallskog medan den minsta var sandmark. För produktionsskogen var den i areal största habitattypen hyggen och den minsta var vägkanter. En viktig faktor sompåverkar möjligheter för hur olika arter av pollinatörer gynnas eller inte är skötseln av skogsområdena. Olika skötselmetoder påverkar också på olika sätt.

    Studien visar vikten av att redan i planering och vidare skötsel av skogsområden ta hänsyn till och gynna pollinatörer. Förutsättningarna i en produktionsskog respektive naturskog är olika när det gäller såväl påverkan av pollinatörer som möjligheterna för habitatplanläggning.

    Download full text (pdf)
    Examensarbete
  • 52.
    Andersson, Karin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Mosquito repellency of essential oils derived from Lao plants2010Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Abstract [en]

    Essential oils or extracts obtained from four plant species growing in Laos were tested foranti-mosquito activity in the field. Solutions of alcohol or acetone containing differentconcentrations of essential oil; 5, 10 or 19 v/v %, were prepared and tested. Mosquitoes werecollected by human baits wearing oil impregnated mosquito nets around their shanks. Thenumber of attracted mosquitoes was compared to the number attracted to positive andnegative controls, i.e., human baits wearing nets impregnated with 19 % N,N-diethyl-metatoluamide (DEET, NN-diethyl-methyl-benzamide) or untreated nets, respectively. A one wayANOVA analysis was conducted on the log-transformed total number of mosquitoes collectedusing each treatment. The statistical analysis showed that significantly fewer mosquitoes wereattracted to the treatment harbouring 19 % oil of Scutellaria angustifolia than to the negativecontrol. No significant decrease in attracted mosquitoes could be detected for the treatmentscontaining oil from the plant Litsea cubeba. However, a tendency of repellency was indicated. Therefore, an investigation running over a longer period of time is desired for Litsea cubeba. No conclusions could be drawn for the remaining two species; Tagetes patula and Citrussinensis.

    Download full text (pdf)
    FULLTEXT01
  • 53.
    Andersson, Karl
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Beskow, Isa
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Moshiri, Pinja
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Niemi, Victoria
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Nygren, Elin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Åström, Stina
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Simplified Quality Control of Coating Efficiency for a Cancer Monitoring Assay2022Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Abstract [en]

    The aim of this report is to present a basis for development of an alternative quality control method for a part of the cancer monitoring technique DiviTum® by Biovica. The methods recommended are direct implementation of bromodeoxyuridine (BrdUTP), as well as biotin and digoxigenin systems. All methods show great potential since they do not require acquisition of new instruments or a change of microtiter plate. Further, all have specificity for the poly-A templates, include fewer steps, and are relatively cheap which aligns with the delimitations of the project. Additional methods are discussed to gain an overview of possible quality controls. However, these methods do not align with all the delimitations and are thus not recommended. An ethical analysis was conducted in which issues related to the suggested quality control methods were discussed. These were for example the potential for reusability of materials, and some ethical considerations that arise when handling biological samples from patients or donors. The results obtained are based on a literature study as well as a complementary interview. 

    Download full text (pdf)
    Simplified Quality Control of Coating Efficiency for a Cancer Monitoring Assay
  • 54.
    Andersson, Klara
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Characterization of nsP-specific nanobodies targeting Chikungunya and Semliki Forest Virus2020Independent thesis Advanced level (professional degree), 20 credits / 30 HE creditsStudent thesis
    Abstract [en]

    Viral infections are constantly increasing and impose a large threat to the public health. Alphaviruses are responsible for several animal and human diseases and have a large medical importance with few treatments available today. Alphaviruses are small, spherical single stranded RNA viruses, and are most often transmitted by mosquito vectors. Alphaviruses contains a domain of nonstructural proteins that compose the replication machinery. The domain is crucial for viral replication to occur and is therefore an interesting target for antiviral therapy. With the focus on Chikungunya and Semliki Forest Virus this work investigates the events in the cells on molecular level during infections. To do this a panel of Camelid derived single domain antibodies are developed to target the nonstructural proteins of Chikungunya and Semliki Forest Virus. Binding of the produced nanobodies to the viral proteins was investigated by biochemical methods including immunoprecipitations, western blot, and ELISA. Cell lines that express nsP-specific nanobodies in the cytosol were employed for infection- and plaque assays with Semliki Forest Virus in order to determine the antiviral potential of the new nanobodies. Three of the nanobodies proved to bind two different nonstructural proteins of the viruses, providing opportunities for further investigations and a possible use of these nanobodies to identify viral vulnerabilities that could be exploited for antiviral intervention.

    Download full text (pdf)
    fulltext
  • 55.
    Andersson, Klara
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Gustafsson, Wiktor
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Lindeberg, Fredrik
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Luckey, Tobias
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Ramström, Elin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Count Your Microbial Enemies Faster: Recommending the Best Bioburden Test for High-Fat Parenteral Nutrition2017Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Download full text (pdf)
    fulltext
  • 56.
    Andersson, Linn
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology. Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Exploring the post-transcriptional regulation of flagellar genes by small RNAs and RNA-binding proteins in Salmonella enterica serovar Typhimurium2024Independent thesis Advanced level (degree of Master (Two Years)), 20 credits / 30 HE creditsStudent thesis
    Download full text (pdf)
    fulltext
    Download full text (pdf)
    fulltext
  • 57.
    Andersson, Louise
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Solander, Klara
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Brokmar, Linde
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Bylander, Karl
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Pölder, Magdalena
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Henriksson, Nellie
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Sekvensbaserad artbestämning av veterinärmedicinska prover2021Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Abstract [en]

    In this project a PCR primer library was created to facilitate the amplification of DNA of parasites that are morphologically indistinguishable. The aim of this paper is to present a PCR primer library which is applicable to many of the species of interest, as well as creating a protocol for handling samples that contain more than one unknown species. The results presented in this rapport were achieved by means of literature studies as well as in silico primer design and validation. The literature studies focused mainly on finding pre-existing primers, whilst the phylogenetic studies retrieved information necessary for primer design. Each primer, whether achieved through literature or in silico assembly, was validated according to certain predefined criterion. The finalized PCR primer library contains 96 primers covering a total of 789 parasites. Beyond this, multiple primers that did not meet our criterion are presented. This due to promising results from the studies in which these were used. An ethical analysis of treatment against parasites was conducted. Finally, how to use the library is discussed containing relevant methods that could be helpful to further develop a detailed protocol. Methods such as Sanger sequencing, Next-generation sequencing and gel electrophoresis are in focus.

