Dendritic cells (DC) are antigen-presenting cells that are critical for the initiation and regulation of the immune response. Several DC subtypes within mouse spleen have previously been characterised and these include the plasmacytoid (pDC), and conventional DC (cDC) of the CD8+ and CD8- subtypes. Each subtype appears to have a specialised role in the various arms of immunity and tolerance. Less clear is the process by which these DC develop from haematopoietic precursors, of the precursor stages and branch points from bone marrow (BM) stem cells to each of the peripheral DC subtypes. The research described herein had the aim of identifying and isolating some of the intermediate precursors of DC, downstream of stem cells, and determining whether these differed in the steady-state versus inflammation. Particular was given to DC of the spleen. Experiments that sought the identity of such precursors involved both i) transfer of cell fractions that contained DC precursors into steady-state or inflamed recipient mice to assess their in vivo development at later times, and ii) analysis of an in vitro culture system to question whether it reflected development of the steady-state DC subtypes.

Haematopoietic stem cells (HSCs) maintain the vertebrate blood system throughout life. Exploiting their clinical potential requires a thorough understanding of the natural origins of the HSCs. They first arise from the haemogenic endothelium (HE), located in the main embryonic artery, the dorsal aorta. Our understanding of the genetic mechanisms underlying HE specification remains incomplete, but one of the crucial transcription factors is Gata2. We found that a conserved enhancer of zebrafish gata2a gene (i4 enhancer) is active in vivo specifically in endothelial cells, including the HE. To unravel the function of gata2a in specifying the HSCs, we have targeted the i4 enhancer with CRISPR/Cas9, generating the first reported genomic deletion of an endogenous cis-regulatory region in zebrafish. Deletion of the i4 enhancer leads to a decrease in endothelial gata2a expression and a concomitant transient decrease in the number of HSCs. This is marked by an early decrease in the expression of gata2b, a gata2a paralogue previously shown to be required for the initiation of the haematopoietic programme. Our results suggest non-redundant roles of both zebrafish gata2 paralogues in programming of HSCs, providing insights into different roles of GATA2 throughout the programming of HSCs. We also confirmed the previously reported loss of HSCs upon MO-mediated knockdown of lmo4a, associated with increased gata2a expression in HE. We validated the increase in gata2a levels in TALEN-generated lmo4a mutants. To identify the links between lmo4a, gata2a and the HE programming, we have profiled the transcriptome of lmo4a-deficient endothelial cells, including the HE. Our results suggest that Lmo4a may be a global regulator of the transcriptional programming of the HE. Moreover, Wnt signalling pathway may regulate gata2a downstream of lmo4a. This provides novel insights into the gene regulatory network orchestrating the generation of HSCs in the embryo.

Haematopoietic stem and progenitor cells (HSPCs) are crucial for lifelong blood cell production. We analysed the cell cycle and cell production rate in HSPCs in murine haematopoiesis. The labelling of DNA-synthesizing cells by two thymidine analogues, optimized for in-vivo use, enabled the determination of the cell cycle flow rate into the G2-phase, the duration of the S-phase and the average cell cycle time in Sca-1+ and Sca-1- HSPCs. The determination of cells with 2n DNA content and labelled during the preceding S-phase was used to establish the cell flow rates in the G1-phase. Our measurements revealed a significant difference in how Sca-1+ and Sca-1- HSPCs self-renew and differentiate. The division of Sca-1+ progenitors led to the loss of the Sca-1 marker in about half of newly produced cells, corresponding to asymmetric cell division. In contrast both Sca-1- progenitors, arising from mitotic cell division, entered a new round of the cell cycle. This corresponds to symmetric self-renewing cell division. The novel data also enabled us to estimate the cell production rates in the Sca-1+ and in three subtypes of Sca-1- HSPCs. We focused on adult murine erythroid differentiation in the next part of our study. We introduced an original flow cytometry approach for identifying and studying erythroid...

