{"675257":{"#nid":"675257","#data":{"type":"event","title":"PhD Defense by Mengshi Zhang","body":[{"value":"\u003Cp\u003EIn partial fulfillment of the requirements for the degree of\u003Cbr\u003E\u003Cbr\u003EDoctor of Philosophy in Quantitative Biosciences\u003Cbr\u003Ein the School of Biological Sciences\u003Cbr\u003E\u003Cbr\u003E\u003Cstrong\u003EMengshi Zhang\u003C\/strong\u003E\u003C\/p\u003E\u003Cp\u003E\u0026nbsp;\u003C\/p\u003E\u003Cp\u003EDefends her thesis:\u003C\/p\u003E\u003Cp\u003E\u003Cstrong\u003EPROBING MRNA-PROTEIN RELATIONSHIPS ACROSS PROKARYOTES: FROM PSEUDOMONAS TO SULFOLOBUS\u003C\/strong\u003E\u003C\/p\u003E\u003Cp\u003E\u0026nbsp;\u003C\/p\u003E\u003Cp\u003EWednesday, July 10, 2024\u003C\/p\u003E\u003Cp\u003E10:00am Eastern\u003C\/p\u003E\u003Cp\u003ELocation: Klaus 2456\u003C\/p\u003E\u003Cp\u003E\u0026nbsp;\u003C\/p\u003E\u003Cp\u003EZoom: \u003Ca href=\u0022https:\/\/gatech.zoom.us\/j\/99164094069?pwd=SFhDVzNjaDUwZitsTEE0alBlMDc5Zz09\u0022 target=\u0022_blank\u0022\u003Ehttps:\/\/gatech.zoom.us\/j\/99164094069?pwd=SFhDVzNjaDUwZitsTEE0alBlMDc5Zz09\u003C\/a\u003E\u003C\/p\u003E\u003Cp\u003EMeeting ID: 991 6409 4069\u003Cbr\u003EPasscode: 349897\u003C\/p\u003E\u003Cp\u003E\u0026nbsp;\u003C\/p\u003E\u003Cp\u003E\u003Cstrong\u003EAdvisor:\u003C\/strong\u003E\u003C\/p\u003E\u003Cp\u003EDr. Marvin Whiteley, Advisor\u003C\/p\u003E\u003Cp\u003ESchool of Biological Sciences\u003C\/p\u003E\u003Cp\u003EGeorgia Institute of Technology\u003C\/p\u003E\u003Cp\u003E\u0026nbsp;\u003C\/p\u003E\u003Cp\u003E\u003Cstrong\u003ECommittee:\u003C\/strong\u003E\u003C\/p\u003E\u003Cp\u003EDr. Steve Diggle\u003C\/p\u003E\u003Cp\u003ESchool of Biological Sciences\u003C\/p\u003E\u003Cp\u003EGeorgia Institute of Technology\u003C\/p\u003E\u003Cp\u003E\u0026nbsp;\u003C\/p\u003E\u003Cp\u003EDr. Peter Yunker\u003C\/p\u003E\u003Cp\u003ESchool of Physics\u003C\/p\u003E\u003Cp\u003EGeorgia Institute of Technology\u003C\/p\u003E\u003Cp\u003E\u0026nbsp;\u003C\/p\u003E\u003Cp\u003EDr. Sam Brown\u003C\/p\u003E\u003Cp\u003ESchool of Biological Sciences\u003C\/p\u003E\u003Cp\u003EGeorgia Institute of Technology\u0026nbsp;\u003C\/p\u003E\u003Cp\u003E\u0026nbsp;\u003C\/p\u003E\u003Cp\u003EDr. David Weiss\u003C\/p\u003E\u003Cp\u003ESchool of Medicine\u003C\/p\u003E\u003Cp\u003EEmory University\u003C\/p\u003E\u003Cp\u003E\u0026nbsp;\u003C\/p\u003E\u003Cp\u003E\u003Cstrong\u003EAbstract:\u003C\/strong\u003E\u003C\/p\u003E\u003Cp\u003EA major challenge in understanding the mechanisms controlling colonization and persistence of bacterial pathogens is a lack of functional data regarding their physiology during human infection. One way to tackle this problem is to quantify gene expression during human infection and use this data to infer microbial function. Although RNA-seq has been widely used to study bacterial physiology during infection, a critical concern arises regarding whether mRNA levels accurately predict protein levels, which are the primary functional units of a cell. Here, we addressed this challenge systematically by using comprehensive transcriptome and proteome datasets from Gram-negative bacteria, Gram-positive bacteria, and an archaea. This thesis aims to explore the mRNA-protein relationship in two aspects, 1) How growth rate impacts mRNA-protein relationships in the model system \u003Cem\u003EP. aeruginosa\u003C\/em\u003E; 2) How the mRNA-protein relationships change across diverse prokaryotes.