Distribution of complete CRISPR-Cas systems in vibrio cholerae and its effect on presence of plasmid derived contigs in complete genome assemblies
This thesis is submitted in partial fulfillment of the requirements for the degree of Bachelor of Science in Biotechnology, 2023.
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BRAC University
2024
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| Online adgang: | http://hdl.handle.net/10361/23609 |
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10361-236092024-08-13T08:50:30Z Distribution of complete CRISPR-Cas systems in vibrio cholerae and its effect on presence of plasmid derived contigs in complete genome assemblies Reza, Ratul Naser, Iftekhar Bin Shishir, Tushar Ahmed Department of Mathematics and Natural Sciences, Brac University Vibrio cholerae Water-borne disease Cholera Diarrhea Dehydration CRISPR-Cas systems Waterborne infection--Bangladesh Cholera--Bangladesh--Dhaka This thesis is submitted in partial fulfillment of the requirements for the degree of Bachelor of Science in Biotechnology, 2023. Cataloged from the PDF version of the thesis. Includes bibliographical references (pages 33-36). Cholera is a water-borne disease caused by Vibrio cholerae that causes severe diarrhea and dehydration. Plasmids disseminate antibiotic resistance and have the potential to play critical roles in epidemic outbreaks. Understanding the distribution and coexistence of V. cholerae plasmids and CRISPR-Cas systems is critical for investigating pathophysiology and developing effective control methods. The NCBI database yielded a total of 5873 genomic assemblies. PlasForest, a machine learning-based classifier, was used to predict plasmid sequences, while CRISPRCasTyper was utilized to identify Cas operons and CRISPR arrays. The results demonstrate a statistically significant decrease in %PDC between groups with no CCS and groups with 1 CCS and 2 CCS, although the difference in %PDC across groups with multiple CCS was not significant. Ratul Reza B. Biotechnology 2024-06-26T08:34:27Z 2024-06-26T08:34:27Z ©2023 2023-05 Thesis ID 18236002 http://hdl.handle.net/10361/23609 en Brac University internship reports are protected by copyright. They may be viewed from this source for any purpose, but reproduction or distribution in any format is prohibited without written permission. 54 pages application/pdf BRAC University |
| institution |
Brac University |
| collection |
Institutional Repository |
| language |
English |
| topic |
Vibrio cholerae Water-borne disease Cholera Diarrhea Dehydration CRISPR-Cas systems Waterborne infection--Bangladesh Cholera--Bangladesh--Dhaka |
| spellingShingle |
Vibrio cholerae Water-borne disease Cholera Diarrhea Dehydration CRISPR-Cas systems Waterborne infection--Bangladesh Cholera--Bangladesh--Dhaka Reza, Ratul Distribution of complete CRISPR-Cas systems in vibrio cholerae and its effect on presence of plasmid derived contigs in complete genome assemblies |
| description |
This thesis is submitted in partial fulfillment of the requirements for the degree of Bachelor of Science in Biotechnology, 2023. |
| author2 |
Naser, Iftekhar Bin |
| author_facet |
Naser, Iftekhar Bin Reza, Ratul |
| format |
Thesis |
| author |
Reza, Ratul |
| author_sort |
Reza, Ratul |
| title |
Distribution of complete CRISPR-Cas systems in vibrio cholerae and its effect on presence of plasmid derived contigs in complete genome assemblies |
| title_short |
Distribution of complete CRISPR-Cas systems in vibrio cholerae and its effect on presence of plasmid derived contigs in complete genome assemblies |
| title_full |
Distribution of complete CRISPR-Cas systems in vibrio cholerae and its effect on presence of plasmid derived contigs in complete genome assemblies |
| title_fullStr |
Distribution of complete CRISPR-Cas systems in vibrio cholerae and its effect on presence of plasmid derived contigs in complete genome assemblies |
| title_full_unstemmed |
Distribution of complete CRISPR-Cas systems in vibrio cholerae and its effect on presence of plasmid derived contigs in complete genome assemblies |
| title_sort |
distribution of complete crispr-cas systems in vibrio cholerae and its effect on presence of plasmid derived contigs in complete genome assemblies |
| publisher |
BRAC University |
| publishDate |
2024 |
| url |
http://hdl.handle.net/10361/23609 |
| work_keys_str_mv |
AT rezaratul distributionofcompletecrisprcassystemsinvibriocholeraeanditseffectonpresenceofplasmidderivedcontigsincompletegenomeassemblies |
| _version_ |
1814309524646920192 |