2026-09-22T08:24:43Z https://www.ideals.illinois.edu/oai-pmh

oai:www.ideals.illinois.edu:2142/113271 2023-07-11 col_2142_5131 col_2142_5163 com_2142_5130 com_2142_5162 com_2142_234

Jensen, Paul A Jensen, Paul A Maslov, Sergei Sirk, Shannon Vanderpool, Cari Jijakli, Kenan 2022-01-12T22:54:09Z 2022-01-12T22:54:09Z 2024-01-12T22:56:20Z 2021-07-12 2021-08 The metabolism of microbial species is very diverse, displaying a wide range of capabilities. This diversity is often explainable by differences in the metabolic networks that underly microbial metabolism. However, closely related microbial species that have structurally conserved metabolic networks with relatively few differences still display diverse growth profiles under the same growth conditions. This diversity cannot be explained by metabolic capabilities given the similarity in metabolism across these closely related species. In this dissertation, I explore this phenomenon by comparing the growth fitness of a group of closely related oral streptococci using high throughput combinatorial growth experiments. I compare these experimental results to predictions from genome-scale metabolic models that I constructed for each species under study. These models capture the entire metabolism of a species and predict its metabolic capabilities. Disagreements between experimental results and model predictions point to differences in utilization of metabolism that can help explain diversity in growth phenotypes despite similarity in metabolic networks. I develop an algorithm that can analyze these differences and suggest gene suppressions that reconcile model predictions with experimental results, suggesting points of genetic or enzymatic regulation. Submission published under a 24 month embargo labeled 'Closed Access', the embargo will last until 2023-08-01 The student, Kenan Jijakli, accepted the attached license on 2021-07-05 at 16:46. The student, Kenan Jijakli, submitted this Dissertation for approval on 2021-07-05 at 16:55. This Dissertation was approved for publication on 2021-07-12 at 16:31. DSpace SAF Submission Ingestion Package generated from Vireo submission #16757 on 2022-01-12 at 13:03:53 Made available in DSpace on 2022-01-12T22:54:09Z (GMT). No. of bitstreams: 3 JIJAKLI-DISSERTATION-2021.pdf: 3809496 bytes, checksum: b072ae32f394c3b737bef91324b169bc (MD5) LICENSE.txt: 4210 bytes, checksum: 2f3660baaac3fc5a3dd0244a7ac25f78 (MD5) PROQUEST_LICENSE.txt: 4556 bytes, checksum: 361249c80819ac9021308e420d311ae7 (MD5) Previous issue date: 2021-07-12 Embargo set by: Seth Robbins for item 121198 Lift date: 2024-01-12T22:54:14Z Reason: Author requested closed access (OA after 2yrs) in Vireo ETD system Embargo set by: Seth Robbins for item 121198 Lift date: 2024-01-12T22:55:09Z Reason: Author requested closed access (OA after 2yrs) in Vireo ETD system Embargo set by: Seth Robbins for item 121198 Lift date: 2024-01-12T22:56:20Z Reason: Author requested closed access (OA after 2yrs) in Vireo ETD system Author requested closed access (OA after 2yrs) in Vireo ETD system Limited application/pdf http://hdl.handle.net/2142/113271 en Copyright 2021 Kenan Jijakli oral streptococci, genpme-scale metabolic models, gene regulation, prediction Characterizing the higher order metabolism of oral streptococci text Thesis Bioengineering Bioengineering University of Illinois at Urbana-Champaign Dissertation Ph.D.