\u0026nbsp;\u003C\/p\u003E\u003Cp\u003E\u0026nbsp;\u003C\/p\u003E\u003Cp\u003EHere, we discovered that the overall correlation of mRNA and protein is similar across different growth rates in \u003Cem\u003EP. aeruginosa\u0026nbsp;\u003C\/em\u003Eand across diverse prokaryotes, with mRNA and protein positively correlated. In addition, essential genes have higher mRNA-protein correlations with both mRNAs and proteins produced at higher levels compared to non-essential genes in \u003Cem\u003ES. aureus\u0026nbsp;\u003C\/em\u003Eand \u003Cem\u003EP. aeruginosa\u003C\/em\u003E. We used statistical methods to identify \u2018outlier\u2019 genes in which mRNA and protein were poorly correlated in each species. Additionally, we found that protein-to-RNA ratios are often conserved across strains and environments, enabling the calculation of RNA-to-protein (RTP) conversion factors that improved predictivity of protein levels across strains and growth conditions. This advancement allows for improvement of the accuracy of protein prediction from mRNA of distantly related microbes. Our results provide new insights into mRNA-protein relationships and provide valuable tools for a deeper understanding of bacterial physiology from transcriptome data.\u003C\/p\u003E\u003Cp\u003E\u0026nbsp;\u003C\/p\u003E","summary":"","format":"limited_html"}],"field_subtitle":"","field_summary":[{"value":"\u003Cp\u003E\u003Cstrong\u003EPROBING MRNA-PROTEIN RELATIONSHIPS ACROSS PROKARYOTES: FROM PSEUDOMONAS TO SULFOLOBUS\u003C\/strong\u003E\u003C\/p\u003E","format":"limited_html"}],"field_summary_sentence":[{"value":"PROBING MRNA-PROTEIN RELATIONSHIPS ACROSS PROKARYOTES: FROM PSEUDOMONAS TO SULFOLOBUS"}],"uid":"27707","created_gmt":"2024-06-27 19:14:01","changed_gmt":"2024-06-27 19:14:41","author":"Tatianna Richardson","boilerplate_text":"","field_publication":"","field_article_url":"","field_event_time":{"event_time_start":"2024-07-10T10:00:00-04:00","event_time_end":"2024-07-10T12:00:00-04:00","event_time_end_last":"2024-07-10T12:00:00-04:00","gmt_time_start":"2024-07-10 14:00:00","gmt_time_end":"2024-07-10 16:00:00","gmt_time_end_last":"2024-07-10 16:00:00","rrule":null,"timezone":"America\/New_York"},"location":"Klaus 2456","extras":[],"groups":[{"id":"221981","name":"Graduate Studies"}],"categories":[],"keywords":[{"id":"100811","name":"Phd Defense"}],"core_research_areas":[],"news_room_topics":[],"event_categories":[{"id":"1788","name":"Other\/Miscellaneous"}],"invited_audience":[{"id":"78771","name":"Public"}],"affiliations":[],"classification":[],"areas_of_expertise":[],"news_and_recent_appearances":[],"phone":[],"contact":[],"email":[],"slides":[],"orientation":[],"userdata":""}}}