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Showing 1 to 20 of 23 for “"gene order"”.
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Phylogenetic Reconstruction With Gene Order and Content Information
<p>Phylogenetic reconstruction is the attempt to determine the evolutionary relationships which connect species by comparing their genetic information. In recent decades research has opened a new frontier in this field, referred to as gene order and content data. This information format uses the …
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HEPATITIS A VIRUS: GROWTH CHARACTERISTICS, PURIFICATION, AND CAPSID GENE ORDER (PEPTIDES, IMMUNOREACTIVITIES, POLYPEPTIDES).
… sera have allowed the identification of the gene order for the larger HAV P1 gene products and the determination of the following molecular weights: HAV VP2 or 1B (MW 27,000), HAV VP3 or 1C (MW 29,000), and HAV VP1 or 1D (MW 33,000). The disposition of the HAV capsid polypeptides with respect …
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Evolutionary Analysis of Large-Scale Genomic Changes
<p>Comparative genomics reveals differences in gene order among species. In the genomes, genes are rearranged through inversion, transposition, translocation, and chromosome fission and fusion. Using gene order as a phylogenetic character has the potential to resolve previously unresolved species …
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Genome Rearrangements: Structural Inference and Functional Consequences
… A major focus is the reconstruction of the gene order of the ancestral genomes. There has been a trend in increasing the phylogenetic scope of genome sequencing without finishing the sequence for each genome. With less interest in completing the sequence, there is an increasing number of …
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Structure, Regulation and Comparative Biochemistry of the Pyrimidine Biosynthetic Gene Cluster in Bacillus Subtilis (Atcase)
… Bacillus subtilis pyrimidine biosynthetic (pyr) gene cluster was cloned in Escherichia coli. The cloned fragment also complemented E. coli pyrB, C, D, E, and F mutants. A restriction map of the cluster was generated, and many subclones were analyzed for their ability to complement E. coli pyr …
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Phylogenetic study of the order Polydesmida (Myriapoda: Diplopoda)
The millipede order Polydesmida, or flat-backed millipedes, is the most species rich among the class Diplopoda. At present, the order does not have a phylogenetic systematic classification, and the relationships of the 29 families are unknown. Whole genome DNA sequencing technologies and …
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Molecular Genetic Analysis of Rhodobacter Sphaeroides Light-Harvesting Complexes
The genes for the Rhodobacter sphaeroides light-harvesting, B875-$\beta$ and B875-$\alpha$ polypeptides (pufB and pufA) are closely linked to the genes for the reaction center-L and reaction center-M polypeptides (pufL and pufM) on what has been termed the puf operon (gene order pufB,A,L,M). The …
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Characterization and Genetic Analysis of The Morphological Mutant <em>Crisp-5</em> of <em>Neurospora crassa</em>
… to the right of <em>ad-4</em> with the gene order <em>pro-1 ad-4 cr-5</em> with 1.3% to 5% recombination between <em>ad-4</em> and <em>cr-5</em>. Reciprocal crosses of <em>cr-5 pro-la</em> double mutant and the <em>leu-1A</em> marker strain supported the gene order <em>pro-1 cr-5 …
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Function-based Algorithms for Biological Sequences
… algorithms in DNA sequences are presented. For gene order data, an efficient data structure is presented capable of storing all gene re-orderings in a systematic manner. A common characteristic of presented methods is the use of binary decision diagrams that store and manipulate binary …
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Graph-based genomic signatures
… from codons to regions of conserved or divergent gene order. Genomic signatures work by capturing one or more such features efficiently into a compact mathematical structure. This work examines the unique manner in which oligonucleotides fit together to comprise a genome, within a graph-theoretic …
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Graph Based Optimization For Scientific Computing
… scientific computing problems such as phylogenetic analysis, system simulation into abstract graph problems and developing algorithms for optimization. First, we investigate an efficient algorithm for unequal genome phylogeny reconstruction. Currently few methods can solve the median problem …
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Genomic Evolution in the Oomycetes
… Recent genome sequencing projects have generated large amounts of oomycete genomic data. Availability of which facilitated bioinformatic characterisation of the secretomes of diverse oomycete species. Using comparative genomic, network, and phylogenetic methods, this thesis reports the …
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De novo sequencing, assembly and analysis of the genome and transcriptome of the nematode Panagrolaimus superbus
… genome and transcriptome sequencing using second generation high through- put methods. In this project the transcriptome of P. superbus was sequenced using the 454 (Roche) platform. To enrich for stress-related genes, nema- todes were exposed to one of the following stresses (desiccation, cold, …
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Complex evolution of mitochondrial genomes: lessons from salamanders
… Chapter Two describes the correlation between gene rearrangement/genome expansion and increased rates of substitution in salamander mitochondrial genomes. Most protein-coding genes maintain their position along the mutation gradient in rearranged/expanded mitochondrial genomes, and the genes …
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Cell Fate Determination Along The Anterior-Posterior Axis In The Mud Snail Ilyanassa obsoleta.
… I chose to look at the expression of the Hox genes, a highly conserved family of genes involved in axial patterning within bilateral organisms. I cloned 11 Hox genes fragments from the gastropod Ilyanassa obsoleta and compared the Ilyanassa sequences to the released genomes of Capitella …
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GENETIC AND QUANTITATIVE VARIATION IN WILD SOYBEAN (GLYCINE SOJA) POPULATIONS
… South Korea and Japan were studied for their genetic structure and quantitative variation. Seventy two G. soja seed accessions were examined for genetic variation by gel electrophoresis. Based on a total of 43 loci of 15 enzymes and one protein, an average of 67.4% polymorphism (at 99% level) …
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Molecular evolution following allopolyploidization in Gossypium
… is an important mechanism of speciation and generator of novel genetic and phenotypic diversity, particularly in plants. While over 400 polyploidy events have been identified throughout the angiosperm phylogeny, many crops also have a recent episode of whole genome duplication, indicating …
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OperomeDB: database of condition specific transcription in prokaryotic genomes and genomic insights of convergent transcription in bacterial genomes
… user can browse through reference genome, genes present in that genome and operons predicted from different RNA-seq datasets. Further in the second project, we studied the genomic and mechanistic insights of convergent transcription in bacterial genomes. We know that convergent gene pairs …
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Characterization of a Morphological Mutant, M-134, and Two Conidia-shed Mutants, E-1 and K-44 of <em>Neurospora crassa</em>
… of <em>lys-4</em> in Linkage Group 1 with the gene order <em>cys-9</em> M-134 <em>im-1</em> displaying 15.4% recombination between M-134 and <em>cys-9</em> and 5.7% recombination between M-134 and <em>un-1</em> thus should be designated <em>cr-6</em>.</p> <p>When E-l and K-44 were compared to …
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Distortions of the genetic map of chromosome I in Caenorhabditis elegans
The process of meiosis ensures heritable genetic material is passed faithfully from one generation to the next. To identify the mechanisms involved in this process, the effects of sex, mutation, and rearrangement on meiotic recombination in Caenorhabditis elegans were investigated. The short life …
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