Diss. (sammanfattning) Stockholm : Karolinska institutet, 2007. / Härtill 6 uppsatser.

Diss. (sammanfattning) Stockholm : Karolinska institutet, 2007. / Härtill 4 uppsatser.

Diss. (sammanfattning) Stockholm : Karolinska institutet, 2005. / Härtill 5 uppsatser.

Diss. (sammanfattning) Stockholm : Karolinska institutet, 2006. / Härtill 4 uppsatser.

Thesis (Ph. D.)--University of Missouri--Columbia, 1997. / Typescript. Vita. Includes bibliographical references (leaves : 144-159). Also available on the Internet.

The antibody class switch is achieved by DNA recombination between the sequences called switch (S) regions located 5' to immunoglobulin (Ig) heavy chain constant (CH) region genes. This process can be induced in cultured B cells by polyclonal stimulation and switching can be directed to specific antibody classes by certain lymphokines. These stimuli may regulate the accessibility of CH genes and their S regions to a recombinase as indicated by hypomethylation and transcriptional activity. For example, RNAs transcribed from specific unrearranged (germ-line) CH genes are induced prior to switching under conditions that promote subsequent switching to these same CH genes. The function of transcription of these germ-line CH genes is unknown. How stimuli regulate the accessibility of CHgenes is also unclear. I report in this dissertation the structure of the RNA transcribed from the unrearranged Cγ1 gene in mouse spleen cells treated with LPS plus a HeLa cell supernatant containing recombinant interleukin 4 (rIL-4). I will also show that an 150-bp region upstream of the first initiation site of germ-line γ1 RNA contains promoter and enhancer elements responsible for basal level expression and inducibility by phorbol 12-myristate 13-acetate (PMA) and synergy with IL-4 in an IgM+ B cell line, L10A6.2, and an IgG2a+B cell line, A20.3. The germ-line γ1 RNA is initiated at multiple start sites 5' to the tandem repeats of the γ1 switch (Sγ1) region. As is true for analogous RNAs transcribed from other unrearranged genes, the germ-line γ1 RNA has an I exon transcribed from the region 5' to the Sγ1 region.. The Iγ1 exon is spliced at a unique site to the Cγ1 gene. The germ-line γ1 RNA has an open-reading frame (ORF) that potentially encodes a small protein 48 amino acids in length. Elements located within the 150 bp region 5' to the first initiation site of germ-line γ1 RNA are necessary and sufficient to confer inducibility by PMA and synergy with IL-4 to a minimal thymidine kinase (TK) promoter in L10A6.2 cells but are not sufficient to confer this inducibility in A20.3 cells. Linker-scanning mutations demonstrated that these multiple elements function in a mutually dependent manner as indicated by the fact that mutation of any single element will decrease constitutive expression and inducibility by PMA and PMA plus IL-4. This 150-bp region contains several consensus sequences that bind to known or putative transcription factors, including a C/EBP binding site/IL-4 response element (in the promoter for Ia Aαkgene), four CACCC boxes, a PU box, a TGFβ inhibitory element (TIE), an interferon-αβ response element (αβIRE), and an AP-3 site. My results begin to provide a description of the mechanism of regulation of the accessibility of unrearranged germ-line Sγ1-Cγ1 gene. By activating the germ-line γ1 promoter, IL-4 induces transcription of germ-line γ1 RNA, thereby inducing accessibility of the Sγ1-Cγ1 gene. By inhibiting expression of the germ-line γ1 promoter, IFNγ and TGFβ down-regulate transcription of germ-line γ1 RNA, thus reducing the accessibility of the Sγ1-Cγ1 gene. My results also suggest that signaling via the antigen receptor on B cells may be involved in induction of switch to IgG1. Furthermore, this is the first case reported in which multiple functionally interdependent elements are needed to respond to PMA.

