Closure joints are used in precast bridge construction to join two pieces of precast concrete. The pieces of concrete are joined by a lap splice which consists of longitudinal steel sticking out of each precast element and overlapped over the minimum required development length. State departments of transportation find it desirable to make the width of closure joints short. To achieve this, bridge engineers have been using hooked bars in the closure joints in lieu of straight bars, with the assumption that this would allow for shorter splice lengths. Though engineers in practice are doing this, design guidance does not exist. One research project by Coleman (2024) tested 58 beam-splice specimens to investigate the impacts of a variety of parameters on bond and anchorage and develop design guidance for hooked bar lap splices. This project did not investigate three parameters: the number of lap splices, the placement of transverse reinforcement, and the addition of steel fibers in the closure joint. For this thesis, 15 beam-splice specimens were tested in 4 point-bending to investigate the impact of these parameters on bond and validate the descriptive equation developed by Coleman (2024) to determine the bar stress of a hooked bar lap splice. The findings of this study suggest that the number of splices and the placement of transverse reinforcement has minimal impact on the bar stress developed, and the equation by Coleman (2024) adequately predicts the bar stress when these parameters were varied. The addition of steel fibers to the closure joint had a substantial impact on increasing the splice strength. In the beams where steel fibers were added in a 1% fiber volume fraction, the descriptive equation by Coleman (2024) underpredicted the bar stress for both unconfined and confined beams with the addition of fibers. Thus, this thesis proposes a factor to multiply the descriptive equation by determining the bar stress when steel fibers are added. With these findings, using steel fibers in closure joints for precast concrete can be used to reduce splice length in non-contact hooked bar lap splices. / Master of Science / Precast concrete is concrete that is cast off-site in a controlled environment and transported to the site to then be put together at the site of a project. In bridge construction, this is very beneficial to projects since it means that there is more quality control of the specimens and can allow for faster construction times since the components can have time to cure to strength off-site. To put together pieces of precast concrete to create continuous beams and other components, a closure joint is used. These closure joints consist of two precast pieces of concrete which have longitudinal steel sticking out of each precast element. The pieces of concrete are then joined by overlapping the longitudinal steel in a lap splice. Where a lap splice is used to develop the minimum development, length is required to provide the adequate bar strength such that load will be transferred from one beam to another to create a continuous beam. State departments of transportation find it desirable to make the width of closure joints short. Since closure joint width is typically controlled by the minimum development length required to connect the pieces of concrete, the main way to reduce the width is to reduce the minimum development length. To achieve this, bridge engineers have been using hooked bars in the closure joints in lieu of straight bars, with the assumption that this would allow for shorter splice lengths. Though engineers in practice are doing this, design guidance does not exist. One research project by Coleman (2024) tested 58 beam-splice specimens to investigate the impacts of a variety of parameters on bond and anchorage and develop design guidance for hooked bar lap splices. This project did not investigate three parameters: the number of lap splices, the placement of transverse reinforcement, and the addition of steel fibers in the closure joint. For this thesis, 15 beam-splice specimens were tested in 4 point-bending to investigate the impact of these parameters on bond and validate the descriptive equation developed by Coleman (2024) to determine the bar stress of a hooked bar lap splice. The findings of this study suggest that the number of splices and the placement of transverse reinforcement has minimal impact on the bar stress developed, and the equation by Coleman (2024) adequately predicts the bar stress when these parameters were varied. The addition of steel fibers to the closure joint had a substantial impact on increasing the splice strength. In the beams where steel fibers were added in a 1% fiber volume fraction, the descriptive equation by Coleman (2024) underpredicted the bar stress for both unconfined and confined beams with the addition of fibers. Thus, this thesis proposes a factor to multiply the descriptive equation by determining the bar stress when steel fibers are added. With these findings, using steel fibers in closure joints for precast concrete can be used to reduce splice length in non-contact hooked bar lap splices.

