Isolation of the murine interleukin 2 gene and characterization of its regulatory architecture

Interleukin 2 (IL2) is the primary growth hormone used by mature T cells and this lymphokine plays an important role in the magnification of cell-mediated immune responses. Under normal circumstances its expression is limited to antigen-activated type 1 helper T cells (T_H1) and the ability to transcribe this gene is often regarded as evidence for commitment to this developmental lineage. There is, however, abundant evidence than many non-T_H1 T cells, under appropriate conditions, possess the ability to express this gene. Of paramount interest in the study of T-cell development is the mechanisms by which differentiating thymocytes are endowed with particular combinations of cell surface proteins and response repertoires. For example, why do most helper T cells express the CD4 differentiation antigen?

As a first step in understanding these developmental processes the gene encoding IL2 was isolated from a mouse genomic library by probing with a conspecific IL2 cDNA. The sequence of the 5' flanking region from + 1 to -2800 was determined and compared to the previously reported human sequence. Extensive identity exists between +1 and -580 (86%) and sites previously shown to be crucial for the proper expression of the human gene are well conserved in both sequence location in the mouse counterpart.

Transient expression assays were used to evaluate the contribution of various genomic sequences to high-level gene expression mediated by a cloned IL2 promoter fragment. Differing lengths of 5' flanking DNA, all terminating in the 5' untranslated region, were linked to a reporter gene, bacterial chloramphenicol acetyltransferase (CAT) and enzyme activity was measured after introduction into IL2-producing cell lines. No CAT was ever detected without stimulation of the recipient cells. A cloned promoter fragment containing only 321 bp of upstream DNA was expressed well in both Jurkat and EL4.El cells. Addition of intragenic or downstream DNA to these 5' IL2-CAT constructs showed that no obvious regulatory regions resided there. However, increasing the extent of 5' DNA from -321 to -2800 revealed several positive and negative regulatory elements. One negative region that was well characterized resided between -750 and -1000 and consisted almost exclusively of alternating purine and pyrimidines. There is no sequence resembling this in the human gene now, but there is evidence that there may have once been.

No region, when deleted, could relax either the stringent induction-dependence on cell-type specificity displayed by this promoter. Reagents that modulated endogenous IL2 expression, such as cAMP, cyclosporin A, and IL1, affected expression of the 5' IL2-CAT constructs also. For a given reagent, expression from all expressible constructs was suppressed or enhanced to the same extent. This suggests that these modulators affect IL2 expression through perturbation of a central inductive signal rather than by summation of the effects of discrete, independently regulated, negative and positive transcription factors.

Associação entre polimorfismos dos genes IL1B, IL1RN e TNFA e a periodontite agressiva e a periodontite crônica severa

A periodontite é um processo inflamatório crônico de origem bacteriana mediado por citocinas, em especial, interleucina-1 (IL1) e fator de necrose tumoral (TNFα). Polimorfismos genéticos de IL1 e TNFA têm sido associados com a variação de expressão dessas proteínas, o que poderia justificar as diferenças interindividuais de manifestação da doença. O objetivo do presente estudo foi investigar possíveis associações entre os genes IL1B, IL1RN e TNFA e a suscetibilidade à periodontite agressiva e à periodontite crônica severa. Foram selecionados 145 pacientes do Estado do Rio de Janeiro, 43 com periodontite agressiva (PAgr) (33,1 4,8 anos), 52 com periodontite crônica severa (PCr) (50,6 5,8 anos) e 50 controles (40,1 7,8 anos). Os DNAs genômicos dos integrantes dos grupos PAgr, PCr e controle foram obtidos através da coleta de células epiteliais bucais raspadas da parte interna da bochecha com cotonete. Os SNPs IL1B -511C>T, IL1B +3954C>T e TNFA -1031T>C foram analisados pela técnica de PCR-RFLP, utilizando as enzimas de restrição Ava I Taq I e Bpi I, respectivamente. O polimorfismo de número variável de repetições in tandem (VNTR) no intron 2 do gene IL1RN foi feita pela análise direta dos amplicons. Todos os polimorfismos foram analisados por eletroforese em gel de poliacrilamida 8%. As frequências alélica e genotípica do polimorfismo IL1B +3954C>T no grupo PCr foram significativamente diferentes das observadas no grupo controle (p=0,003 e p=0,041, respectivamente). A freqüência do alelo A2 do polimorfismo IL1RN VNTR intron2 no grupo PAgr foi significativamente maior do que no grupo controle (p=0,035). Não houve associação entre os polimorfismos IL1B -511C>T e TNFA -1031T>C e as periodontites agressiva e crônica. A presença dos alelos 2 nos genótipos combinados de IL1RN VNTR intron2 e IL1B +3954C>T no grupo PCr foi significativamente maior quando comparada ao grupo controle (p=0,045). Entretanto, não se observou associação entre as combinações genotípicas IL1B -511C>T / IL1B +3954C>T e IL1RN VNTR / IL1B -511C>T e a predisposição à doença periodontal. De acordo com os nossos resultados podemos sugerir que, para a população estudada, o polimorfismo IL1B +3954C>T interfere no desenvolvimento da periodontite crônica, enquanto a presença do alelo A2 do polimorfismo IL1RN VNTR intron2 pode ser considerado como indicador de risco para a periodontite agressiva. O presente estudo também nos permite sugerir que a ausência de homozigose dos alelos 1 nos genótipos combinados de IL1RN VNTR intron2 e IL1B +3954C>T pode representar maior suscetibilidade à periodontite crônica severa.

