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Pathogenomics
Pathogenomics is a field which uses high-throughput screening technology and bioinformatics to study encoded microbe resistance, as well as virulence factors (VFs), which enable a microorganism to infect a host and possibly cause disease. This includes studying genomes of pathogens which cannot be cultured outside of a host. In the past, researchers and medical professionals found it difficult to study and understand pathogenic traits of infectious organisms. With newer technology, pathogen genomes can be identified and sequenced in a much shorter time and at a lower cost, thus improving the ability to diagnose, treat, and even predict and prevent pathogenic infections and disease. It has also allowed researchers to better understand genome evolution events - gene loss, gain, duplication, rearrangement - and how those events impact pathogen resistance and ability to cause disease. This influx of information has created a need for bioinformatics tools and databases to analyze and make ...
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High-throughput Screening
High-throughput screening (HTS) is a method for scientific experimentation especially used in drug discovery and relevant to the fields of biology, materials science and chemistry. Using robotics, data processing/control software, liquid handling devices, and sensitive detectors, high-throughput screening allows a researcher to quickly conduct millions of chemical, genetic, or pharmacological tests. Through this process one can quickly recognize active compounds, antibodies, or genes that modulate a particular biomolecular pathway. The results of these experiments provide starting points for drug design and for understanding the noninteraction or role of a particular location. Assay plate preparation The key labware or testing vessel of HTS is the microtiter plate, which is a small container, usually disposable and made of plastic, that features a grid of small, open divots called ''wells''. In general, microplates for HTS have either 96, 192, 384, 1536, 3456 or 6144 wells. The ...
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In Silico
In biology and other experimental sciences, an ''in silico'' experiment is one performed on computer or via computer simulation. The phrase is pseudo-Latin for 'in silicon' (correct la, in silicio), referring to silicon in computer chips. It was coined in 1987 as an allusion to the Latin phrases , , and , which are commonly used in biology (especially systems biology). The latter phrases refer, respectively, to experiments done in living organisms, outside living organisms, and where they are found in nature. History The earliest known use of the phrase was by Christopher Langton to describe artificial life, in the announcement of a workshop on that subject at the Center for Nonlinear Studies at the Los Alamos National Laboratory in 1987. The expression ''in silico'' was first used to characterize biological experiments carried out entirely in a computer in 1989, in the workshop "Cellular Automata: Theory and Applications" in Los Alamos, New Mexico, by Pedro Miramontes, a ma ...
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Improved Figure1
Improved may refer to: * Improved clinch knot, a knot commonly used to secure a fishing line * Improved-definition television (IDTV) * Improved Touring, a category of classifications for cars in amateur road racing * Improved Orion, an American research rocket * LNWR Improved Precedent Class, a class of 2-4-0 steam locomotive originally designed for express passenger work See also * Most Improved Player (other), a sports award * Past participle of Improvement Improvement is the process of a thing moving from one state to a state considered to be better, usually through some action intended to bring about that better state. The concept of improvement is important to governments and businesses, as well a ...
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Listeria
''Listeria'' is a genus of bacteria that acts as an intracellular parasite in mammals. Until 1992, 17 species were known, each containing two subspecies. By 2020, 21 species had been identified. The genus is named in honour of the British pioneer of sterile surgery Joseph Lister. ''Listeria'' species are Gram-positive, rod-shaped, and facultatively anaerobic, and do not produce endospores. The major human pathogen in the genus ''Listeria'' is '' L. monocytogenes''. It is usually the causative agent of the relatively rare bacterial disease listeriosis, an infection caused by eating food contaminated with the bacteria. Listeriosis can cause serious illness in pregnant women, newborns, adults with weakened immune systems and the elderly, and may cause gastroenteritis in others who have been severely infected. Listeriosis is a serious disease for humans; the overt form of the disease has a case-fatality rate of around 20%. The two main clinical manifestations are sepsis and ...
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Chlamydia Trachomatis
''Chlamydia trachomatis'' (), commonly known as chlamydia, is a bacterium that causes chlamydia, which can manifest in various ways, including: trachoma, lymphogranuloma venereum, nongonococcal urethritis, cervicitis, salpingitis, pelvic inflammatory disease. ''C. trachomatis'' is the most common infectious cause of blindness and the most common sexually transmitted bacterium. Different types of ''C. trachomatis'' cause different diseases. The most common strains cause disease in the genital tract, while other strains cause disease in the eye or lymph nodes. Like other ''Chlamydia'' species, the ''C. trachomatis'' life cycle consists of two morphologically distinct life stages: elementary bodies and reticulate bodies. Elementary bodies are spore-like and infectious, whereas reticulate bodies are in the replicative stage and are seen only within host cells. Description ''Chlamydia trachomatis'' is a gram-negative bacterium that can replicate only within a host cell. Over the ...
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Mycobacterium Leprae
''Mycobacterium leprae'' (also known as the leprosy bacillus or Hansen's bacillus), is one of the two species of bacteria that cause Hansen’s disease (leprosy), a chronic but curable infectious disease that damages the peripheral nerves and targets the skin, eyes, nose, and muscles. It is an acid-fast, Gram-positive, rod shaped bacterium and an obligate intracellular parasite, which means, unlike its relative '' Mycobacterium tuberculosis'', it cannot be grown in cell-free laboratory media. This is likely due to gene deletion and decay that the genome of the species has experienced via reductive evolution, which has caused the bacterium to depend heavily on its host for nutrients and metabolic intermediates. It has a narrow host range and apart from humans, the only other natural hosts are nine-banded armadillo and red squirrels. The bacteria infect mainly macrophages and Schwann cells, and are typically found congregated as a palisade. ''Mycobacterium leprae'' wa ...