In der vorliegenden Habilitationsschrift werden biomathematische Modelle beschrieben, mit deren Hilfe unterschiedliche Wirkungen von zytotoxischen Chemotherapien beschrieben und vorhergesagt werden können. Die meisten Anwendungen beziehen sich dabei auf Therapien von Lymphomerkrankungen. Die dargestellten Modellkonzepte sind aber prinzipiell auch auf Therapien anderer Erkrankungen übertragbar. Den Hauptteil der Arbeit umfassen Modellierungen der Hämatotoxizität einer konventionellen Chemotherapie in Abhängigkeit von der Art, der Dosierung und der zeitlichen Verabfolgung der zytotoxischen Substanzen, dem Einsatz von hämatopoetischen Wachstumsfaktoren und individuellen Risikofaktoren. Hierbei wurde die Hämatopoese im Knochenmark, die Pharmakokinetik und -dynamik hämatopoetischer Wachstumsfaktoren sowie die Wirkung der Chemotherapie mit Hilfe gewöhnlicher Differentialgleichungssysteme beschrieben. Ähnliche Modellierungen der murinen Hämatopoese begleitet und beeinflussen diese Arbeiten. Die Modelle ermöglichen eine Reihe von klinisch relevanten Vorhersagen, insbesondere bezüglich risikoadaptierter Therapien und Optimierung der Gabe von G-CSF. Diese wurden teilweise in später durchgeführten klinischen Studien validiert. Des Weiteren wurde das Risiko des Auftretens sekundärer hämatologischer Malignitäten in Abhängigkeit von den eingesetzten Primär- und Rezidivtherapien mittels statistischer Modelle beschrieben. Hierbei stand speziell die Frage im Vordergrund, wie sich entsprechende multiparametrische Modelle geeignet reduzieren lassen, um überhaupt parametrisiert werden zu können. Abschließend wird ein Konzept für ein immunologisches Tumormodell vorgeschlagen, mit dessen Hilfe perspektivisch die Tumorkontrolle unter kombinierten Chemo- und Immuntherapien des CD20 positiven B-Zelllymphoms vorhergesagt werden könnte. Die in dieser Arbeit vorgestellten mathematischen Modelle und Modellkonzepte stellen einen Beitrag zur Planung von klinischen Studien mittels systembiologischer Modelle dar.

The alternative road map describes the separation of lympho-myeloid and myeloid-megakaryocyte-erythroid (myeloid-Mk-E) lineages as the earliest haematopoietic commitment event. However, a number of aspects of this lineage restriction process remain poorly understood. Herein this work identified a lympho-myeloid restricted progenitor in the embryo, which resembles the adult LMPP, and demonstrated that lymphoid lineage restriction is initiated prior to definitive haematopoiesis, much earlier than previously appreciated. In vivo fate mapping showed that lympho-myeloid progenitors significantly contribute to steady state myelopoiesis in the embryo. The early thymic progenitor (ETP) as most primitive cell in the thymus was characterised and demonstrated to sustain B, T and myeloid but not Mk potentials at the single cell level. The ETP therefore largely resembles the cellular properties of lympho-myeloid progenitors in bone marrow and foetal liver, which points to these cells as candidate thymus seeding progenitors (TSP). Furthermore the existence of a putative Mk progenitor was explored within the LSKCD150⁺CD48⁺Gata1^pos compartment of a Gata1 reporter mouse providing the basis for a future prospective characterisation. Finally, this work evaluated the earliest lineage restriction of von Willebrand factor (Vwf)-EGFP⁺ and EGFP^- haematopoietic stem cells (HSCs) through in vitro paired daughter fate mapping. Single Vwf⁺ HSCs showed heterogeneous Mk priming and more frequently sustained Mk potential after cell division. Moreover, analysis of lineage priming between daughter cells revealed the asymmetric expression of key lineage determinants and stem cell regulators, which might be employed as reporters for future fate mapping studies.