Afin de caractériser les profils de distribution de l’ARN Pol II en aval des EAGs, j’ai réalisé des expériences de ChIP-seq en utilisant un anticorps reconnaissant toutes les formes d’ARN Pol II humaine. J’ai analysé les profils de Pol II en aval de 13787 gènes qui n’ont pas de gène flanquant à +/- 4kb en amont ou en aval. Nos résultats ont été analysés en comparaison avec des données disponibles de séquençage à haut débit d’ARN naissants (Global Run On assay coupled sequencing : GRO-seq). Nos résultats montrent qu’un enrichissement de la Pol II en aval de l’extrémité des unités de transcription est une caractéristique partagée par tous les gènes exprimés et reflète la présence d’ARN Pol II active. Des analyses bioinformatiques (K-means clustering) m’ont permis de distinguer quatre groupes de gènes : le premier groupe (H) est caractérisé par un profil de pause étroit alors que les trois autres groupes (PA1-PA3) montrent un profil large ou très large, pouvant aller jusqu’à 6kb en aval des EAGs. Des analyses d’annotations (Gene Ontology) révèlent que le groupe H contient pratiquement exclusivement des gènes d’histones qui ne contiennent pas d’intron et dont les transcrits ne sont pas polyadénylés. A l’inverse, les groupes PA1-PA3 contiennent des gènes codant pour des transcrits polyadénylés. J’ai confirmé par des expériences de ChIP couplées à une analyse par qPCR les différents types de profils de distribution de Pol II décrits par analyse bioinformatique. Nos résultats sont en accord avec d’autres publications et suggèrent un lien entre le profil de distribution de la Pol II à l’extrémité 3’ des gènes histones et les mécanismes particuliers de maturation de l’extrémité 3’ de ces transcrits. Cette idée est renforcée par nos analyses fonctionnelles montrant que l’inhibition des mécanismes de polyadénylation augment la présence de l’ARN Pol II en 3’ des EAGs pour les gènes codant pour des transcrits polyadénylés. / The Pol II transcription cycle can be divided into three main phases: transcription initiation, elongation and termination. Each phase represent a possibility for the regulation of gene expression. Recently, genome-wide studies demonstrated that Pol II pausing is an important regulatory step that is present at almost every eukaryotic Pol II promoter. Surprisingly, paused or slowed down polymerases were also discovered downstream of 3’ end of genes, of which the exact role is still not fully understood.During my Ph.D. I carried out projects using chromatin immunoprecipitation assay coupled to high-throughput sequencing techniques to analyze genome-wide Pol II behavior in two aspects:First, we analyzed Pol II occupancy downstream of 3’ end of transcription units. Our analyses suggest that accumulation of Pol II downstream of genes is a genome-wide feature of active transcription. We found broad, often up to 6kb long Pol II occupancy signals at genes coding for polyadenylated transcripts. In contrast, Pol II occupancy shows a narrow profile at the annotated end of core histone genes. We also found a link between RNA 3’ end processing and Pol II accumulation at the end of transcription units.Second, we were following the genome-wide response and alteration of Pol II transcription upon genotoxic stress. Following UV-B treatment we observed a progressive Pol II signal loss from the promoters of expressed genes, which will then extend through the entire transcription unit, up to four hours after irradiation. This is in good agreement with the observation that after UV irradiation transcription is arrested during the period of transcription-coupled repair (TCR).

Net Promoter Score (NPS) is considered to be an important metric for measuring customer loyalty. The concept is widely popular and adopted in several established and emerging industries. This master’s thesis work is aimed to spot the factors influencing the NPS of a company and the score rated by an individual. The study is conducted at a SaaS company, Funnel. Starting with the exploration of NPS in Funnel, the thesis work goes on to deep-dive in the journey of Funnel’s customers who responded to NPS. Each customer journey is presented as an individual case study. There are five such case-studies that represent five customers belonging to three distinct behavioural groups marked by NPS (Promoter, detractors and passives). The cases are analysed together with formulation of a revised framework of customer loyalty. The framework demonstrates factors that affect the customer loyalty, individual NPS response, and consequently the customer behaviour. It is noticed that customer satisfaction plays an important role in the individual response to NPS survey along with multiple other factors that influence the customer attitude and behaviour in different ways. It is also observed that the customer behaviour in the cases differs from the expected behaviour of promoters, detractors and passives proposed by NPS.   The findings show that the loyalty behaviour could be manifested due to multiple industry-specific factors which are irrespective of company’s internal performance and satisfaction. Hence, the phenomenon of loyalty and satisfaction is addressed on an industry level. The analysis unfolds a theory that is demonstrated with a matrix to understand the impact of industry dynamic on satisfaction-loyalty relationship. This varying satisfaction-loyalty relationship calls for alterations in NPS practices as per the industry characteristics.