Structural Characterizations of the Dimeric Anti-HIV Antibody 2G12 and the HIV-2 Envelope Glycoprotein

More than thirty years after the discovery that Human Immunodeficiency Virus (HIV) was the causative agent of Acquired Immunodeficiency Syndrome (AIDS), the disease remains pandemic as long as no effective universal vaccine is found. Over 34 million individuals in the world are infected with the virus, and the vast majority of them have no access to the antiretroviral therapies that have largely reduced HIV to a chronic disease in the developed world. The first chapter of this thesis introduces the history of the virus. The key to the infectious mechanism of the virus lies in its envelope glycoprotein (Env), a trimeric spike on the viral surface that utilizes host T cell receptors for entry. Though HIV-1 Env is immunogenic, most infected patients do not mount an effective neutralizing antibody response against it. Broadly-neutralizing anti-Env antibodies (bNAbs) present in the serum of a minority of infected individuals are usually sufficient to prevent the progression to full blown AIDS. Thus, the molecular details of these bNAbs as well as the antibody-antigen interface are of prime interest for structural studies, as insight gained would contribute to the design of a more effective immunogen and potential vaccine candidate. The second chapter of this thesis describes the low-resolution crystal structure of one such antibody, 2G12 dimer, which targets a high mannose epitope on the surface of Env. Patients infected with HIV-2, a related virus with ~35% sequence identity in the Env region, can generally mount a robust antibody response sufficient for viral control for reasons still unknown. The final two chapters of this thesis focus on the first reported structural studies of HIV-2 Env, the molecular details of which may inform HIV-1 therapy and immunogen design.

'Fa Tsai', a Chinese edible Nostoc in market. [Translation from: Bulletin of the Japanese Society of Phycology 8 124-126, 1960. ]

The Nostoc 'Fa Tsai' is sometimes seen in Chinese cooking materials stores. It is investigated what 'Fa Tsai' consists of and where it originates.

Keys to the larvae of the species of the genera Diamesa, Eukiefferiella, Orthocladius, Cricotopus, Psectrocladius and Chaetocladius. [Translation from: Larvae and pupae of midges of the subfamily Orthocladiinae of the fauna of the USSR (Diptera, Chironomidae = Tendipedidae) (ed. V.Y. Pankratova) p76-8,151-152,173-174,188-189. Leningrad, Nauka, 1970. ]

Eudiaptomus vulgaris Schmeil is the most abundant copepod in Lake Maggiore and forms also, in respect to other entomostraca, the most important element, through its average biomass and because it is fairly numerous throughout the year. Plankton samples collected in a systematic and quantitative way, gave the opportunity to study some aspects of the dynamics of the population of this copepod, in safety in view of the uncertainty which in this kind of study can ensue when samples are taken only at a single station - in consequence of the changes in size of population between different water masses. The results of the biometrical observations are of the population of Eudiaptomus vulgaris is presented.