Das Multiple Myelom (MM) ist eine hämatologische Erkrankung, welche sich durch eine Akkumulation von malignen Plasmazellen im Knochenmark auszeichnet und eine gestörte Hämatopoiese und Osteolyse zur Folge hat. Komplexe molekulare Interaktionen zwischen MM-Zellen und der Mikroumgebung/Nische im Knochenmark (bone marrow microenvironment, BMM) führen zu einer Aktivierung von verschiedenen Wachstums-, Überlebens- und anti-apoptotischen Signalwegen, die zur Entstehung bzw. Wirkstoffresistenz von MM-Zellen beitragen. IL-6R/STAT3, Ras/MAPK und PI3K/Akt sind die drei wichtigsten Signalwege, die mit dem Wachstum und der Entwicklung des MM assoziiert sind. Auf der anderen Seite sind Myelomzellen insensitiv gegenüber einer Blockade des IL6R/STAT3-Signalweges bzw. des Ras/MAPK-Signalwegs in der Gegenwart von Knochenmarksstromazellen (bone marrow stroma cells, BMSCs), was die Entbehrlichkeit dieser beiden Signalwege unter Ko-Kultur-Bedingungen nahelegt. Interessanterweise aber induziert die gleichzeitige Unterbrechung der IL6R/STAT3 und Ras/MAPK Signalwege Apoptose in MM-Zellen. Ziel der Arbeit war die Identifizierung und Analyse von Zielgenen, die von beiden Signalwegen und nicht durch einen Signalweg alleine reguliert werden. Genexpressionsanalysen zeigten eine deutliche Herunterregulierung der Proteine Hsp90alpha und Hsp90beta nach einer gleichzeitigen Inhibition der IL6R/STAT3 und Ras/MAPK Signalwege. In Hinblick auf die zentrale Rolle von Hsp90 in der Tumorbiologie fokussiert sich die vorliegende Arbeit auf die Erforschung der Rolle von Hsp90 im Multiplen Myelom. Die siRNA-vermittelte Herunterregulation der Proteinexpression von Hsp90-Proteinen zeigte, daß das Ausschalten von HsP90alpha alleine nur zu einer moderaten Apoptoseinduktion in INA-6- und MM.1s-Zellen führte. Die gleichzeitige Herunterregulation von HsP90beta hingegen führte zu einer Verstärkung dieses Effektes und deutet darauf hin, daß beide Proteine miteinander kooperieren. Die pharmakologische Inhibition der Hsp90-Funktion mittels eines neuen Hsp90-Inhibitors (17-DMAG) führte zu einer Verringerung von phospho-ERK1/2, zur Degradation von STAT3 und zu einem verminderten Überleben von MM-Zellen. Die pro-apoptotischen Effekte der gestörten Hsp90-Funktion konnten weder durch BMSCs und Osteoklasten noch durch ECs (??) abgeschwächt werden, obwohl für ECs beschrieben wurde, daß sie zum Wachstum und Überleben von MM-Zellen beitragen können. Diese Beobachtungen deuten auf einen positiven Rückkopplungskreislauf zwischen HsP90alpha/beta und den wichtigsten Signalwegen hin, welcher das Überleben von MM-Zellen gewährleistet. Desweiteren zeigten immunhistologische Analysen, daß Hsp90-Proteine im Vergleich zu MGUS (??) bzw. normalen Plasmazellen in MM-Plasmazellen hochreguliert sind. Zusammengefasst zeigen die Ergebnisse der vorliegenden Arbeit die essentielle Rolle von Hsp90-Proteinen für die Überlebensfähigkeit von MM-Zellen. Ein neuer Mechanismus der Hsp90-Regulation durch das Zusammenwirken der Signalwege IL6R/STAT3 und Ras/MAPK in MM-Zellen konnte gezeigt werden. Darüber hinaus deuten die Ergebnisse darauf hin, daß ein positiver Rückkopplungskreislauf zwischen Hsp90-Proteinen und den wichtigsten Signalwegen existiert, welcher zum Wachstum und zur Entwicklung von MM-Zellen beiträgt. Die Inhibition der Hsp90-Funktion durch den pharmakologischen Inhibitor 17-DMAG führte zum Absterben von MM-Zellen und der pro-apoptotische Effekt