Made available in DSpace on 2014-06-11T19:35:11Z (GMT). No. of bitstreams: 0 Previous issue date: 2010-02-05Bitstream added on 2014-06-13T20:26:13Z : No. of bitstreams: 1 goncalves_fs_dr_jabo.pdf: 3109118 bytes, checksum: 5a4b81536e1b9bd9d62a0e42796b675b (MD5) / Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES) / O fator de transcrição Oct-4 é bem conservado entre as espécies e é conhecido por ser expresso em embriões e células-tronco embrionárias (CTE), sendo um importante marcador da pluripotência. Recentemente, foi relatado que a combinação de Oct-4 com três outros fatores de transcrição Klf-4, c-Myc e Sox2 foram capazes de reprogramar células somáticas a um estado indiferenciado pluripotente, chamadas células-tronco pluripotentes induzidas (“células iPS”), as quais apresentam várias das mesmas propriedades das CTE incluindo a pluripotência, auto-renovação e proliferação. O objetivo desse estudo foi avaliar a funcionalidade do promotor Oct-4 de eqüino em CTE de murinos. Três vetores plasmidiais expressando GFP (“green fluorescent protein”) sob o controle do promotor Oct-4 de equinos, camundongo e quatro vetores lentivirais, também contendo o gene reporter GFP e os promotores Oct-4 de equinos, camundongo e humanos, pLZ2-ecOCT-EGFP (meq) (sequência equivalente de camundongos), pLZ2-ecOCT-EGFP (heq) (sequência equivalente de humanos), pLZ2-mOCT-EGFP e pLZ2-hOCT-EGFP, respectivamente, foram construídos. Todos os vetores também contêm um sítio de resistência à blasticidina que permite a seleção das células estáveis e das células transduzidas. Essas construções plasmidiais foram verificadas se funcionavam eficientemente, bem como o efeito do promotor Oct-4 em transfectar transientes e estáveis CTE. As construções com promotor Oct-4 de camundongo, humano e eqüino (sequência análoga à de camundongo) produziram somente 6% de células GFP positivas com intensidade de fluorescência (IF) >1000 pela análise em citômetro de fluxo, enquanto que o plasmídeo contendo o promotor Oct-4 de eqüino (sequência equivalente à de humanos) produziu menos células GFP positivas (>3%) com IF >1000, quando... / The pluripotency transcription factor Oct-4 is well conserved among species and is known to be expressed in embryos and embryonic stem (ES) cells; it is being an important pluripotency marker. It was recently demonstrated that the combination of Oct-4 with three other factors Klf-4, c-myc and Sox2 were able to reprogram somatic cells to a pluripotent and undifferentiated state. These cells known as induced pluripotent stem (iPS) cells share several properties with ES cells including self-renewal, proliferation and pluripotency. The aim of this study was to assess the functionality of the horse Oct-4 promoter in mouse ES cells. Three plasmids vectors expressing GFP (green fluorescent protein) under the control of the horse, mouse and four lentivirus vectors also containing reporter gene GFP and horse, mouse and human promoters, pLZ2-ecOCT-EGFP (mouse sequence equivalent), pLZ2-ecOCT-EGFP (human sequence equivalent), pLZ2-mOCT-EGFP and pLZ2-hOCT-EGFP, respectively, were built. All these vectors also contain a blasticidin resistance cassette to allow selection of transfected stable cells and transduced cells. Afterwards, to assess the functionality of the Oct-4 promoter all plasmids were tranfected the into transient and stable mouse ES cells. Constructs with mouse, human and horse (mouse analog sequence) Oct-4 promoter produced only 6% GFP positive cells with fluorescence intensity (FI)>1000 by 20 FACs assay, while plasmid horse (human analog sequence) Oct-4 promoter produced less GFP positive cells (>3%) with FI>1000, when compared with the positive control and among groups. However, GFP expression was not present in stable cells, whereas there were Blasticidin-resistant colonies-forming from 6 days post-transfection. To optimize the system in mouse ES cells, pLZ2-mOCT-EGFP and pLZ2-hOCT-EGFP lentivectors, were tested as controls. It was used HIV-1-derived... (Complete abstract click electronic access below)