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Buchnera (bacterium)
''Buchnera aphidicola'', a member of the Pseudomonadota and the only species in the genus ''Buchnera'', is the primary endosymbiont of aphids, and has been studied in the pea aphid, ''Acyrthosiphon pisum''. ''Buchnera'' is believed to have had a free-living, Gram-negative ancestor similar to a modern Enterobacterales, such as ''Escherichia coli''. ''Buchnera'' is 3 µm in diameter and has some of the key characteristics of their Enterobacterales relatives, such as a Gram-negative cell wall. However, unlike most other Gram-negative bacteria, ''Buchnera'' lacks the genes to produce lipopolysaccharides for its outer membrane. The long association with aphids and the limitation of crossover events due to strictly vertical transmission has seen the deletion of genes required for anaerobic respiration, the synthesis of amino sugars, fatty acids, phospholipids, and complex carbohydrates. This has resulted not only in one of the smallest known genomes of any living organism, but al ...
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Intracellular Parasite
Intracellular parasites are microparasites that are capable of growing and reproducing inside the cells of a host. Types of parasites There are two main types of intracellular parasites: Facultative and Obligate. Facultative intracellular parasites are capable of living and reproducing in or outside of host cells. Obligate intracellular parasites, on the other hand, need a host cell to live and reproduce. Many of these types of cells require specialized host types, and invasion of host cells occurs in different ways. Facultative Facultative intracellular parasites are capable of living and reproducing either inside or outside cells. Bacterial examples include: *'' Bartonella henselae'' *''Francisella tularensis'' *'' Listeria monocytogenes'' * ''Salmonella'' Typhi *'' Brucella'' *'' Legionella'' *''Mycobacterium'' *''Nocardia'' *'' Neisseria'' *'' Rhodococcus equi'' *'' Yersinia'' *''Staphylococcus aureus'' Fungal examples include: *'' Histoplasma capsulatum''. *''Cryptococ ...
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Endosymbiont
An ''endosymbiont'' or ''endobiont'' is any organism that lives within the body or cells of another organism most often, though not always, in a mutualistic relationship. (The term endosymbiosis is from the Greek: ἔνδον ''endon'' "within", σύν ''syn'' "together" and βίωσις ''biosis'' "living".) Examples are nitrogen-fixing bacteria (called rhizobia), which live in the root nodules of legumes, single-cell algae inside reef-building corals and bacterial endosymbionts that provide essential nutrients to insects. There are two types of symbiont transmissions. In horizontal transmission, each new generation acquires free living symbionts from the environment. An example is the nitrogen-fixing bacteria in certain plant roots. Vertical transmission takes place when the symbiont is transferred directly from parent to offspring. It is also possible for both to be involved in a mixed-mode transmission, where symbionts are transferred vertically for some generation befor ...
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Yersinia Pestis
''Yersinia pestis'' (''Y. pestis''; formerly '' Pasteurella pestis'') is a gram-negative, non-motile, coccobacillus bacterium without spores that is related to both ''Yersinia pseudotuberculosis'' and ''Yersinia enterocolitica''. It is a facultative anaerobic organism that can infect humans via the Oriental rat flea (''Xenopsylla cheopis''). It causes the disease plague, which caused the first plague pandemic and the Black Death, the deadliest pandemic in recorded history. Plague takes three main forms: pneumonic, septicemic, and bubonic. ''Yersinia pestis'' is a parasite of its host, the rat flea, which is also a parasite of rats, hence ''Y. pestis'' is a hyperparasite. ''Y. pestis'' was discovered in 1894 by Alexandre Yersin, a Swiss/French physician and bacteriologist from the Pasteur Institute, during an epidemic of the plague in Hong Kong. Yersin was a member of the Pasteur school of thought. Kitasato Shibasaburō, a Japanese bacteriologist who practised Koch's me ...
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Salmonella Enterica Subsp
''Salmonella'' is a genus of rod-shaped (bacillus) Gram-negative bacteria of the family Enterobacteriaceae. The two species of ''Salmonella'' are '' Salmonella enterica'' and '' Salmonella bongori''. ''S. enterica'' is the type species and is further divided into six subspecies that include over 2,600 serotypes. ''Salmonella'' was named after Daniel Elmer Salmon (1850–1914), an American veterinary surgeon. ''Salmonella'' species are non-spore-forming, predominantly motile enterobacteria with cell diameters between about 0.7 and 1.5 μm, lengths from 2 to 5 μm, and peritrichous flagella (all around the cell body, allowing them to move). They are chemotrophs, obtaining their energy from oxidation and reduction reactions, using organic sources. They are also facultative anaerobes, capable of generating ATP with oxygen ("aerobically") when it is available, or using other electron acceptors or fermentation ("anaerobically") when oxygen is not available. ''Salmonella'' s ...
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Shigella Flexneri
''Shigella flexneri'' is a species of Gram-negative bacteria in the genus ''Shigella'' that can cause diarrhea in humans. Several different serogroups of ''Shigella'' are described; ''S. flexneri'' belongs to group ''B''. ''S. flexneri'' infections can usually be treated with antibiotics, although some strains have become resistant. Less severe cases are not usually treated because they become more resistant in the future. Shigella are closely related to ''Escherichia coli'', but can be differentiated from ''E.coli'' based on pathogenicity, physiology (failure to ferment lactose or decarboxylate lysine) and serology. Discovery The species was named after the American physician Simon Flexner; the genus Shigella is named after Japanese physician Kiyoshi Shiga, who researched the cause of dysentery. Shiga entered the Tokyo Imperial University School of Medicine in 1892, during which he attended a lecture by Dr. Shibasaburo Kitasato. Shiga was impressed by Dr. Kitasato's intellect ...
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