    Download full text (pdf)
    fulltext
    Download (zip)
    bilaga
  • 58.
    Andersson, Moa
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Edman, Linus
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Kredell, Lova
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Sandqvist, Tilda
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Eliasson, Johan
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Product sieving of monoclonal antibodies in cell culture processes: An investigation of product retention in perfusion cell cultures2024Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Download full text (pdf)
    fulltext
  • 59.
    Andersson, Pontus
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Comparison of Lectins and their suitability in Lectin Affinity Chromatography for isolation of Glycoproteins2020Independent thesis Advanced level (professional degree), 20 credits / 30 HE creditsStudent thesis
    Abstract [en]

    Virtually all extracellular proteins in humans are glycoproteins and likewise are many biopharmaceuticals. The glycosylation is directly correlated to biological function and stability of these proteins. The ability to isolate glycoproteins is thus of great importance in many applications. The most common isolation method for glycoproteins is affinity chromatography using lectins, a ubiquitous and versatile group of carbohydrate-binding proteins. The lectin Concanavalin A (ConA) has long been used for this purpose but suffers from undesired leakage into the eluate, causing an inquiry of alternative chromatography ligands or optimization of the ConA resin.In this study, a total of 20 different lectins, including ConA, were evaluated and compared in terms of suitability as ligands in affinity chromatography for glycoprotein isolation. The lectins’ binding to glycoproteins were studied, mainly through microtiter plate binding assays using a monoclonal IgG1 antibody and Conalbumin (Ovotransferrin). Further, sugar-specificities and potential eluting sugars for the lectins were examined through inhibition with eight different carbohydrates. Additionally, the glycoprotein binding and leakage of ConA columns were examined, and a potential leakagereducing treatment of ConA resin evaluated.ConA was found to be superior in binding to the investigated glycoproteins but exhibited a limited binding when immobilized to an agarose resin. This discrepancy is likely a consequence of structurally hidden glycans on the used glycoproteins and requirements of long residence time when used in a chromatographic setting. Binding competition with several sugars were investigated with a similar microtiter plate binding assay. This method displayed potential to predict the behaviour of sugars and their suitability as eluting agents in a chromatography column. The best eluting sugar for ConA was showed to be methylmannoside, ideally in combination with methylglucoside. Lastly, evaluation of ConA columns with a crosslinking glutaraldehyde-treatment showed that the ConA ligand leakage may be significantly reduced, although further studies and optimizations are needed.This study thus presents a repertoire of lectins and their differences in terms of glycoprotein-binding and sugar-specificity, as well as evaluations of ConA columns’ efficiency and potential leakage-prevention.

    Download full text (pdf)
    Comparison of Lectins and their suitability in Lectin Affinity Chromatography for isolation of Glycoproteins
  • 60.
    Andersson, Pontus
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Edenståhl, Selma
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Eriksson, Elin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Hävermark, Tora
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Nielsen, Jonas
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Pihlblad, Alma
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Framtidens expressionssystem för svåruttryckta proteiner: Utvärdering av tolv expressionssystem2018Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Abstract [en]

    Today, recombinant expression of proteins is used for a variety of purposes. One of these is the production of allergens, which are vital components in allergy diagnostics. However, traditional expression systems such as ​Escherichia coli​ and ​Pichia pastoris​ might not have the capacity to express all proteins of interest. Thermo Fisher, which is a leading producer of allergy tests, has requested an evaluation of different microorganisms and their capacity for heterologous protein expression in order to expand their existing toolbox of expression systems. This summary was made through a literature study, where twelve organisms were evaluated. Six eukaryotic and six prokaryotic expression systems are compared based on their ability to properly glycosylate protein, need for specific culture conditions, safety, protease activity, duration, protein yield and protein solubility. The prokaryotic systems – Corynebacterium glutamicum​ , ​Lactococcus lactis​ , ​Pseudomonas fluorescens​ , Pseudoalteromonas haloplanktis​ , ​Ralstonia eutropha​ and ​Streptomyces lividans​ – are characterized by being easy to cultivate, operating in different temperature ranges and providing relatively high yields of recombinant protein. The eukaryotic systems – ​Aspergillus fungi, the green algae ​Chlamydomonas reinhardtii​ , the yeast ​Hansenula polymorpha​ , the parasite ​Leishmania tarentolae​ , the moss ​Physcomitrella patens​ and suspension-based plant cells – all have very different morphology and properties. In comparison with the prokaryotic systems, it can be concluded that they are generally better at folding and providing the correct glycosylation patterns for mammalian and plant proteins. However, they require more time and effort to establish a competent cell line. Furthermore, the resulting protein yield is usually less than for the prokaryotic systems. The conclusion can be drawn that no expression system is perfect. The solution is a toolbox, containing various expression systems and vector systems, providing the basis for successful expression of all kinds of complex proteins. Based on the evaluation of expression systems in this review, such toolbox can be obtained.

    Download full text (pdf)
    fulltext
  • 61.
    Andersson Schönn, Mikael
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Borg, Malin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Bunpuckdee, Benja
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Gioeli, Erik
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Holdar, Karl
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Odlingsmedium: Att ersätta fetalt kalvserum med ett kemiskt definierat substitut2014Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Abstract [sv]

    SammanfattningProjektgrupp 14-X5 avser med denna rapport att ge avdelningen Bioreagens på Thermo Fisher Scientific ett underlag för att på sikt kunna byta ut fetalt kalvserum (FCS) mot ett kemiskt definierat suplement vid odling av mushybridomceller för produktion av monoklonala antikroppar. Thermo Fisher Scientific är ett världsomspännande bioteknikföretag som utvecklar blodtestsystem som stöd för klinisk diagnos och uppföljning av allergier, astma och autoimmuna sjukdomar.

    Fetalt kalvserum är en tillsats i många odlingsmedier som ofta är nödvändig för att cellerna ska växa. Det finns dock många problem med FCS. Det är en biprodukt av köttindustrin och produceras på ett etiskt tveksamt sätt, variation mellan olika batcher förekommer och då det är en animalisk produkt finns en risk för kontamination av bland annat bakterier, virus och prioner. Av dessa anledningar vill man byta ut FCS mot ett kemiskt definierat, serumfritt supplement. Vi har utrett vilka ämnen eller grupper av ämnen som har störst potential att vara bra substitut för FCS, samt rangordnat dessa. Genom våra artikelstudier har vi kommit fram till att man kan dela in alternativen i tre grupper: lipider, tillväxtfaktorer och små biomolekyler. Bland lipiderna är det linol- och oljesyra som i flera artiklar har visats ha god effekt på både celltillväxt och antikroppsproduktion. Kolesterol har även visats ha positiva effekter. Tillväxtfaktorerna som har valts är epidermal growth factor (EGF), fibroblast growth factor (FGF), interleukin-2 (IL-2) och interleukin-6 (IL-6). Dessa har främst en positiv effekt på cellernas antikroppsproduktion. Bland de små biomolekyler som har valts ut finns en mängd olika ämnen som på olika sätt kan bidra till att skapa en bra miljö för hybridomceller i ett serumfritt medium.

    För att få en klarare bild av de olika förslagen har de jämförts. Vi menar att de ämnen som är komponenter i det basala mediet Ham F-12 bör prioriteras då det används som standard vid odling av en bred grupp av celltyper. Denna grupp inkluderar linolsyra, putrescin, tymidin, hypoxantin samt liponsyra. Därefter anser vi att återstående lipider (oljesyra och kolesterol) ska prioriteras då de har visats kunna öka både hybridomcellers tillväxt och antikroppsproduktion i ett serumfritt medium. Tillväxtfaktorer, som främst ökar antikroppsproduktionen hos cellerna  och i vissa fall även deras livslängd placerar vi på tredje plats i vår rangordning. Övriga ämnen i gruppen “Små biomolekyler” (paraaminobensoesyra och glutation) prioriterar vi sist då de inte är komponenter i Ham F-12 och de inte explicit visats påverka celltillväxten ellerantikroppsproduktionen, men har identifierats i det serumfria mediet IBL media III.