The mechanisms of pre-mRNA splicing regulation are poorly understood. Here we dissect how the Saccharomyces cerevisiae ribosomal L30 protein blocks splicing of its pre-mRNA upon binding a kink-turn structure including the 5' splice site. We show that L30 binds the nascent RPL30 transcript without preventing recognition of the 5' splice site by U1 snRNP but blocking U2 snRNP association with the branch site. Interaction of the factors BBP and Mud2p with the intron, relevant for U2 snRNP recruitment, is not affected by L30. Furthermore, the functions of neither the DEAD-box protein Sub2p in the incipient spliceosome, nor of the U2 snRNP factor Cus2p on branch site recognition, are required for L30 inhibition. These findings contrast with the effects caused by binding a heterologous protein to the same region, completely blocking intron recognition. Collectively, our data suggest that L30 represses a spliceosomal rearrangement required for U2 snRNP association with the nascent RPL30 transcript.

The informational content of 3' splice sites is low and the mechanisms whereby they are selected are not clear. Here we enunciate a set of rules that govern their selection. For many introns, secondary structures are a key factor, because they occlude alternative 3'ss from the spliceosome and reduce the effective distance between the BS and the 3'ss to a maximum of 45 nucleotides. Further alternative 3'ss are disregarded by the spliceosome because they lie at 9 nucleotides or less from the branch site, or because they are weak splice sites. With these rules, we are able to explain the splicing pattern of the vast majority of introns in Saccharomyces cerevisiae. When in excess, L30 blocks the splicing of its own transcript by interfering with a critical rearrangement that is required for the proper recognition of the intron 3' end, and thus for splicing to proceed. We show that the protein Cbp80 has a role in promoting this rearrangement and therefore antagonizes splicing regulation by L30. / Tanto la información que define el sitio de splicing 3' como los mecanismos de selección del mismo son poco conocidos. En este trabajo, proponemos una serie de reglas que gobiernan esta selección. Las estructuras secundarias son claves en el caso de muchos intrones, porque son capaces de ocultar sitios de splicing alternativos 3' al spliceosoma, y además reducen la distancia efectiva entre el punto de ramificación y el sitio de splicing 3' a un máximo de 45 nucleotidos. Otros sitios de splicing alternativo 3' no son considerados por el spliceosoma como tales porque se encuentran a 9 nucleotidos o menos del punto de ramificación, o porque son sitios de splicing débiles. Con estas reglas somos capaces de explicar el splicing de la mayoría de intrones de Saccharomyces cerevisiae. El exceso de proteína L30 bloquea el splicing de su propio tránscrito porque interfiere con la reorganización necesaria para el correcto reconocimiento del 3' final del intrón, y por tanto de su splicing. Demostramos que la proteína Cbp80 está implicada en promover esta reorganización y que por tanto antagoniza la regulación del splicing por L30.

No description available.

A prototype reinforced concrete moment frame representative of low-rise office buildings in the Central and Eastern United States from the 1950s-1970s was designed and selected for evaluation under seismic loads. A plane frame specimen from the prototype was incorporated into the design of a test-bed of four full-scale, side-by-side nominally identical structures that could be evaluated independently. The testing of the first frame serves as the topic of this dissertation. The specimen was two bays x two stories x 9-ft. wide. A new method for testing full-scale structures under seismic loads was proposed that used a hydraulic linear inertial shaker (LIS) to impart seismic loads. The response of the structure was monitored using 155 strain gages, 38 linear variable differential transformers, six string potentiometers, and 42 accelerometers. The response of the frame to a series of 25 load histories using the nees@UCLA LIS was marked by gradual structural softening and minimal yielding of the steel reinforcing throughout the structure. At a first interstory drift of 1.5% some yielding of the reinforcing bars was measured. Between 1.5% and 2% first interstory drift, a global sway mechanism formed when the failure of a splice at the base of the first story west column led to a cascading set of failures within other first-story column splices. The experimental behavior suggests previous scaled testing of similar structures may have inadequately represented the vulnerability column splices. The design of the test-bed, response of the structure to seismic loads, qualitative evaluation of the test method, and implications on future research are discussed.

Questions have been raised about the genomic complexity of the human genome, since it was reported that it only consisted of 32,000 genes. Alternative splicing is considered the explanation of the enormous difference between the number of genes and the number of proteins. Aligning expressed sequence tags (ESTs) to the genomic sequence has become a popular approach for gene prediction, revealing alternative splice variants. The aim in this thesis is to identify and analyse splice variants of the adhesion family of G protein-coupled receptors using EST data. 75% of the genes in the data set of 33 sequences were found to have a total of 51 splice variants. About half of the variants were considered functional.