der Hsp90-Depletion konnte nicht durch unterstützende BMM-Zellen aufgehoben werden. Diese Beobachtungen untermauern die multifunktionelle Rolle von Hsp90 in der MM-Biologie und zeigen die Wichtigkeit der Entwicklung neuer therapeutischer Wirkstoffe zur Inhibition der Hsp90-Funktion bei der Behandlung des MM. / Multiple myeloma (MM) is a haematological malignancy characterised by the accumulation of malignant plasma cells in the bone marrow leading to impaired haematopoiesis and osteolytic bone destruction. Intricate molecular interactions between MM cells and the BMM activate a diverse set of growth, survival and anti-apoptotic signaling cascades that mediate tumor progression and drug resistance. IL-6R/STAT3, Ras/MAPK and PI3K/Akt are the three major signal transduction pathways that are associated with MM growth and progression. However, myeloma cells have shown independence from IL-6R/STAT3 blockade or insensitivity towards Ras/MAPK pathway inhibition in the presence of BMSCs, indicating the dispensability of both in co-culture conditions. Interestingly, concomitant disruption of both IL-6R/STAT3 and Ras/MAPK pathways was successful to drive MM cells into significant apoptosis. This study aimed to identify and analyse the downstream target genes that are regulated by both pathways and not by either pathway alone. Gene expression profiling revealed prominent downregulation of Hsp90alpha and Hsp90beta proteins after combined inhibition of the IL-6R/STAT3 and Ras/MAPK pathways. Owing to the important role played by Hsp90 in cancer biology, this study was narrowed down to investigate the role of Hsp90 in MM. Specific siRNA-mediated knockdown of Hsp90 proteins showed that although knockdown of Hsp90beta was sufficient to induce moderate apoptosis in INA-6 and MM.1s cells, the effect was more pronounced when both Hsp90 proteins were targeted, indicating co-operation between them. Pharmacological inhibition of Hsp90 function by using a novel Hsp90 inhibitor (17-DMAG) down-regulated the levels of pERK1/2 and led to degradation of STAT3 and decreased viability of MM cells. The pro-apoptotic effects of compromised Hsp90 function could not be alleviated by either BMSCs, OCs or ECs, which are well-known to support myeloma growth and survival. These observations point to the existence of a positive feedback loop consisting of Hsp90alpha/beta and major signaling pathways supporting MM cell survival. Furthermore, immunohistochemical analysis unveiled the up-regulated status of Hsp90 proteins in MM PCs as compared to MGUS or normal PCs. Taken together, the results of this study explain the critical contribution of Hsp90 proteins to MM cell survival. A novel mechanism of Hsp90 regulation by co-operation between the IL-6R/STAT3 and Ras/MAPK pathways was discovered in myeloma cells. There is also strong evidence of the existence of a positive feedback loop between Hsp90alpha/beta proteins and major signaling pathways supporting MM growth and progression. Inhibition of Hsp90 function by using the Hsp90 inhibitory drug 17-DMAG proved to be lethal for myeloma cells and the pro-apoptotic effects of Hsp90 blockade could not be reversed by the presence of cells from the supportive BMM. These observations highlight a multi-functional role of Hsp90 in MM biology and strongly strengthen the notion that therapeutic strategies targeting Hsp90 may open new perspectives for anti-myeloma drug development.

