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Full-Text Articles in Molecular Biology

Rational Design And Validation Of Dna Fragments For Gene Assembly Based On Thermodynamics, Bhagyashree Shreekant Birla Jan 2017

Rational Design And Validation Of Dna Fragments For Gene Assembly Based On Thermodynamics, Bhagyashree Shreekant Birla

Graduate Theses and Dissertations

Synthetic biology is a research field that involves the design and synthesis of genes and genomes. It has a wide range of applications in building gene circuits, activating biochemical pathways and metabolic engineering. Over the last decade, there has been rapid progress in developing efficient DNA synthesis technologies that improve the overall quality of the constructed DNA. Currently, there are several different methods available for successful DNA assembly of long genes. However, these methods have certain drawbacks such as presence of restriction sites (scars) within the assembled sequences or multi-step reaction process to assemble a high-number of fragments. Thus, new ...


On The Molecular Biology And Evolution Of Plant Parasitism By Nematodes, Jason Brett Noon Jan 2016

On The Molecular Biology And Evolution Of Plant Parasitism By Nematodes, Jason Brett Noon

Graduate Theses and Dissertations

Plant-parasitic nematodes (PPN) are among the most devastating plant pathogens. However, our understanding of how nematodes adapted to plant parasitism, and the molecular mechanisms that PPN use during infection is limited. Among the most important genomic changes that occurred in the free-living nematode ancestors of PPN were multiple horizontal gene transfer (HGT) events from bacteria. Though it is clear that HGT helped shape the genomes of many PPN, how this process occurred is unknown. Also, it is evident that successful parasitism occurs from the delivery of proteinaceous effectors into plant roots to hijack and modify host cellular processes.

The research ...


Epigenetic Interplay Between Histone H3k9me2 And Jil-1 Mediated Histone H3s10ph, Chao Wang Jan 2014

Epigenetic Interplay Between Histone H3k9me2 And Jil-1 Mediated Histone H3s10ph, Chao Wang

Graduate Theses and Dissertations

In Drosophila, JIL-1 Kinase specifically localizes to euchromatic interband regions of polytene chromosomes and is responsible for histone H3S10 phosphorylation at interphase. Previous genetic interaction assays have demonstrated that the JIL-1 protein can counterbalance the effect of the major heterochromatin components Su(var)3-7 on position-effect variegation (PEV). In this study, we show that the haplo-enhancer effect of JIL-1 has the ability to counterbalance the haplo-suppressor effect of two other major heterochromatin components, Su(var)3-9 and Su(var)2-5, on position-effect variegation, providing evidence that a finely tuned balance between the levels of JIL-1 and the major heterochromatin components ...


Identification Of Interface Residues Involved In Protein-Protein And Protein-Dna Interactions From Sequence Using Machine Learning Approaches , Changhui Yan Jan 2005

Identification Of Interface Residues Involved In Protein-Protein And Protein-Dna Interactions From Sequence Using Machine Learning Approaches , Changhui Yan

Retrospective Theses and Dissertations

Identification of interface residues involved in protein-protein and protein-DNA interactions is critical for understanding the functions of biological systems. Because identifying interface residues using experimental methods cannot catch up with the pace at which protein sequences are determined, computational methods that can identify interface residues are urgently needed. In this study, we apply machine-learning methods to identify interface residues with the focus on the methods using amino acid sequence information alone. We have developed classifiers for identification of the residues involved in protein-protein and protein-DNA interactions using a window of primary sequence as input. The classifiers were evaluated using both ...


Regulation Of Protein Expression By Transforming Growth Factor Beta And Other Growth Modulators , Frederic William Thalacker Jan 1990

Regulation Of Protein Expression By Transforming Growth Factor Beta And Other Growth Modulators , Frederic William Thalacker

Retrospective Theses and Dissertations

The main goal of this project was to understand the signal transduction pathways through which growth modulators such as TGF-[beta], PMA and retinoic acid mediate protein expression and DNA synthesis. Transforming growth factor [beta] (TGF-[beta]) induces synthesis and secretion of a 48,000 M r protein that we have found to be type I plasminogen activator inhibitor (PAI-1). TGF-[beta] induces PAI-1 in every cell line that we have studied including near term mink lung epithelial CCL64 cells, mouse embryo fibroblast AKR-2B 84A cells, African green monkey kidney epithelial BSC-1 cells, and normal rat kidney fibroblast NRK 49F ...