The problem of the co-existence of Arctodiaptomus bacillifer (Koelb.), Acanthodiaptomus denticornis (Wierz.) and Heterocope saliens Lill [Translation from: Memorie dell'Istituto Italiano di Idrobiologia Dott.Marco de Marchi 8 81-94, 1954]

In freshwater environments of modest size and without notable ecological structure, there is usually present only one diaptomid species. When two or more diaptomid species are present in the same habitat, generally their body dimensions are distinctly different. There are only four examples of co-existence of Arctodiaptomus bacillifer (Koelb.) and Acanthodiaptomus denticornis (Wierz.) situated at higher altitudes alpine lakes. The article discusses the results of sampling in the summer of 1953 and the problem of the co-existence of Arctodiaptomus bacillifer, Acanthodiaptomus denticornis and Heterocope saliens.

A contribution to the knowledge of the skin albuminose cells of Torpedo ocellata Raf [Riv.Istochim.norm.pat. 8 411-416, 1962]

Glandular cells, other than the mucous cells, have been described in the skin of various groups of fish (Teleosts, Ganoids, Selachii) and they have been called 'albuminose' by various authors. The authors propose to study the albuminose cells in the skin of Torpedo ocellata Raf. from a histochemical point of view. The albuminose cells have a complex morphological structure and a correspondingly complicated histochemical make-up. One must treat them as an example of cell with secretions of a particular type, which must and will be better incorporated when more is known of characteristics existent in other species.

Rearing cyprinid fry in cages [conclusions only] [Translation from: Gospodarka rybna, Warszawa 27(8/9) 3-5, 1975]

This short translation presents the conclusions only of a study of the proposed method of rearing cyprinid fry in cages and how this method can increase the amount of material produced of the stocked fry.

Technology for Single Cell Protein Analysis in Immunology and Cancer Prognostics

The first chapter of this thesis deals with automating data gathering for single cell microfluidic tests. The programs developed saved significant amounts of time with no loss in accuracy. The technology from this chapter was applied to experiments in both Chapters 4 and 5.

The second chapter describes the use of statistical learning to prognose if an anti-angiogenic drug (Bevacizumab) would successfully treat a glioblastoma multiforme tumor. This was conducted by first measuring protein levels from 92 blood samples using the DNA-encoded antibody library platform. This allowed the measure of 35 different proteins per sample, with comparable sensitivity to ELISA. Two statistical learning models were developed in order to predict whether the treatment would succeed. The first, logistic regression, predicted with 85% accuracy and an AUC of 0.901 using a five protein panel. These five proteins were statistically significant predictors and gave insight into the mechanism behind anti-angiogenic success/failure. The second model, an ensemble model of logistic regression, kNN, and random forest, predicted with a slightly higher accuracy of 87%.

The third chapter details the development of a photocleavable conjugate that multiplexed cell surface detection in microfluidic devices. The method successfully detected streptavidin on coated beads with 92% positive predictive rate. Furthermore, chambers with 0, 1, 2, and 3+ beads were statistically distinguishable. The method was then used to detect CD3 on Jurkat T cells, yielding a positive predictive rate of 49% and false positive rate of 0%.

The fourth chapter talks about the use of measuring T cell polyfunctionality in order to predict whether a patient will succeed an adoptive T cells transfer therapy. In 15 patients, we measured 10 proteins from individual T cells (~300 cells per patient). The polyfunctional strength index was calculated, which was then correlated with the patient's progress free survival (PFS) time. 52 other parameters measured in the single cell test were correlated with the PFS. No statistical correlator has been determined, however, and more data is necessary to reach a conclusion.

Finally, the fifth chapter talks about the interactions between T cells and how that affects their protein secretion. It was observed that T cells in direct contact selectively enhance their protein secretion, in some cases by over 5 fold. This occurred for Granzyme B, Perforin, CCL4, TNFa, and IFNg. IL- 10 was shown to decrease slightly upon contact. This phenomenon held true for T cells from all patients tested (n=8). Using single cell data, the theoretical protein secretion frequency was calculated for two cells and then compared to the observed rate of secretion for both two cells not in contact, and two cells in contact. In over 90% of cases, the theoretical protein secretion rate matched that of two cells not in contact.