Bebês precocemente desmamados apresentam maior incidência de infecções, o que sugere que a ausência de ingestão de alguns fatores presentes no leite materno possa modificar processos de defesa. A glutamina (GLN) está presente em concentração significativa no leite materno, sendo o aumento de sua concentração diretamente proporcional ao período de aleitamento. Esse aminoácido é essencial para a funcionalidade de macrófagos, que apresentam aumento da utilização de GLN durante processos inflamatórios e infecciosos. Bebês apresentam necessidade aumentada de GLN, que é suprida pela ingestão do leite materno, enquanto bebês precocemente desmamados dependem da síntese endógena e do fornecimento exógeno de GLN; todavia, a concentração de GLN em fórmulas infantis artificiais é significantemente baixa ou inexistente. Diante desses fatos, o presente projeto avaliou: (i) o efeito do desmame precoce associado à ingestão de ração isenta e suplementada de GLN sobre a funcionalidade de macrófagos peritoniais e o estado nutricional de camundongos; (ii) o efeito da suplementação com GLN in vitro sobre a funcionalidade de macrófagos peritoniais de camundongos desmamados precocemente e alimentados com ração isenta de GLN; e (iii) o efeito da suplementação crônica com GLN in vivo sobre a funcionalidade de macrófagos peritoniais e o estado nutricional de camundongos desmamados precocemente e inoculados com bacilo de Calmette-Guérin (BCG). O desmame precoce associado à ingestão de ração isenta de GLN reduz o crescimento de camundongos e a concentração de proteína presente no fígado, no músculo esquelético e na carcaça, ao mesmo tempo em que diminui as concentrações plasmática e muscular de GLN e prejudica a resposta hematopoiética (leucopenia e linfopenia associada à redução da celularidade na medula óssea) e a funcionalidade de macrófagos peritoniais (redução da capacidade de adesão, espraiamento, fagocítica e fungicida e da síntese de óxido nítrico (NO), peróxido de hidrogênio (H2O2), fator de necrose tumoral (TNF)-α, interleucina (IL)-1β e IL-6). A suplementação com GLN, por meio da ração, reverteu a diminuição da concentração muscular e hepática de proteína, enquanto essa intervenção nutricional reverteu apenas parcialmente as alterações observadas no tocante à funcionalidade de macrófagos (capacidade de espraiamento e síntese de H2O2, NO, TNF-α, IL-1 e IL-6). A suplementação com GLN in vitro, similarmente ao efeito da suplementação in vivo, reverteu apenas parcialmente o prejuízo da função de macrófagos peritoniais de camundongos desmamados precocemente (capacidade de adesão, espraiamento e fagocítica e síntese de H2O2, NO e IL-6). A suplementação crônica com GLN acarreta em aumento da função de macrófagos peritoniais de camundongos previamente inoculados com BCG (capacidade de adesão, espraiamento e fungicida e síntese de H2O2, NO e TNF-α). A partir dos resultados obtidos neste estudo, conclui-se que a GLN modula a função de macrófagos peritoniais de camundongos desmamados precocemente, contudo, a ausência desse aminoácido na dieta é responsável parcialmente pelo prejuízo induzido pelo desmame precoce. / Precociously weaned infants present a higher incidence of infections, which suggests that the absence of ingestion of certain factors present in maternal milk may modify the organism\'s processes of defence. Glutamine (GLN) is present in a significant concentration in maternal milk, this concentration increasing proportionally with the duration of lactation. This amino acid is essential for the correct functioning of macrophages, which increase their demand for GLN during inflammatory and infectious processes. Infants present a high demand for GLN, which is supplied by the ingestion of maternal milk. Precociously weaned infants, on the other hand, depend on the endogenous synthesis and on the exogenous supply of GLN, however, the concentration of GLN in artificial formulations for infants is significantly low or nonexistent. In view of these facts, this study sought to evaluate: (i) the effect in mice of precocious weaning coupled with an ingestion of either a GLN-free or rich diet on the functionality of their peritoneal macrophages and their nutritional state; (ii) the effect of an in vitro