    Download full text (pdf)
    Slutrapport_14-X5
  • 62.
    Andersson, Staffan
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Physics, Department of Physics and Astronomy, Physics Didactics.
    Andersson Chronholm, Jannika
    Uppsala University, Disciplinary Domain of Science and Technology, Physics, Department of Physics and Astronomy, Physics Didactics.
    Jakobsson, Tobias
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Larsson, Johan
    Uppsala University, Disciplinary Domain of Science and Technology, Physics, Department of Physics and Astronomy, Physics Didactics.
    Sjöström, Håkan
    Uppsala University, Disciplinary Domain of Science and Technology, Earth Sciences, Department of Earth Sciences, Solid Earth Geology.
    Koyi, Hemin
    Uppsala University, Disciplinary Domain of Science and Technology, Earth Sciences, Department of Earth Sciences, Solid Earth Geology.
    Eriksson, Anders
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Materials Chemistry, Structural Chemistry.
    Elmgren, Maja
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Physical and Analytical Chemistry.
    Rangordningsövningar i naturvetenskap2011Book (Other academic)
    Download full text (pdf)
    fulltext
  • 63.
    Andersson, Staffan
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Physics, Department of Physics and Astronomy, Physics Didactics.
    Andersson Chronholm, Jannika
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - Ångström, Physical Chemistry. Uppsala University, Disciplinary Domain of Science and Technology, Physics, Department of Physics and Astronomy, Physics Didactics.
    Larsson, Johan
    Uppsala University, Disciplinary Domain of Science and Technology, Physics, Department of Physics and Astronomy, Physics Didactics.
    Elmgren, Maja
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry - Ångström, Physical Chemistry.
    Jacobsson, Tobias
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Jämföra och rangordna: studentaktiv undervisning2012In: Universitetspedagogisk utveckling och kvalitet: i praktiken!, 2012Conference paper (Other academic)
  • 64.
    Andersson Svärd, Agnes
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Peripheral blood cell HLA class II gene expression in children at genetic risk for type 1 diabetes and coeliac disease2015Independent thesis Advanced level (professional degree), 20 credits / 30 HE creditsStudent thesis
    Download full text (pdf)
    AAS_2015
  • 65.
    Andersson Svärd, Agnes
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Lundgren, Christian
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Lindfors, Viktor
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Hunde, Sara
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Hellsten, Sandra
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Mul, Sebastiaan
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Snabbtest för utredning av anafylaxi2012Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Download full text (pdf)
    Snabbtest för utredning av anafylaxi
  • 66.
    Andreasen, Katarina
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Genetiska fingeravtryck löser gåtan med Linnés växter?2018In: Fauna och flora, ISSN 0014-8903, Vol. 113, no 2, p. 2-5Article in journal (Other (popular science, discussion, etc.))
  • 67. Andres, Sonke
    et al.
    Skoglund, Anna
    Nilsson, Christina
    Krabbe, Margareta
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Björkholm, Britta
    Engstrand, Lars
    Type I Restriction-Modification Loci Reveal High Allelic Diversity in Clinical Helicobacter pylori Isolates2010In: Helicobacter, ISSN 1083-4389, E-ISSN 1523-5378, Vol. 15, no 2, p. 114-125Article in journal (Refereed)
    Abstract [en]

    Background: A remarkable variety of restriction-modification (R-M) systems is found in Helicobacter pylori. Since they encompass a large portion of the strain-specific H. pylori genes and therefore contribute to genetic variability, they are suggested to have an impact on disease outcome. Type I R-M systems comprise three different subunits and are the most complex of the three types of R-M systems. Aims: We investigated the genetic diversity and distribution of type I R-M systems in clinical isolates of H. pylori. Material and methods: Sixty-one H. pylori isolates from a Swedish hospital based case-control study and 6 H. pylori isolates of a Swedish population-based study were analyzed using polymerase chain reaction for the presence of the three R-M systems' subunits. Representative gene variants were sequenced. Results: Although the hsdM and hsdR genes appeared conserved in our clinical H. pylori isolates, the sequences of the hsdS loci were highly variable. Despite their sequence diversity, the genes per se were present at high frequencies. We identified a number of novel allelic hsdS variants, which are distinct from corresponding hsdS loci in the sequenced H. pylori strains 26695, J99 and HPAG1. In analyses of paired H. pylori isolates, obtained from the same individuals with a 4-year interval, we observed genetic modifications of hsdS genes in patients with atrophic gastric mucosa. Discussion: We propose that the genetic variability of hsdS genes in a bacterial population will give rise to new specificities of these enzymes, which might lead to adaptation to an ever-changing gastric environment.

  • 68.
    Anja, Håkansson
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Therese, Dalén
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Josefine, Gröblacher
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    William, Göransson
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Jonathan, Jaksties
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Nathalie, Ortstad
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Pauline, Lenkeit Gesser
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Hello P. pastoris!: The cultivatin and expression of proteins in the yeast Pichia pastoris2022Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Abstract [en]

    Producing pharmaceuticals in Escherichia coli inevitably comes with an extensive purification process. This is because many of the native proteins of E. coli are immunogenic to humans, especially the heat and pH resistant endotoxins located in the membrane of E. coli. These native proteins drive up the cost of the purification, which led to a request from the biopharmaceutical company Affibody AB. They want a review on the possibilities of producing their unique Affibody®-molecules in a new, less problematic host cell. Based on a previous bachelor project, Affibody AB chose Pichia pastoris as the candidate. P. pastoris is a methylotrophic yeast that is increasing in use when it comes to producing pharmaceuticals. In this review, multiple ways of utilizing P. pastoris are presented. The process proposals are based on 4 different promoters, pAOX1, pAOX2, pFLD1 and the pGAP. The AOX1- and AOX2-promoters and the FLD1-promoter are inducible promoters that require an inducer-molecule. An inducible promoter presents the best control of the process. The GAP-promoter is a constitutive promoter, meaning that the gene is expressed continuously. A constitutive promoter provides a process which requires fewer steps and ingredients. If the Affibody®-molecules were to be produced with P. pastoris as the host cell, the products would contain less immunogenic substances. Further, P. pastoris is also a very effective option when it comes to producing protein extracellularly. This would ultimately lead to a purification process that requires less resources.

    Download full text (pdf)
    fulltext
  • 69.
    Anlind, Alice
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Improvments and evaluation of data processing in LC-MS metabolomics: for application in in vitro systems pharmacology2017Independent thesis Advanced level (professional degree), 20 credits / 30 HE creditsStudent thesis
    Abstract [en]

    The resistance of established medicines is rapidly increasing while the rate of

    discovery of new drugs and treatments have not increases during the last decades

    (Spiro et al. 2008). Systems pharmacology can be used to find new combinations or

    concentrations of established drugs to find new treatments faster (Borisy et al. 2003).

    A recent study aimed to use high resolution Liquid chromatography–mass

    spectrometry (LC-MS) for in vitro systems pharmacology, but encountered problems

    with unwanted variability and batch effects(Herman et al. 2017). This thesis builds on

    this work by improving the pipeline and comparing alternative methods and evaluating

    used methods. The evaluation of methods indicated that the data quality was often

    not improved substantially by complex methods and pipelines. Instead simpler

    methods such as binning for feature extraction performed best. In-fact many of the

    preprocessing method commonly used proved to have negative or neglect-able effects

    on resulting data quality. Finally the recently introduced Optimal Orthonormal System

    for Discriminant Analysis (OOS-DA) for batch removal was found to be a good

    alternative to the more complex Combat method.