Reinforced concrete bridge columns can deteriorate prematurely due to the alkali-silica reaction (ASR) and/or delayed ettringite formation (DEF), causing internal expansion and cracking on the surface of the concrete. The performance of the longitudinal reinforcement lap splice in deteriorated concrete columns is the focus in this research. This thesis presents the results from the deterioration of large-scale specimens constructed and placed in an environment susceptible to ASR/DEF deterioration, the experimental results from four-point and three-point structural load tests, and an analytical model based on bending theory characterizing the specimen behavior during the structural load tests. Fourteen large-scale specimens were constructed, placed in an environment to accelerate the ASR/DEF deterioration mechanisms, and instrumented both internally and externally to measure the internal concrete expansions, and surface expansions and crack widths. In addition, two control specimens were constructed and kept in a laboratory, preventing ASR/DEF deterioration. Post-tensioning was used to simulate axial load on a bridge column. Structural load tests were performed on eight specimens with no ASR/DEF damage to late stage ASR and minimal DEF damage. Comparing the specimen behaviors during the loading testing, it was found that the yield strength increased about 5-15%, and post-cracking stiffness up to first yielding of the deteriorated specimens was about 25-35% stiffer than the control specimens. The increased specimen strength and stiffness likely occurred from volumetric expansion due to ASR/DEF damage which engaged the reinforcement, further confining the concrete and causing a beneficial increase in the axial post-tensioning load. The analytical model matched the control specimens well and matched the non-control specimens when the axial load was increased.

<p>Questions have been raised about the genomic complexity of the human genome, since it was reported that it only consisted of 32,000 genes. Alternative splicing is considered the explanation of the enormous difference between the number of genes and the number of proteins. Aligning expressed sequence tags (ESTs) to the genomic sequence has become a popular approach for gene prediction, revealing alternative splice variants. The aim in this thesis is to identify and analyse splice variants of the adhesion family of G protein-coupled receptors using EST data. 75% of the genes in the data set of 33 sequences were found to have a total of 51 splice variants. About half of the variants were considered functional.</p>