supplementation with GLN on the functionality of peritoneal macrophages obtained from precociously weaned mice that were fed a GLN-free diet; and (iii) the effect of a chronic supplementation with GLN in vivo on the functionality of peritoneal macrophages and on the nutritional state of precociouslyt weaned mice that were previously inoculated with BCG. Early weaning coupled with the ingestion of a GLN-free diet slows down growth in mice and decreases the concentration of protein in the liver, in the skeletal muscle and in the carcass, and at the same time decreases the concentration of GLN in the plasma and in the muscle, hindering the haematopoietic response (resulting in leucopoenia and lymphopoenia associated to the decrease in bone marrow cellularity) as well as the functionality of peritoneal macrophages (decrease in their capacity to adhere, spread, phagocyte, kill fungi and synthesise nitric oxide (NO), hydrogen peroxide (H2O2), tumour necrosis factor (TNF)-α, interleukin (IL)-1β and IL-6). The supplementation with GLN through ingestion of ration was able to reverse the fall in muscle and liver concentrations of protein, whereas it only partly reversed the alterations observed as to the functionality of macrophages (adhesion, spreading, and synthesis of H2O2, NO, TNF-α, IL-1 and IL-6). The in vitro supplementation with GLN, like the effect of the supplementation in vivo, was able to only partly reverse the hindering of the functionality of peritoneal macrophage obtained from precociously weaned mice (as to adhesion, spreading, phagocytosis and synthesis of H2O2, NO and IL-6). The chronic supplementation with GLN leads to an increase in the functionality of peritoneal macrophages obtained from mice that were previously inoculated with BCG (as to adhesion, spreading, killing fungi and synthesis of H2O2, NO and TNF-α). We can therefore conclude, from the results obtained in this study that GLN modulates the functionality of peritoneal macrophages obtained from precociously weaned mice and that the absence of GLN in the diet is partly responsible for the damage induced by precocious weaning.

Bebês precocemente desmamados apresentam maior incidência de infecções, o que sugere que a ausência de ingestão de alguns fatores presentes no leite materno possa modificar processos de defesa. A glutamina (GLN) está presente em concentração significativa no leite materno, sendo o aumento de sua concentração diretamente proporcional ao período de aleitamento. Esse aminoácido é essencial para a funcionalidade de macrófagos, que apresentam aumento da utilização de GLN durante processos inflamatórios e infecciosos. Bebês apresentam necessidade aumentada de GLN, que é suprida pela ingestão do leite materno, enquanto bebês precocemente desmamados dependem da síntese endógena e do fornecimento exógeno de GLN; todavia, a concentração de GLN em fórmulas infantis artificiais é significantemente baixa ou inexistente. Diante desses fatos, o presente projeto avaliou: (i) o efeito do desmame precoce associado à ingestão de ração isenta e suplementada de GLN sobre a funcionalidade de macrófagos peritoniais e o estado nutricional de camundongos; (ii) o efeito da suplementação com GLN in vitro sobre a funcionalidade de macrófagos peritoniais de camundongos desmamados precocemente e alimentados com ração isenta de GLN; e (iii) o efeito da suplementação crônica com GLN in vivo sobre a funcionalidade de macrófagos peritoniais e o estado nutricional de camundongos desmamados precocemente e inoculados com bacilo de Calmette-Guérin (BCG). O desmame precoce associado à ingestão de ração isenta de GLN reduz o crescimento de camundongos e a concentração de proteína presente no fígado, no músculo esquelético e na carcaça, ao mesmo tempo em que diminui as concentrações plasmática e muscular de GLN e prejudica a resposta hematopoiética (leucopenia e linfopenia associada à redução da celularidade na medula óssea) e a funcionalidade de macrófagos peritoniais (redução da capacidade de adesão, espraiamento, fagocítica e fungicida e da síntese de óxido nítrico (NO), peróxido de hidrogênio (H2O2), fator de necrose tumoral (TNF)-α, interleucina (IL)-1β e IL-6). A suplementação com GLN, por meio da ração, reverteu a diminuição