    Download full text (pdf)
    fulltext
  • 70.
    Anlind, Nils
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Eriksson, Alexandra
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Gromova, Arina
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Hong, Marcus
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Ljungström, Sara
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Markstedt, Olof
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Marknadsanalys av proteinstandarder för kvantitativ masspektrometri2015Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Abstract [sv]

    QPrEST är en ny intern standard för absolut kvantifiering av proteiner utvecklat av företaget Atlas Antibodies AB. I en marknad där det redan finns etablerade standarder kan det vara svårt att konkurrera ut de nuvarande produkterna. Därför har denna rapport gjorts vilken består av en marknadsanalys av nuvarande standarder, statistisk undersökning av publicerade artiklar inom absolut kvantitativ proteomik samt en global kundundersökning med 35 svarande. Resultaten har legat till grund för förbättringsförslag till Atlas Antibodies AB för bättre marknadsföring och lansering av sin nya produkt, QPrEST. Slutsatsen från denna rapport är att Atlas Antibodies AB måste nischa in sin produkt till kvantifiering av ett målprotein då det är där standarden presterar bäst.

    Download full text (pdf)
    fulltext
  • 71.
    Annala, Elina
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Brink, Matilda
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Ekdahl, Simon
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Iggström, Sofia
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Mejáre, Felicia
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Spetsare, Ebba
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Peptider som läkemedel - en marknads- och trendanalys2017Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Abstract [sv]

    Rapporten syftar till att ge en overskådlig bild av den aktuella peptidbaseradelläkemedelsmarknaden. Från en i rapporten definierad marknad har primärdata kring etablerade företag på marknaden, samt peptidbaserade läkemedel till försäjning på marknaden, sammanställts. Rapporten finner att onkologiska- och metaboliska sjukdomar är överrepresenterade i statistiken, vilket även stöds av rapporter från tredje part. Utforskandet av samarbeten mellan företag och akademi, företag och företag, och andra samarbetsformer presenteras också. En tydlig trend i dessa undersökningar tyder på att kontraktsbaserade samarbeten mellan organisationer, där forskning och produktion görs av ett externt företag som ett annat företag använder sig av, är på uppgång. Detta sänker kostnader för framställningen av nya läkemedel, och effektiviserar denna process. Trender inom forskningen talar också för att folkhälsosjukdomar i västvärlden ar trendsättande för läkemedelsföretagens inriktningar. Rapporten baseras på primärt insamlad statistik som verifieras genom rapporter från tredje part, fallstudier för att exemplifiera generaliseringar gjorda av andra källor, samt reflektioner kring vad denna information utrönar i för slutsats.

    Download full text (pdf)
    fulltext
  • 72.
    Annell, Albin
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Ardemalm, Hanna
    Kok, Maaike
    Nilsson, Samuel
    Sandberg-Wilén, Adina
    Östberg, Anni
    Replacing Antibodies in Future Medical Applications: An Overview of Non-Antibody Proteins and Peptide Scaffolds2024Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Abstract [en]

    Antibodies have become a well-established tool in the fields of diagnostics and treatments, especially within oncology, immunology, and infectious diseases. Despite their effectiveness, antibodies are limited by their size, high production costs, and immunogenicity, which in the long run can lead to significant challenges in the medical field. Some well-researched options to antibodies are non-antibody proteins and peptide scaffolds. In this report, focus lies on providing an overview of designed ankyrin repeat proteins (DARPins), Ankyrons, Affibodies, Anticalins, Adnectins and bicyclic peptides, all different formats of non-antibody proteins and peptide scaffolds. Ranging from 1-20 kDa, these non-antibodies feature stable structural elements and modifiable regions for highly specific bonds with high affinity. While originating from natural sources, non-antibodies can be produced synthetically at a low cost, while also decreasing immunogenicity. This report presents the structures of the chosen six formats, and also their function in various applications, as well as their potential to overcome the hurdles of regular antibodies. With the increasing risks of emerging diseases and other health-related issues, non-antibody proteins and peptide scaffolds show great potential for replacing or assisting conventional antibodies in healthcare and biomedical research.

    Download full text (pdf)
    fulltext
  • 73.
    Annett, Alva
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre. Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Medical Sciences, Molecular Precision Medicine.
    Single Cell Methods and Cell Hashing forHigh Throughput Drug Screens2021Independent thesis Advanced level (degree of Master (Two Years)), 20 credits / 30 HE creditsStudent thesis
    Download full text (pdf)
    fulltext
  • 74.
    Annie, Sernelin
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Nora, Palm
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Julia, Axnér
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Sarina, Emad
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Johanna, Söderlund
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Capto Resin Integration Elevates the Phytip Portfolio: An Evaluation of Resins for Antibodies and Adeno-Associated Viruses with Recommendations for the Phytip Portfolio2024Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    The full text will be freely available from 2026-05-31 14:08
  • 75.
    Annika, Staffas
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Novel radiosensitization strategies in cancer2024Independent thesis Advanced level (degree of Master (Two Years)), 40 credits / 60 HE creditsStudent thesis
    Abstract [en]

    The aim of this thesis was to investigates the potential of using Onalespib (AT13387) and KRIBB11 in combination with radiotherapy as a novel treatment approach for head and neck cancer (HN), squamous cell carcinoma (SCC) and glioblastoma. Current clinical therapies for these cancer types have limitations, including resistance and unwanted side effects that reduce the quality of life and the likelihood of long-term survival. Radiation is often used in the treatment of HN+SCC and brain tumors, but the addition of novel drugs could eradicate resistant cells and may reduce toxicity due to dose reduction while keeping the efficacy. To evaluate cell lines’ survival, cell based assays such as colony formation, migration, and spheroids were used. Western blot was performed to determine key protein expressions in drug and radiation treated samples. Cell cycle analysis was performed by flow cytometry. Confocal microscopy was used to analyze DNA damage. U87 and U343 glioblastoma cell lines displayed decreased cell survival, arrested cell cycles and increased DNA damage from combination treatment of radiotherapy and Onalespib treatment. SCC cell line A431 and HN cell line SCC-25 showed decreased colony formation for combination therapy (radiotherapy+Onalespib+KRIBB11) and all tested HN+SCC cell lines displayed less migration in cells treated with all therapies combined. The study found conclusive evidence of synergistic effects of radiotherapy and Onalespib on all tested cell lines. The results for the combination therapy in the HN+SCC cell lines showed variations in efficacy and cell survival mainly due to KRIBB11. Combination treatments are a promising strategy to overcome resistance and improve treatment outcomes, however more studies are needed to further improve combination therapies as potential treatment for cancer.

  • 76.
    Antonsson, Elin
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Eulau, William
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Fitkin, Louise
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Johansson, Jennifer
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Levin, Fredrik
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Lundqvist, Sara
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Palm, Elin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Framtidens biomarkörer: En prioritering av proteinerna i det humana plasmaproteomet2019Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Abstract [en]

    In this report, we rank possible protein biomarkers based on different criteria for use in Olink Proteomics’ protein panels. We started off with a list compiled through the Human Plasma Proteome Project (HPPP) and have in different ways used this to obtain the final results. To complete this task we compared the list with Olink’s and its competitors’ protein catalogs, identified diseases beyond Olink’s coverage and the proteins linked with these. We also created a scoring system used to fa- cilitate detection of good biomarkers. From this, we have concluded that Olink should focus on proteins that the competitors have in their catalogs and proteins that can be found in many pathways and are linked with many diseases. From each of the methods used, we have been able to identify a number of proteins that we recommend Olink to investigate further.