Non-coding RNAs (ncRNAs) are transcripts that function directly as RNA molecule without ever being translated to protein. The transcriptional output of eukaryotic cells is diverse, pervasive, and multi-layered. It consists of spliced as well as unspliced transcripts of both protein-coding messenger RNAs and functional ncRNAs. However, it also contains degradable non-functional by-products and artefacts - certainly a reason why ncRNAs have long been wrongly disposed as transcriptional noise. Today, RNA-controlled regulatory processes are broadly recognized for a variety of ncRNA classes. The thermoresponsive ROSE ncRNA (repression of heat shock gene expression) is only one example of a regulatory ncRNA acting at the post-transcriptional level via conformational changes of its secondary structure. Bioinformatics helps to identify novel ncRNAs in the bulk of genomic and transcriptomic sequence data which are produced at ever increasing rates. However, ncRNA annotation is unfortunately not part of generic genome annotation pipelines. Dedicated computational searches for particular ncRNAs are veritable research projects in their own right. Despite best efforts, ncRNAs across the animal phylogeny remain to a large extent uncharted territory. This thesis describes a comprehensive collection of exploratory bioinformatic field studies designed to de novo predict ncRNA genes in a series of computational screens and in a multitude of newly sequenced genomes. Non-coding RNAs can be divided into subclasses (families) according to peculiar functional, structural, or compositional similarities. A simple but eligible and frequently applied criterion to classify RNA species is length. In line, the thesis is structured into two parts: We present a series of pilot-studies investigating (1) the short and (2) the long ncRNA repertoire of several model species by means of state-of-the-art bioinformatic techniques. In the first part of the thesis, we focus on the detection of short ncRNAs exhibiting thermodynamically stable and evolutionary conserved secondary structures. We provide evidence for the presence of short structured ncRNAs in a variety of different species, ranging from bacteria to insects and higher eukaryotes. In particular, we highlight drawbacks and opportunities of RNAz-based ncRNA prediction at several hitherto scarcely investigated scenarios, as for example ncRNA prediction in the light of whole genome duplications. A recent microarray study provides experimental evidence for our approach. Differential expression of at least one-sixth of our drosophilid RNAz predictions has been reported. Beyond the means of RNAz, we moreover manually compile sophisticated annotation of short ncRNAs in schistosomes. Obviously, accumulating knowledge about the genetic material of malaria causing parasites which infect millions of humans world-wide is of utmost scientific interest. Since the performance of any comparative genomics approach is limited by the quality of its input alignments, we introduce a novel light-weight and performant genome-wide alignment approach: NcDNAlign. Although the tool is optimized for speed rather than sensitivity and requires only a minor fraction of CPU time compared to existing programs, we demonstrate that it is basically as sensitive and specific as competing approaches when applied to genome-wide ncRNA gene finding and analysis of ultra-conserved regions. By design, however, prediction approaches that search for regions with an excess of mutations that maintain secondary structure motifs will miss ncRNAs that are unstructured or whose structure is not well conserved in evolution. In the second part of the thesis, we therefore overcome secondary structure prediction and, based on splice site detection, develop novel strategies specifically designed to identify long ncRNAs in genomic sequences - probably the open problem in current RNA research. We perform splice site anchored gene-finding in drosophilids, nematodes, and vertebrate genomes and, at least for a subset of obtained candidate genes, provide experimental evidence for expression and the existence of novel spliced transcripts undoubtedly confirming our approach. In summary, we found evidence for a large number of previously undescribed RNAs which consolidates the idea of non-coding RNAs as an abundant class of regulatory active transcripts. Certainly, ncRNA prediction is a complex task. This thesis, however, rationally advises how to unveil the RNA complement of newly sequenced genomes. Since our results have already established both subsequent computational as well as experimental studies, we believe to have enduringly stimulated the field of RNA research and to have contributed to an enriched view on the subject.

The goal of the splice girder research project 0-6652 funded by the Texas Department of Transportation is to utilize the full potential of splicing prestressed TX girders continuously. The TX girder family of beams is cost effective alone due to their simple, repetitive fabrication, but to truly optimize their potential would be to span several beams together as one continuous unit. The weight and length restrictions allowed by trucks or barges limit the prestressed beam lengths. Therefore, splicing together prestressed beams becomes the solution to the transporting obstacle. As a result, the prestressed girders will be more competitive to other bridge types such as steel I-girders, steel trapezoidal girders, cable-stayed bridges, and concrete segmental bridges. In fact, a prestressed/post-tensioned concrete bridge is preferred over steel designs in highly corrosive environments such as the coast or in snow regions where de-icing chemicals are used. In comparison, to a segmental box girder bridge, the post-tensioned prestressed bridge has reduced complexity due to fewer segments and the number of reduced joints susceptible to corrosion. The issue that arises with splicing prestressed beams is that in the process of connecting them together an opening must be made to install the post-tensioning (PT) steel strands. The openings are created by installing several steel or plastic circular ducts into the web region. Since the post-tensioning results in a reduction of the concrete web region, a modification is necessary to the shear capacity equation. The experimental study performed at the Ferguson Structural Engineering Laboratory consisted of fabricating and testing two full-scale prestressed Tx46 girders. One girder contained a plastic post-tensioning duct with grout and steel strands installed in the web region. The other beam was a standard Tx46 beam fabricated without a duct. Both beams had a reinforced concrete deck installed with an overhang to model an actual bridge section. Furthermore, the purpose of the standard beam was to serve as a direct comparison to the beam with a duct and determine the actual reduction in shear capacity. The research and findings will include the impact of the plastic duct in the Tx46 compared to the control beam. The failure loads of the test specimens will be compared to the current 2012 AASHTO code predictions for shear design. Also, revisions to the AASHTO code will be recommended if necessary. The primary goal of this research was to improve the design and detailing of the skewed end-blocks commonly used in these beams. As U-beams had been in service for several decades without incident, it was anticipated that there would be little need for change in the design, and the findings of the research would involve a slight tweaking to improve the overall performance. / text