High-efficiency diffraction gratings in fused silica at the wavelength of 632.8 nm

We describe high-efficiency diffraction gratings fabricated in fused silica at the wavelength of 632.8 nm by rigorous coupled-wave analysis (RCWA). High-density holographic gratings, if the groove density falls within the range of 1575-1630 lines/mm and the groove depth within the range of 1.1-1.3 microns, can realize high diffraction efficiencies at the wavelength of 632.8 nm, e.g., the first Bragg diffraction efficiency can theoretically achieve more than 93% both in TE- and TM-polarized incidences, which greatly reduces the polarization-dependent losses. Note that with different groove profiles further optimized, the maximum efficiency of more than 99.69% can be achieved for TM-polarized incidence, or 97.81% for TE-polarized incidence.

Photoproduction of ETA mesons from hydrogen at photon energies between 0.8 and 1.45 GeV

We measured the differential cross section of the process γp → pƞ at the 1.5 GeV Caltech electron synchrotron, at photon energies from 0.8 to 1.45 GeV, at various angles between 45° and 100° in the center of mass. A counter-spark chamber array was used to determine the kinematics of all particles in the final state of the partial mode γp → pƞ (ƞ → 2γ). Analysis of 40,000 pictures yielded 6,000 events above a background which varied with energy from 5% to 30% of foreground. The cross section shows an energy dependence confirming earlier results up to 1000 MeV, but with improved statistics; it then remains roughly constant (at 50° C.M.), to 1.45 GeV. The data show a small angular variation, within the limited range covered, at energies between 1000 and 1100 MeV.

Redução dos níveis de IL-18 no fundo gengival após tratamento periodontal não-cirúrgico

O objetivo desse estudo foi avaliar o efeito do tratamento não-cirúrgico sobre os níveis da IL-18 em sítios inflamados de pacientes com doença periodontal. Foram avaliados 14 pacientes com doença periodontal, sendo 9 pacientes com periodontite crônica generalizada (media 48,8 DP 7,4 anos) e 5 pacientes com gengivite (43,6 DP 11,8 anos). Nos pacientes com periodontite, os sítios foram divididos em: sem (GP) e com perda de inserção clínica (PP). Os sítios de pacientes com gengivite foram denominados GG. Os pacientes foram avaliados no dia 0, receberam tratamento periodontal não-cirúrgico, e foram novamente avaliados 30 dias depois. Os parâmetros clínicos utilizados no dia 0 e dia 30 foram: Índice de Placa (IP), Índice gengival (IG), Índice de placa visível (IPV), sangramento gengival a sondagem, profundidade de bolsa à sondagem (PBS) e nível de inserção (NI). Foram realizadas coletas de fluido gengival (FG) em 5 sítios GP, 5 sítios PP e em 5 sítios GG por paciente no dia 0 e dia 30. IPV reduziu significantemente de 33,7% para 10,7%. A % de sitos comPBS >4 mm reduziu significantemente de 81,7% para 53,4%. Quando todos os sítios (GG, GP, PP) foram analisados juntos, houve uma redução significante para os níveis de IL-18, IP, IG e PBS. Sendo assim, podemos concluir que houve uma redução significante dos níveis de IL-18 nos sítios inflamados de pacientes com doença periodontal acompanhado por uma melhora significante nos parâmetros clínicos periodontais.

CICLOADICIONES [3+2] Y [8+2] Y SU APLICACIÓN A LA SÍNTESIS DE MOLÉCULAS MARCADAS Y SENSORES DE ADN FLUORESCENTES

La presente Tesis Doctoral está encaminada hacia el estudio de las cicloadiciones y su aplicación a la síntesis de moléculas marcadas y sensores de ADN fluorescentes. La primera línea de trabajo se basará en el diseño y síntesis de dos nuevos grupos de moléculas fluorescentes basadas en las benzo[a]imidazo[5,1,2-cd]indolizinas y en las 2,3,9c-triazociclo-penta[j,k]fluorenos mediante la cicloadición [8 + 2]. También se lleva a cabo la síntesis de los derivados los aductos [8+2] que pudieran interaccionar con el ADN y posteriores experimentos de unión al ADN de los compuestos sintetizados. Por otro lado, la segunda línea de investigación consistirá en la búsqueda de estrategias sintéticas para la obtención de un precursor de un inhibidor de HDAC para su utilización en estudios de biodistribución mediante técnicas basados en radioactividad, como son la de tomografía por emisión de positrones y el método de disección.