    Download full text (pdf)
    19-X4_Slutrapport
    Download (zip)
    Elektroniskt_appendix
  • 77.
    Antonsson, Rebecka
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Behavioral effects of deep brain stimulation in the subthalamic nucleus in obsessive compulsive disorder2021Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Abstract [en]

    Obsessive compulsive disorder (OCD) is one of the most disabling psychiatric disorder. About 10% of patients with OCD do not respond to pharmacological treatment. However, deep brain stimulation (DBS) has advanced as an alternative treatment. In 2002, two patients who suffered from co-morbidity of Parkinson’s disease (PD) and OCD were treated with DBS for their PD, with DBS-electrodes placed in the subthalamic nucleus (STN). Surprisingly, not only PD symptoms but also OCD symptoms were improved. This was the first time that patients with OCD were treated with DBS in STN and it was found to markedly improve their symptoms. When performing DBS in patients with OCD, as well as for treating PD, several side-effectshave been observed. The side-effects can be both physical and psychological. In this project,the aim is to investigate the efficiency and side-effects of DBS in OCD, correlated with the position of the electrode in, or near, the STN. To address the aim, 10 published reports were analysed. It was found that all electrode positions reported resulted in great improvement of OCD symptoms. In fact, 88% of patients had significant improvement. There was no clear correlation between position of the electrode and number or type of side-effect. However, there was a trend that patients with the electrode placed in associative/limbic STN suffered from more side-effects. In conclusion, this project demonstrates that there might be a correlation between target for electrode stimulation and side-effects. It would be interesting analyse this closer, including additional electrode target areas, but also consider other possible explanations for the variety of side-effects caused by DBS for OCD. 

    Download full text (pdf)
    fulltext
  • 78.
    Anyango, Stephen Omondi Otieno
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre. Uppsala University.
    VisuNet: Visualizing Networks of feature interactions in rule-based classifiers2016Independent thesis Advanced level (degree of Master (Two Years)), 20 credits / 30 HE creditsStudent thesis
    Download full text (pdf)
    fulltext
  • 79.
    Aravind, Sanjukta
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Optimization of Cultivation Strategies for Increased Isobutene Production in Cyanobacteria2023Independent thesis Advanced level (degree of Master (Two Years)), 20 credits / 30 HE creditsStudent thesis
    The full text will be freely available from 2025-07-01 00:06
  • 80.
    Argueta Mejia, Ivany Jocelyne
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Archaeological dental calculus reveals patterns of dietary shifts related to the farming transition in Africa2023Independent thesis Advanced level (degree of Master (Two Years)), 40 credits / 60 HE creditsStudent thesis
    Abstract [en]

    Archaeological dental calculus represents a depositional environment that entraps oral microbes, and debris of dietary, environmental, and cultural material that entered the mouth throughout the host’s life. Hence, they represent valuable archives of information about the host’s lifestyle, health, and environment. The aim of this study was to identify if the farming transition and its’ associated change in diet composition, may have influenced species composition in the oral cavity. To shed some light into the evolution of ancient oral microbiomes from Africa, 3 novel Iron Age dental calculus metagenomes together with a comparative dataset of 18 archaeological dental calculus metagenomes from North African Upper Palaeolithic, Later Stone Age, Iron Age, and 18th-19th century populations where analysed. Shotgun sequencing data was used to reconstruct 21 oral metagenomes from the past 15,000 years. This study found an oral microbiome that has been maintained from the Upper Palaeolithic (North Africa) to the 19th Century. However, closer examination to the relative abundance of three keystone species of the subgingival plaque, portray a chronological evolution that reflects that of its host during the major dietary and cultural transition that occurred during the farming revolution in the Iron Age.

  • 81.
    Arif, Anam
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Study of asRNA and small peptides significance at 5' upstream UTR in the regulation of dnaK gene and cell shape2024Independent thesis Advanced level (degree of Master (Two Years)), 30 credits / 45 HE creditsStudent thesis
    Download (pdf)
    popular summary
    The full text will be freely available from 2029-01-12 11:50
  • 82.
    Arnroth, Cornelia
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Chumpitaz Chavez, Gabriel
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    von Euler, Edvin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Hedar, David
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Lindbäck, Klara
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Stenerlöv, Oskar
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Optimering av en aerob biorening med avseende på minimering av filament2018Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Abstract [en]

    Deficiencies in biotreatment due to uncontrolled growth of filamentous microorganisms is a problem for wastewater plants worldwide. The project was assigned with the task of reducing the growth of filamentous bacteria at the paper mill SCA Munksund.

    12 bacteria and 1 fungi species were presented to the project as problematic due to their filamentous properties. Operating parameters affecting filamentous growth was examined and presented. The information gathered showed that a decrease in filamentous growth for 5 especially problematic bacteria could possibly be achieved by raising the DO, increasing the concentration of nutrients and decreasing the sludge age. Other parameters affecting the growth of filamentous bacteria, such as pH, temperature and F/M were found to be too diverse among the examined species.

    Alternative solutions not focused on finding optimal operating parameters was also investigated. Promising results were treatment using a feast-famine approach, installation of an anaerobic selector and ozonation of return sludge.

    A statistical analysis was also performed on operating data. Methods used were Principal component analysis, Clustering and Logistic regression. These were used as a proof of concept rather than providing meaningful data for an operating window.

    Download full text (pdf)
    fulltext
  • 83.
    Arvidsson, Staffan
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Automating model building in ligand-based predictive drug discovery using the Spark framework2015Independent thesis Advanced level (professional degree), 20 credits / 30 HE creditsStudent thesis
    Abstract [en]

    Automation of model building enables new predictive models to be generated in a faster, easier and more straightforward way once new data is available to predict on. Automation can also reduce the demand for tedious bookkeeping that is generally needed in manual workflows (e.g. intermediate files needed to be passed between steps in a workflow). The applicability of the Spark framework related to the creation of pipelines for predictive drug discovery was here evaluated and resulted in the implementation of two pipelines that serves as a proof of concept. Spark is considered to provide good means of creating pipelines for pharmaceutical purposes and its high level approach to distributed computing reduces the effort put on the developer compared to a regular HPC implementation. 

    Download full text (pdf)
    Rapport
  • 84.
    Arvidsson, Staffan
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Berglund, Tomas
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Ehrenborg, Anna
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Ghiassi Tari, Parisa
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Ledent, Sofie
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Nordstedt, Martin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Nya dispenseringstekniker för feromoner: För ett hållbart jordbruk2012Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Abstract [sv]

    Projektets mål har varit att utveckla nya alternativa dispenseringstekniker för insektsferomoner som bekämpar skadeinsekter på fruktodlingar. Resultatet av projektet har gett tre teoretiskt möjliga förslag. Det första förslaget är en polymerbaserad feromondispensering som inte är baserad på någon nuvarande teknik. Förslaget är uppdelat i två koncept, antingen en polymer i gelform eller en gjuten polymer. Polymererna som ges i förslaget är biologiskt nedbrytbara och har egenskaper som inte finns i produkter på marknaden idag. Det andra förslaget grundar sig på vaxbaserad feromondispensering som är en nuvarande teknik. En vaxmassa blandas tillsammans med en specifik feromonlösing och appliceras direkt på ett bladverk eller i fällor. Genom att ha en definierad form på dispensrarna erhålls en bättre kontroll på utsöndring av feromon. Det tredje förslaget är en sprejbaserad feromondispensering även den grundas på nuvarande tekniker. Idén är att en sprejbehållare med tillhörande feromonlösning kan fjärrstyras genom att kopplas till ett kontrollsystem. Fördelen med tekniken är att en större kontroll över dispenseringen på fruktodlingsfältet kan uppnås utifrån information från en väderstation eller annan källa. Kontrollsystemet kan ställas in för att rätt mängd feromon skall släppas ut i olika väderförhållande.