La salinité de l'eau d'irrigation et des sols est l'une des principales contraintes abiotiques en agriculture. Parmi les 130 mha de riz cultivés dans le monde, 30% environ se trouvent dans des zones où la salinité est trop élevée pour permettre de bons rendements. Dans l'objectif de mieux comprendre le rôle des systèmes de transport de Na+ dans la compartimentation de Na+ dans la plante permettant de maintenir un rapport K+/Na+ élevé dans les tissus sensibles lors d’un stress salin, je me suis intéressé à deux transporteurs de la famille HKT, OsHKT1;1 et OsHKT1;3, chez le riz, la plante modèle des céréales. Mon principal projet a allié une stratégie "promoteur::GUS" pour préciser les patrons d'expression in planta des deux gènes, et une approche de génétique inverse en produisant des mutants pertes de fonction à l’aide de la technologie CRISPR-Cas9, qui s’est confirmée être un outil efficace pour générer des mutations indèles après cassure ciblée de l’ADN, transmissibles de façon stable chez le riz. Les tests histochimiques de l’activité GUS ont montré une expression prédominante d’OsHKT1;1 et d’OsHKT1;3 dans les tissus vasculaires (parenchyme xylémien et/ou phloème), essentiellement au niveau des parties aériennes. L’analyse phénotypique des plantes "CRISPR" a mis en évidence des modifications des profils d’accumulation de Na+ dans les feuilles chez les mutants: défaut d’accumulation de Na+ dans les gaines foliaires pour les plantes oshkt1;1 et répartition altérée de Na+ entre les vieilles et les jeunes feuilles chez les plantes oshkt1;3, conduisant à une augmentation de la teneur en Na+ dans les limbes des jeunes feuilles chez les 2 types de mutants. Dans l’ensemble, ces résultats suggèrent qu’OsHKT1;1 et OsHKT1;3 participent au dessalage des jeunes limbes foliaires lors d’un stress salin, via des mécanismes différents, contrôlant les transports xylémiques et phloémiens de Na+. En plus de cette étude, j’ai collaboré avec un groupe de généticiens, qui avait identifié une forte association entre des différences écotypiques de contenu racinaire en Na+ et de rapport K+/Na+, et une région du chromosome 4 du riz comprenant le gène OsHKT1;1. En comparant fonctionnellement par électrophysiologie les deux variants majeurs d’OsHKT1;1, des différences de capacités de transport de Na+ susceptibles d’expliquer le trait racinaire ont été observées. L’ensemble des données obtenues souligne l’intérêt d’analyser tous des gènes HKT de riz dans les mécanismes de tolérance de la plante à la salinité / The salinity of irrigation water and soils is one of the main abiotic constraints in agriculture. Among the 130 mha of rice grown around the world, about 30% are in areas where salinity is too high to allow for good yields. In order to better understand the role of Na+ transport systems in the compartmentalization of Na+ in the plant to maintain a high K+/Na+ ratio in sensitive tissues during salt stress, I focused on two transporters from the HKT family, OsHKT1;1 and OsHKT1;3, in rice, the model cereal species. My main project combined a “promoter::GUS” strategy to specify the expression pattern of both genes, and a reverse genetics approach by producing loss-of-function mutants using the CRISPR-CAS9 technology, which was confirmed to be an efficient tool for generating indel mutations after targeted DNA breaks, stably transmitted in rice. Histochemical tests of GUS activity showed predominant expression of OsHKT1;1 and OsHKT1;3 in vascular tissues (xylem parenchyma and/or phloem), mainly in the aerial parts. Phenotypic analysis of "CRISPR" plants revealed changes in leaf Na+ accumulation profiles in mutants: lack of Na+ accumulation in leaf sheaths for oshkt1;1 plants and altered distribution of Na+ between old and young leaves in oshkt1;3 plants, leading to an increase in the leaf blade Na+ content in both types of mutants. Overall, these results suggest that OsHKT1 and OsHKT1.3 contribute to the desalination of young leaf blades during salt stress, via different mechanisms, controlling transports of Na+ through the xylem and phloem. In addition to this study, I collaborated with a group of geneticists who identified a strong association between ecotypic differences in root Na+ and K+/Na+ ratio, and a region of chromosome 4 of rice including the OsHKT1;1 gene. By comparing electrophysiologically the two major variants of OsHKT1;1, differences in Na+ transport capacities that could explain the root trait were observed. All the data obtained underline the interest of analyzing all HKT genes of rice in the mechanisms of plant tolerance to salinity.