Using Homology-Based Methods and Functional Similarity to Identify Antibiotic Resistance in a Natural Environment
Antibiotics are the crux of modern medicine, and antibiotic resistance (AbR) is a challenge to overcome. It has long been known that antibiotic production by soil microbiota is a natural process. Antibiotics such as streptomycin and penicillin come from common soil microorganisms. AbR is said to spr...
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ftunivarizona:oai:repository.arizona.edu:10150/594942 2023-05-15T16:37:27+02:00 Using Homology-Based Methods and Functional Similarity to Identify Antibiotic Resistance in a Natural Environment Diaz, Krystalle Sharlyn McLain, Jean 2015 http://hdl.handle.net/10150/594942 en_US eng The University of Arizona. http://hdl.handle.net/10150/594942 Copyright © is held by the author. Digital access to this material is made possible by the University Libraries, University of Arizona. Further transmission, reproduction or presentation (such as public display or performance) of protected items is prohibited except with permission of the author. text Electronic Thesis 2015 ftunivarizona 2020-06-14T08:13:19Z Antibiotics are the crux of modern medicine, and antibiotic resistance (AbR) is a challenge to overcome. It has long been known that antibiotic production by soil microbiota is a natural process. Antibiotics such as streptomycin and penicillin come from common soil microorganisms. AbR is said to spread readily and rapidly through the environment, but its natural occurrence is poorly constrained. In studies analyzing natural AbR across a variety of habitats, researchers have found resistance in agricultural fields, human and animal feces, soils, deep caves, prehistoric ice cores, marine habitats, and reclaimed wastewater. Permafrost soils represent a pristine (human-unimpacted) environment capable of serving as a model system for natural AbR. I compared a functionality-based approach to a traditional identity-based approach to identify AbR sequences in permafrost microbial community genomes. The functionality-based approach yielded better quality results overall, and identified sequences more likely to be mappable to molecular pathways with the KEGG database. Thesis Ice permafrost The University of Arizona: UA Campus Repository |
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The University of Arizona: UA Campus Repository |
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English |
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Antibiotics are the crux of modern medicine, and antibiotic resistance (AbR) is a challenge to overcome. It has long been known that antibiotic production by soil microbiota is a natural process. Antibiotics such as streptomycin and penicillin come from common soil microorganisms. AbR is said to spread readily and rapidly through the environment, but its natural occurrence is poorly constrained. In studies analyzing natural AbR across a variety of habitats, researchers have found resistance in agricultural fields, human and animal feces, soils, deep caves, prehistoric ice cores, marine habitats, and reclaimed wastewater. Permafrost soils represent a pristine (human-unimpacted) environment capable of serving as a model system for natural AbR. I compared a functionality-based approach to a traditional identity-based approach to identify AbR sequences in permafrost microbial community genomes. The functionality-based approach yielded better quality results overall, and identified sequences more likely to be mappable to molecular pathways with the KEGG database. |
author2 |
McLain, Jean |
format |
Thesis |
author |
Diaz, Krystalle Sharlyn |
spellingShingle |
Diaz, Krystalle Sharlyn Using Homology-Based Methods and Functional Similarity to Identify Antibiotic Resistance in a Natural Environment |
author_facet |
Diaz, Krystalle Sharlyn |
author_sort |
Diaz, Krystalle Sharlyn |
title |
Using Homology-Based Methods and Functional Similarity to Identify Antibiotic Resistance in a Natural Environment |
title_short |
Using Homology-Based Methods and Functional Similarity to Identify Antibiotic Resistance in a Natural Environment |
title_full |
Using Homology-Based Methods and Functional Similarity to Identify Antibiotic Resistance in a Natural Environment |
title_fullStr |
Using Homology-Based Methods and Functional Similarity to Identify Antibiotic Resistance in a Natural Environment |
title_full_unstemmed |
Using Homology-Based Methods and Functional Similarity to Identify Antibiotic Resistance in a Natural Environment |
title_sort |
using homology-based methods and functional similarity to identify antibiotic resistance in a natural environment |
publisher |
The University of Arizona. |
publishDate |
2015 |
url |
http://hdl.handle.net/10150/594942 |
genre |
Ice permafrost |
genre_facet |
Ice permafrost |
op_relation |
http://hdl.handle.net/10150/594942 |
op_rights |
Copyright © is held by the author. Digital access to this material is made possible by the University Libraries, University of Arizona. Further transmission, reproduction or presentation (such as public display or performance) of protected items is prohibited except with permission of the author. |
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1766027750051676160 |