    Download full text (pdf)
    Nya dispenseringstekniker för feromoner
  • 85.
    Asklöf, Anna
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Streamlining user processes for a general data repository for life science in accordance with the FAIR principles2021Independent thesis Advanced level (professional degree), 20 credits / 30 HE creditsStudent thesis
    Abstract [en]

    With the increasing amounts of data generated in life science, methods for data storage and sharing are being developed and implemented. Online data repositories are more and more commonly used for data sharing. The national Swedish platform Science of Life Laboratory has decided to use an institutional data repository as a mean to address the increasing amounts of data generated at the platform. In this project, the system used for the institutional repository at SciLifeLab was studied and compared to implementations of the same system at other institutions to create user documentation for the repository. This documentation was created with the FAIR principles as a guidance. Feedback on the guidelines were then sought from users and based on the received feedback, the user documentation was improved. Using a FAIR evaluation tool called FAIR evaluation services, items published on the repository were evaluated. Investigation of these results and their correlation to the items record on the repository were carried out. Out of ten evaluated datasets all except one scored exactly the same on the FAIR evaluation services tests. This could indicate that the test used is not evaluating aspects needed to encounter the differences in these published items. Based on this, conclusions as to in what extent user documentation can increase the FAIRness of data cannot be drawn. 

    Download full text (pdf)
    fulltext
  • 86.
    Asklöf, Anna
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Fermér, Elin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Zillén, Linnea
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Berglund, Emelinda
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Jonsson, Sony
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Lundberg, Lovisa
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Identifiering av biomarkörer och matchning av dessa mot Atlas Antibodies produktportfölj2017Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Download full text (pdf)
    fulltext
  • 87.
    Assefa, Aster
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Single cell analysis of attached microbes in sediment and biofilm2017Independent thesis Advanced level (degree of Master (Two Years)), 30 credits / 45 HE creditsStudent thesis
    Download full text (pdf)
    fulltext
  • 88.
    Attwood, Misty
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    The gene repertoire and functional characterization of membrane bound proteins: with focus on three- and four-transmembrane regions2015Independent thesis Advanced level (degree of Master (Two Years)), 20 credits / 30 HE creditsStudent thesis
  • 89.
    Augusto, Rafael
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Assortative reproduction in a seed beetle?2016Independent thesis Advanced level (degree of Master (Two Years)), 30 credits / 45 HE creditsStudent thesis
    Abstract [en]

    How genetic variation for fitness is maintained is still debated in evolutionary biology. Sexually antagonistic (SA) selection, favouring alternative alleles in males and females, has been proposed to be one mechanism capable of maintaining genetic variation for fitness. However the conditions under which SA polymorphisms are maintained are still thought to be somewhat restrictive. Several models have explored potential mechanisms that may help maintain genetic variation at SA loci. One such mechanism is assortative mating by fitness, where individuals with similar fitness mate more frequently than expected by random chance. This study explores if there is such assortative reproduction for fitness in a population of Callosobruchus maculatus seed beetles, which could explain the large amounts of SA genetic variance for fitness exhibited by this population. However, on the contrary, results show that there is evidence of disassortative reproduction for fitness in this population. 

  • 90.
    Awoga, Roseline Ayowumi
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre. Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Organismal Biology, Environmental toxicology. Biology Education Centre (IBG).
    Optimization of an In-Vitro System for Testing Developmental Neurotoxicity Induced by Oestrogen, Androgen and Thyroid Disruption2021Independent thesis Advanced level (degree of Master (Two Years)), 40 credits / 60 HE creditsStudent thesis
    Abstract [en]

    In recent times, endocrine disrupting chemicals (EDCs) have been associated with the rise in neurodevelopmental disorders such as autism, attention deficit hyperactivity disorder (ADHD) and decreased intelligence quotient (IQ) in children. This effect is suspected to be induced at pre-/peri-natal development, via an alteration in hormonal signaling, thus interfering with neuronal differentiation, with subsequent effect on normal brain development and function in exposed children. This issue increases the need for chemical screening for potential developmental neurotoxicity (DNT) effect. The current available EDC induced DNT test guideline is based on in-vivo testing that requires animal use. Here, a multipotent neural progenitor cell line, the C17.2 cell-line, generated from neural stem cells of the external germinal layer of mouse cerebellum, with potential to differentiate to neurons or astrocytes, is introduced for in-vitro EDC induced DNT testing. This project focused on optimizing the C17.2 cell-line for the detection of EDC-induced DNT with emphasis on the disruption of the oestrogen, androgen, and thyroid hormone systems. It aimed at validating the involvement of oestrogen, androgen, and thyroid hormone on molecular and cellular endpoints relevant for the differentiation of the C17.2 cells.  Herein, the cells were exposed to the hormonal agonist and antagonist at a range of concentrations for a 10-day differentiation period. After exposure, LDH, viability assay and morphological changes (percentage of neurons in culture and neurite outgrowth) were evaluated. The results showed no morphological changes induced by androgen receptor (AR) agonist/antagonist at relevant physiological concentrations. The thyroid receptor (TR) agonist and antagonist on the other hand showed a response in the form of increased neurite outgrowth in relation to the negative control at a concentration range of 40-200 nM and 40 nM respectively. The oestrogen receptor (ER) antagonist at 100 nM also increased percentage neuron in culture. Additionally, in-silico analysis of microarray and RNA sequencing data were used to map out target genes regulated by ER, AR and TR and involved in neurodevelopment. With this approach, 29 marker genes were identified. Validation of the marker genes by means of gene expression (qPCR) was carried out, ER and TR agonist/antagonist were observed to modulate the expression of examined genes. In summary, the model could not be established for detecting EDC induced DNT via androgenic and oestrogenic pathway, while it is a promising model for identifying DNT induced by thyroid hormone signalling disruption.

    Download full text (pdf)
    fulltext
  • 91.
    Axelson, Linnéa
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Berg, Loova
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Blomkvist, Anna
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    El-Zein, Nora
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Grenholm, Elin
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Hemmingsson, Nora
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Mosebach, Sara
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Exploring the Potential of Camelid Single-Domain Antibodies: Structure, Properties and Diverse Applications in Therapeutics and Diagnostics2023Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Download full text (pdf)
    fulltext
  • 92.
    Aybay, Erdem
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology. Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Hematopoietic serine proteases; an analysis of their extended cleavage specificity, in-vivo substrates, and evolution2021Independent thesis Advanced level (degree of Master (Two Years)), 80 credits / 120 HE creditsStudent thesis
    Abstract [en]

    Serine proteases are found in the granules of various immune cells and they have very diverse functions in the immune system. These serine proteases have their own primary and extended cleavage specificities and these specificities can vary a lot between different serine proteases. In this project, several serine proteases were studied to analyze their extended cleavage specificities. The aim was to find their possible in-vivo substrates and to gain insight into their evolution. I started with hamster chymase-1 a chymotryptic serine protease that had already been studied by other members of the lab to analyze its extended cleavage specificity. The aim of this exercise was to gain experience in techniques and methods. The results were consistent with previous studies. I then continued with two previously uncharacterized proteases Zebra mbuna Granzyme-A2 and Human Granzyme-A. After successful phage display assays for these two proteases, several recombinant substrates were designed to verify the phage display results by cleavage assays. The results for the Zebra mbuna Granzyme-A2 show that the enzyme has chymotryptic activity and also prefers specific amino acids at some other positions surrounding the cleavage site. Human Granzyme-A shows tryptic activity and but confirmatory cleavage assays have not been performed yet. An initial screen for possible in-vivo targets for both enzymes by pBLAST has been performed giving a few interesting potential targets.  