da concentração muscular e hepática de proteína, enquanto essa intervenção nutricional reverteu apenas parcialmente as alterações observadas no tocante à funcionalidade de macrófagos (capacidade de espraiamento e síntese de H2O2, NO, TNF-α, IL-1 e IL-6). A suplementação com GLN in vitro, similarmente ao efeito da suplementação in vivo, reverteu apenas parcialmente o prejuízo da função de macrófagos peritoniais de camundongos desmamados precocemente (capacidade de adesão, espraiamento e fagocítica e síntese de H2O2, NO e IL-6). A suplementação crônica com GLN acarreta em aumento da função de macrófagos peritoniais de camundongos previamente inoculados com BCG (capacidade de adesão, espraiamento e fungicida e síntese de H2O2, NO e TNF-α). A partir dos resultados obtidos neste estudo, conclui-se que a GLN modula a função de macrófagos peritoniais de camundongos desmamados precocemente, contudo, a ausência desse aminoácido na dieta é responsável parcialmente pelo prejuízo induzido pelo desmame precoce. / Precociously weaned infants present a higher incidence of infections, which suggests that the absence of ingestion of certain factors present in maternal milk may modify the organism\'s processes of defence. Glutamine (GLN) is present in a significant concentration in maternal milk, this concentration increasing proportionally with the duration of lactation. This amino acid is essential for the correct functioning of macrophages, which increase their demand for GLN during inflammatory and infectious processes. Infants present a high demand for GLN, which is supplied by the ingestion of maternal milk. Precociously weaned infants, on the other hand, depend on the endogenous synthesis and on the exogenous supply of GLN, however, the concentration of GLN in artificial formulations for infants is significantly low or nonexistent. In view of these facts, this study sought to evaluate: (i) the effect in mice of precocious weaning coupled with an ingestion of either a GLN-free or rich diet on the functionality of their peritoneal macrophages and their nutritional state; (ii) the effect of an in vitro supplementation with GLN on the functionality of peritoneal macrophages obtained from precociously weaned mice that were fed a GLN-free diet; and (iii) the effect of a chronic supplementation with GLN in vivo on the functionality of peritoneal macrophages and on the nutritional state of precociouslyt weaned mice that were previously inoculated with BCG. Early weaning coupled with the ingestion of a GLN-free diet slows down growth in mice and decreases the concentration of protein in the liver, in the skeletal muscle and in the carcass, and at the same time decreases the concentration of GLN in the plasma and in the muscle, hindering the haematopoietic response (resulting in leucopoenia and lymphopoenia associated to the decrease in bone marrow cellularity) as well as the functionality of peritoneal macrophages (decrease in their capacity to adhere, spread, phagocyte, kill fungi and synthesise nitric oxide (NO), hydrogen peroxide (H2O2), tumour necrosis factor (TNF)-α, interleukin (IL)-1β and IL-6). The supplementation with GLN through ingestion of ration was able to reverse the fall in muscle and liver concentrations of protein, whereas it only partly reversed the alterations observed as to the functionality of macrophages (adhesion, spreading, and synthesis of H2O2, NO, TNF-α, IL-1 and IL-6). The in vitro supplementation with GLN, like the effect of the supplementation in vivo, was able to only partly reverse the hindering of the functionality of peritoneal macrophage obtained from precociously weaned mice (as to adhesion, spreading, phagocytosis and synthesis of H2O2, NO and IL-6). The chronic supplementation with GLN leads to an increase in the functionality of peritoneal macrophages obtained from mice that were previously inoculated with BCG (as to adhesion, spreading, killing fungi and synthesis of H2O2, NO and TNF-α). We can therefore conclude, from the results obtained in this study that GLN modulates the functionality of peritoneal macrophages obtained from precociously weaned mice and that the absence of GLN in the diet is partly responsible for the damage induced by precocious weaning.

