Global ETD Search
Search theses and dissertations gathered from participating repositories worldwide. Every result links back to the library that holds it. No account is needed.
Results
Showing 1 to 20 of 30 for “"core genome"”.
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Functional genomics analysis of carbohydrate conversion to biohydrogen by pure and mixed cultures of hyperthermophilic Thermotoga species.
… physiological diversity within this genus, the genome sequences of five Thermotoga species (T. maritima, T. neapolitana, T. sp. RQ2, T. petrophila, T. lettingae) were compared using bioinformatics tools. Except for T. lettingae, the genomes exhibited high degrees of homology and shared …
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Iron and Prochlorococcus
… Prochlorococcus. With its minimal genome and ubiquity in the global ocean, Prochlorococcus represents a model system in which to study the dynamics of the link between iron and primary productivity. To this end, we tested the iron physiology of two closely-related Prochlorococcus …
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Comparative genome analysis of human bifidobacteria with commercial potential
… two newly sequenced B. longum subsp. longum genomes and subsequent comparative analysis with publicly available B. longum subsp. longum, B. longum subsp. infantis and B. longum subsp. suis genomes (Chapter 2). The acquired data revealed a closed pan-genome for this bifidobacterial species and …
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Brucellosis in Ethiopia: epidemiology and public health significance.
… of goats with history of abortion were whole genome sequenced (WGS). Subsequent phylogenetic analysis involved whole genome SNPs,core-genome SNPs, and in silico analysis of Multilocus Sequence Typing and Multiple Loci Variable Number of Tandem Repeats to characterise and determine global …
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Structure and dynamics of genome-wide diversity in Prochlorococcus
… has its foundation in the diversity of microbial genomes. Here we explore adaptation and diversification through the lens of the marine cyanobacterium Prochlorococcus, which comprises a group of closely-related ecotypes that together perform most of the primary production in low-nutrient regions …
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Natural Genetic Variants in Humans and Salmonellae Underlie Variable Infection Outcomes
… pathogen with thousands of serovars. In their core genome, all S. enterica serovars carry two molecular syringes called type-three secretions systems (T3SS), which inject bacterial proteins called effectors into host cells. These effectors create a hospitable niche inside host cells for the …
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Duplication is a prominent mechanism of recent gene birth in Caenorhabditis elegans
The high number of available reference genomes for different species and their comparison has enabled the elucidation of gene birth mechanisms that act over a long evolutionary timescale. However, the lack of several reference-quality genomes for different individuals of the same species has …
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Streptococcus equi subsp. zooepidemicus in New Zealand horses
… the isolates which was resolved by employing core genome MLST. Importantly, none of these typing methods could link a particular strain to disease status or anatomical region. However, when disease occurred the number of colonising strains tended to reduce to just the infective strain, …
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Existing regulatory circuitries govern backbone and acquired host association factors in the human pathogen Vibrio parahaemolyticus
… Vibrio spp. in general share an extensive core genome dedicated to environmental survival and unique, often horizontally acquired, gene content that is reserved for species specific lifestyles. This diversity has resulted in a genus of highly specialized bacteria partaking in dramatically …
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A comparative and phylogenetic analysis of the genome of Pseudomonas aeruginosa
… associated with such host adaption including genome shrinkage as a result of genomic island and phage loss, as well as decreased virulence and motility. In order to determine the contribution of each genomic anomaly to the change in phenotypes observed, we have utilised a variety of phenotypic …
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Understanding Type A Clostridium perfringens in Foal Necrotizing Enteritis and Canine Acute Hemorrhagic Diarrhea
… C. perfringens. In the first study, the genome of two NetF-producing strains, JFP838 and JFP55, which were isolated from cases of canine acute hemorrhagic diarrhea and foal necrotizing enteritis, respectively, were sequenced. Results of this research indicated that NetF and NetE were …
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Genome analysis of Campylobacter concisus strains from patients with inflammatory bowel disease and gastroenteritis
… However, no studies to date have examined the genomes of C. concisus strains from different genomospecies. The comparative genome analysis of C. concisus strains may provide insights into genomospecies and their virulence. The aims of this thesis was therefore 1) To examine the genomic features …
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Implementation of molecular techniques in the diagnosis of legionnaires’ disease and in the investigation of legionella outbreaks
… was manually extracted and prepared for Whole Genome Sequencing (WGS) using Illumina platforms. A bioinformatic approach was used to design a WGS based typing scheme and decipher the evolution of L. pneumophila sg1 Sequence Type (ST) 47, a major disease-causing strain. Results. A real-time PCR …
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Insights Into Determinants That Contribute to Colonization, Virulence and Antibiotic Resistance In Enterococci
… </em>gene, part of the <em>E. faecium</em> core genome that shows sequence variation between the clades and encodes a penicillin binding protein important for β-lactam resistance, is differentially expressed between strains, with higher PBP5 protein levels in clade A ampicillin-resistant …
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A genomic analysis of methicillin resistant Staphylococcus aureus from bovine milk and the discovery of a novel streptococcus species
… or loss of MGEs and variations within the core genome are reported to play an important role in S. aureus host adaptation although the mechanisms underlying S. aureus host specificity are not fully understood. This study was undertaken to determine the antimicrobial resistance and bovine …
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Genomics and transcriptomics of the industrial acarbose producer Actinoplanes sp. SE50/110
… engineering approaches, which require the genome sequence of the organism. Hence, the first part of this Ph. D. thesis dealt with the sequencing, assembly and annotation of the complete genome sequence of Actinoplanes sp. SE50/110, the first publicly available genome of the genus …
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Tryptophanase Regulatory Mechanisms in Escherichia coli
… there is evidence that it is a component of the core genome. TnaA extends beyond *E. coli*, being identified in 10% of the bacterial species sequenced in the microbiome. It is present across various phyla of the gut microbiome, including Proteobacteria, Firmicutes, and Bacteroidota.
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Physiological roles and regulation of the cryptic prophage-encoded small protein DicB and small RNA DicF in Escherichia coli
… and small proteins encoded on the bacterial core genome have been characterized, very few that are phage or prophage-encoded have been studied. This dissertation describes the roles and regulation of the sRNA DicF and small protein DicB encoded on the Qin cryptic prophage of Escherichia coli …
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Characterisation of vaginal Prevotella strains from a cohort of South African adolescent girls and young women with and without bacterial women with and without bacterial vaginosis
… (35 P. bivia and 1 P. melaninogenica) were whole genome sequenced using Illumina MiSeq technology. Genomes of these isolates, and of published sequences on the NCBI RefSeq database, were annotated and screened for antimicrobial resistance and virulence genes, as well as for the presence of …
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