    Download full text (pdf)
    fulltext
    Download (pdf)
    popular summary
  • 93.
    Aydin, Zeynep
    et al.
    Institutionen för biologi och miljövetenskap, Göteborgs universitet, Department of Biology, Faculty of Sciences, University of Dicle.
    Ertekin, Alaattin Selcuk
    Department of Biology, Faculty of Sciences, University of Dicle.
    Långström, Elisabeth
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Oxelman, Bengt
    Institutionen för biologi och miljövetenskap, Göteborgs universitet.
    A new section of Silene (Caryophyllaceae) including a new species from South Anatolia, Turkey2014In: Phytotaxa, ISSN 1179-3155, E-ISSN 1179-3163, Vol. 178, no 2, p. 98-112Article in journal (Refereed)
    Abstract [en]

    Silene section Cryptoneurae (Caryophyllaceae) and S. ertekinii from Western Antalya, Turkey, are described as new taxa onthe basis of morphological and molecular investigations. Nuclear ITS and chloroplast rps16 DNA sequences clearly supportthe recognition of the new section. Inclusiveness and characterization of the new section is discussed and described, and akey for the included species is provided. Diagnostic characters of the new species S. ertekinii are given and its relation to theother species of the section is discussed.

  • 94.
    Ayranci, Diyar
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Design, expression and purification of virus-like particles derived from metagenomic studies: Virus-like Particles (VLP) of novel Partitiviridae species, Hubei.PLV 11, and novel Soutern pygmy squid flavilike virus were designed, expressed using the bac-to-bac expression system and then pruified using various methods2021Independent thesis Advanced level (degree of Master (Two Years)), 30 credits / 45 HE creditsStudent thesis
    Abstract [en]

    Viruses are entities which are made of a few genes and are reliant on obligate parasitism to propagate. Due to the obligate connection to their hosts, virus evolution is constrained to the type of host. Viruses however do transmit to evolutionary distinct hosts; in these cases, the phylogenetic relationship of the hosts usually are close. In some instances, RNA-viruses have made host jumps between evolutionary distant hosts, such as the host jump from invertebrates to vertebrates, and fungi to arthropod. Partitiviruses are double stranded RNA viruses which mainly infect fungi and plants. The defining characteristic of these double stranded RNA viruses are the double layered capsids which are formed by a single open reading frame (ORF). The capsid proteins form icosahedral virus particles which are in the magnitude of 30-40 nm. Metagenomic studies have discovered partitiviruses originating from an insect in the Odanata family, a finding which contradicts the fungal host specificity of partitiviruses. The finding of the Hubei.PLV 11 thus implies the existence of a partitiviruses containing structural elements in their capsids which could be involved in the infection of arthropods. Thus, this virus could be used as a model for a structural comparison with its fungi infecting relatives with hopes to identify common viral structural factors necessary for the infection of arthropods. For this purpose, the Hubei.PLV ORF was cloned and then transfected into insect Spodoptera frugiperda (Sf-9) cells using a baculovirus expression system, “bac-to-bac” expression system. The FLAG-tagged capsid proteins were expressed by the Sf-9 cells to be approximately 60 kDa. After ultra-centrifugation in a sucrose gradient, some spontaneous assembly into the expected ~40 nm icosahedral virus-like particles were observed using low resolution scanning electron microscopy. The observed particles were also confirmed by a dynamic light scattering experiment (DLS) and a higher resolution cryo-EM microscope. Thus, the bac-to-bac expression system can be used to produce VLPs from this genus of viruses, and this metagenomically derived virus genome. However, for future success in defining a high-resolution model of this virus, it is recommended that the Sf-9 culture volume is sufficiently high for enough particle production which is necessary for a high-resolution map. The other virus, the Southern pygmy squid Flavilike virus (SpSFV) has been suggested to be the oldest relative of the land based flaviviruses. The SpSFV was found to be the most divergent of the flaviviruses, and to infect invertebrates. Solving for the structure of the SpSFV and comparing it to vertebrate infecting flaviviruses could therefore lead to the identification of factors necessary for the adaptation to vertebrates and thus the humoral immunity by flaviviruses. The soluble E-protein was expressed using the bac-to-bac expression system. The protein was indicated to be multiglycosylated and approximately 50 kDa which is in line with other strains in the genus. Affinity chromatography did not elute this protein, likely due to the His-tag not being spatially available. Cation exchange could elute some protein, but not much from the small ~30 mL culture. To conclude, VLP assembly was confirmed by the Hubei.PLV, thus, solving for the structure is a distinct possibility when a larger Sf-9 culture is used to produce the VLPs. For the SpSFV soluble E-protein, the protein is secreted into the supernatant of the Sf-9 cultures, making purification a possibility. For this, a large Sf-9 culture can be used to produce this protein and then purify it with a cat-ion exchange chromatography.

    Download full text (pdf)
    Ultimata slutversionen
    Download full text (pdf)
    Popvet.Engelska
  • 95.
    Azeez Saleh Bahr, Wedyan
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Effect of Endocrine Disruptor Chemicals(EDCs) Mixture G1 on Molecular Endpoints in Human Mesenchymal Stem Cells2022Independent thesis Advanced level (degree of Master (Two Years)), 20 credits / 30 HE creditsStudent thesis
    Abstract [en]

    Endocrine disrupting chemicals (EDCs) are used in many every-day products but they can alter functions of the endocrine system. Exposure to these chemicals during early development can lead to long term health adversities. An EU-funded project EDC-MixRisk designed a mixture of 14 EDCs, Mix G1, that was associated with lower birth weight in the Swedish Environmental Longitudinal Mother and child Asthma and allergy study. Low birth weight is an early indicator of deviations in prenatal metabolic programming. This mixture was then found to induce DNA methylation changes in genes relevant for adipogenesis and metabolic functions in human mesenchymal stem cells (hMSCs), as analyzed with an Illumina Infinium Methylation EPIC BeadChip array. Two of these genes, were nuclear receptor subfamily 6 group A member 1 (NR6A1),that was significantly differentially methylated at all tested Mix G1 concentrations, and the HomoboxA5 (HOXA5) gene that was found to have a significantly differentially methylated region (DMR) induced at the lowest, most human relevant, Mix G1 concentration. The aim of this project was to validate the effects of Mix G1 on DNA methylation of NR6A1 and HOXA5 genes using bisulfite-pyrosequencing. The hMSCs derived from bone marrow of two donors (one maleand one female) were exposed to four different concentrations of Mix G1 for 21 days during thedifferentiation protocol. Molecular analysis was then conducted on the extracted DNA using bisulfite-pyrosequencing. During pyrosequencing assay optimization for measuring DNA methylation at the CpG site of NR6A1 a contamination from unknown source was encountered and after lengthy unsuccessful efforts of removing it, in the interest of time it was decided to instead measure DNA methylation in all samples of the already established assay for HOXA5. The DNA methylation measurements in HOXA5 gene were found to not have statistically significant differences between the Mix G1 treatments and the control treatment, therefore, the Illumina EPICwhole genome DNA methylation bead array result for CpG site cg14058329 HOXA5 gene couldnot be validated with pyrosequencing analysis. In conclusion, while the findings at cg14058329 HOXA5 could not be validated, another CpG site within the HOXA5 DMR could be selected and validated using pyrosequencing technique. For the NR6A1 assay, further design is needed using another assay.