Clonal haematopoiesis of indeterminate potential, or CHIP are a family of mutations present in the general population. CHIP-mutations are prevalent in the haematopoietic stem cells and in the more mature cell populations, T-lymphocytes, B-lymphocytes and myeloid cells (CD3+, CD19+ and CD33+ cells) in blood. By separating these cell populations using magnetic isolation, extracting DNA from the cell populations, and detecting the same mutation in all cell populations, one can prove the presence of CHIP-mutations in a hematopoietic stem cell. At least 50 ng good quality DNA is needed for the gene analysis to detect CHIP-mutations. The magnet separated cell population may be very small, so the DNA extraction method must be optimized to achieve enough DNA yield. The main purpose of the method development was to compare two storage methods before DNA-extractions, and then three different DNA-quantification methods after the DNA-extractions. After the best storage and quantification methods were identified, five samples of cryo-preserved viable cells were used to isolate cell populations using magnetic beads covered in specific antibodies and a magnetic field, and then quantified. Results of the study showed that the best way was to store the cells in ATL-buffer and Proteinase K. To quantify DNA, qPCR was the most accurate method, since the other methods showed incorrect results because of the low DNA concentrations. Magnet cell separation was partly successful. All except one of the DNA yields from the cell separation protocols reached the critical amount of DNA, but some yields were not pure yields of the sought-after cell population. In general, the method must be worked on more with further research.

Cell differentiation is the process of a cell developing from one cell type to another. It is of interest to analyse the differentiation from stem cells to different types of mature cells, and discover what genes are involved in regulating the differentiation to specific cells, for instance to get insights to what is causing certain diseases and find potential treatments.  In this project, two mathematical models are developed for analysing blood cell differentiation (haematopoiesis) with methods based on optimal transportation. Optimal transportation is about moving one mass distribution to another at minimal cost. Modelling a sample of cells as point masses placed in a space based on the cells' gene expressions, accessed by single-cell RNA sequencing, optimal transportation is used to find transitions between cells that costs the least in terms of changes in gene expression. With this, cell-to-cell trajectories, from haematopoietic stem cells to mature blood cells, are obtained. With the first model, cells are divided into groups based on their maturity, which is determined by using diffusion pseudotime, and optimal transportation is preformed between groups. The resulting trajectories suggest that haematopoietic stem cells possibly can develop into the same mature cell type in different ways, and that the cell fate for some cell types is decided late on in development. In future work, the gene regulation along the obtained trajectories can be analysed. The second model is developed to be more general than the first, and not be dependent on a group division before preforming optimal transportation. / Celldifferentiering är processen då en cell utvecklas från en celltyp till en annan. Det är av intresse att analysera differentieringen från stamcell till olika typer av mogna celler, och undersöka vilka gener som har betydelse i regleringen av differentieringen till specifika celler, bland annat för att få en inblick i vad som orsakar vissa sjukdomar och hitta potentiella botemedel. I detta projekt utvecklas två matematiska modeller för att analysera blodcellsutveckling (hematopoes) med metoder som är baserade på optimal transport. Optimal transport handlar om att förflytta en massfördelning till en annan till lägst kostnad. Genom att modellera celler som punktmassor, placerade i ett rum baserat på cellernas genuttryck som fås genom singel-cell RNA-sekvensering, används optimal transport för att hitta förflyttningar mellan celler som kostar minst i termer av förändringar i genuttryck. Från detta skapas vägar mellan celler, från hematopoetiska stamceller till mogna celler. I den första modellen delas cellerna upp i grupper baserat på deras mognadsgrad, som bestäms genom att använda pseudotid baserad på en diffusionsavbildning, och optimal transport används sedan mellan grupperna. De resulterande vägarna visar på att hematopoetiska stamceller möjligen kan utvecklas till samma typ av mogen cell på olika sätt, och att cellödet för vissa typer av celler bestäms sent i utvecklingen. I framtida arbete kan genregleringen längs de funna vägarna analyseras. Den andra modellen utvecklas för att vara mer generell än den första, och inte bero på en gruppuppdelning innan optimal transport används.