    Download full text (pdf)
    Master thesis
  • 96.
    Baars, Sophie
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre. Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology, Microbiology and Immunology.
    Investigation of the role of RNA-binding proteins in bacterial gene regulation2022Independent thesis Advanced level (degree of Master (Two Years)), 40 credits / 60 HE creditsStudent thesis
    Abstract [en]

    Salmonella is a common food-borne, intracellular pathogen that causes infections in animals and humans. During infection of the host, flagella serve as important virulence factors that enable the bacterium to reach the site of infection and adhere to the host-cell. Flagella are complex organelles, and their expression is organized by an intricate, regulatory network, governed by the transcription factor FlhDC. While the transcriptional regulation of flagellar genes in Salmonellais well described, there is little known about post-transcriptional mechanisms. The RNA binding protein ProQ was found to promote motility, but the molecular mode of action remained unclear. Recently, the small RNA FlgO was found to be a contributing genetic factor for ProQ-dependent flagellar gene expression. FlgO was hypothesized to base-pair with the 5’untranslated region of the flhDC mRNA and thereby promote translation of the mRNA. As ProQ was positively affecting FlgO steady-state levels, I hypothesized that ProQ stabilizes or aids in processing of FlgO. Further, I investigated the effect of FlgO on translation of the flhDC mRNA. The results of this work showed that the stability and processing of FlgO is independent of ProQ, and in vitro binding assays showed no binding of ProQ to FlgO. However, the RNA binding protein Hfq was found to bind and stabilize FlgO. Further, I found that overexpression of FlgO increases flhDC mRNA translation and that this effect is independent of the small RNAs ArcZ, OmrA/B and OxyS, all of which are known to repress flhDC translation. The precise molecular mechanism of how FlgO stimulates translation of flhDCremains subject for future work.

    Download full text (pdf)
    fulltext
  • 97.
    Baczynska, Monika
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Hafiz, Benjamin
    MacCormack, Philip
    Malmfors Sundheim, Hanna
    Myhr, Nils
    Skeppås, Madeleine
    Kartläggning av bioproduktion i Sverige: Behov, hinder och drivkrafter2021Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Abstract [en]

    The market for drugs and treatments using biological products is rapidly growing. This is mainly due to the great potential that biological products have in comparison to traditional drugs. Biological products are composed of bigger molecules such as proteins and antibodies, and therefore allow a much more specific treatment. With the complexity of the molecules comes complexity in the upscaling of manufacturing. Start-up companies tend to lack knowledge of this process; consequently, outsourcing is often a requirement for the companies to grow. Outsourcing can be both risky and costly and the companies could benefit from having the skills in-house instead. This report provides information about needs, obstacles and driving forces regarding the future market for biological medicine and also outsourcing’s effect on the market. Desktop research was used to provide necessary information about the market and biological medicines, and also to find companies, research groups and investors that we mapped according to parameters, such as location and what field of medicine they engage in. Through phone and email contact, we gained further understanding about the actors we targeted. Desktop research and interviews were used to identify needs, obstacles and driving forces regarding the development of biological medicine. The result gives insight into where in Sweden the different candidates operate and it tells what pursuits and holdbacks they are facing when developing biological medicines. The major driving force is providing patients efficient treatments but also the opportunity to capitalise in a novel and successful type of industry. The major obstacle is first and foremost the great amount of money needed. Also, companies fail to grasp the many complex and time consuming steps in developing biological medicines. The interviews also showed that outsourcing is practically inevitable, especially for small companies, due to the difficulties of concentrating the competence in-house. In conclusion, the report shows that the benefits of biological medicine creates great driving forces for its development and that Sweden makes up a good climate for this. It also enlightens the importance of test beds to ensure that the future development relies on competence.

    Download full text (pdf)
    fulltext
  • 98.
    Bagge, Joakim
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Hedman, Erik
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Smedsrud, Sabina
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Svärdström, Cornelia
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Söderberg, Elisabeth
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Valdés, Fernando
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Utveckling av metodik för påvisning och typning av Listeria i livsmedelskedjan2017Independent thesis Basic level (degree of Bachelor), 10 credits / 15 HE creditsStudent thesis
    Download full text (pdf)
    fulltext
  • 99.
    Bahena, Silvia
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre.
    Computational Methods for the structural and dynamical understanding of GPCR-RAMP interactions2020Independent thesis Advanced level (degree of Master (Two Years)), 20 credits / 30 HE creditsStudent thesis
    Abstract [en]

    Protein-protein interaction dominates all major biology processes in living cells. Recent studies suggestthat the surface expression and activity of G protein-coupled receptors (GPCRs), which are the largestfamily of receptors in human cells, can be modulated by receptor activity–modifying proteins (RAMPs).

    Computational tools are essential to complement experimental approaches for the understanding ofmolecular activity of living cells and molecular dynamics simulations are well suited to providemolecular details of proteins function and structure. The classical atom-level molecular modeling ofbiological systems is limited to small systems and short time scales. Therefore, its application iscomplicated for systems such as protein-protein interaction in cell-surface membrane.

    For this reason, coarse-grained (CG) models have become widely used and they represent an importantstep in the study of large biomolecular systems. CG models are computationally more effective becausethey simplify the complexity of the protein structure allowing simulations to have longer timescales.

    The aim of this degree project was to determine if the applications of coarse-grained molecularsimulations were suitable for the understanding of the dynamics and structural basis of the GPCRRAMP interactions in a membrane environment. Results indicate that the study of protein-proteininteractions using CG needs further improvement with a more accurate parameterization that will allowthe study of complex systems.

    Download full text (pdf)
    fulltext
  • 100.
    Baho, Didier
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Biology Education Centre. Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Ecology and Genetics, Limnology.
    Resistance and resilience of microbial communities - temporal and spatial insurance against perturbations2010Independent thesis Advanced level (degree of Master (One Year)), 30 credits / 45 HE creditsStudent thesis
    Abstract [en]

    Bacterial communities are fundamental components of many processes occurring in aquatic ecosystems, since through microbial activities substantial amount of matter and energy is transferred from a pool of DOC to higher trophic levels. Previous studies highlighted the beneficial effects of diversity on ecosystem functioning, however studies on the resistance and resilience in microbial communities are scarce. Similarly, studies focusing on factors that might improve resistance or resilience of communities such as the influence of refuges are equally missing, although an understanding of the underlying mechanisms could be very useful in the field of conservation management. In this study, chemostat cultures were used to investigate the influence of a spatial and a temporal refuge on bacterioplankton communities’ resistance and resilience measured in terms of functioning and community composition after applying a salinity pulse disturbance. Respiration rate and substrate utilization were used to estimate bacterial functioning while community composition was determined by using T-RFLP. The perturbation was found to affect bacterial functioning and community composition. Moreover our findings indicate that the resistance and resilience measured in terms of bacterial functioning and community composition were significantly influenced by the provision of refuges.  

    Download full text (pdf)
    FULLTEXT01
1234567 51 - 100 of 1218
CiteExportLink to result list
Permanent link
Cite
Citation style
  • apa
  • ieee
  • modern-language-association
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf