Progress 02/01/24 to 01/31/25
Outputs
Target Audience:The target audience for this work is the scientific community that works on salmonellosis and commensal carriage of Salmonella in poultry. Changes/Problems:
Nothing Reported
What opportunities for training and professional development has the project provided?This project provided research, public speaking, and manuscript preparation training for one postdoctoral fellow and one graduate student in this project period. How have the results been disseminated to communities of interest?
Nothing Reported
What do you plan to do during the next reporting period to accomplish the goals?This was the final period for this project, as such our work on this project is complete- other than manuscript preparation and submission - which is ongoing.
Impacts
What was accomplished under these goals?
1. Objective 1- 75% complete 2. Objective 2- Completed. (additional manuscript in preparation) 3. Objective 3- Completed. Manuscript in preparation.
Publications
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Progress 02/01/18 to 01/31/25
Outputs
Target Audience:The target audience for this project was the scientific community that studies salmonellosis in poultry, and commensal colonization of chickens by Salmonella. Changes/Problems:Competitors published experiments very similar to some of those in our Objective 1 early during this project, and we pivoted accordingly to put a bit more emphasis on Objectives 2 and 3- and carefully characterizing the intestinal environment in chicks during development and during development when infected with S. typhimuirium, S. enteritidis, and E. coli Nissle. What opportunities for training and professional development has the project provided?We have trained 2 postdoctoral fellows, 2 graduate students and several undergraduates in part on this project. Their training included conducting research, developing an understanding of the literature and the practicalities of working with poultry, oral presentation skills, and writing and manuscript preparation. How have the results been disseminated to communities of interest?Results have been disseminated by peer reviewed publication. What do you plan to do during the next reporting period to accomplish the goals?
Nothing Reported
Impacts
What was accomplished under these goals?
Objective 1- 75% of this goal was accomplished. Unfortunately, a competitor scooped us on much of the detailed molecular double mutant work during the early project periods. We adjusted our project accordingly. Objective 2- Complete.- Manuscript in preparation. Objecitve 3- Complete. Manuscript in preparation.
Publications
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Progress 02/01/23 to 01/31/24
Outputs
Target Audience:Target audience for this work is the scientific community. We have reached them with one substantial publication from this work. Changes/Problems:Covid, personnel turnover, and other issues have plagued the timing of this project. Difficulty in identifying bioinformatics support has been an issue. Nevertheless- a very nice publication was published, and a second publication is in preparation. What opportunities for training and professional development has the project provided?This project has trained 1 undergraduate student, two graduate students and a postdoctoral fellow. How have the results been disseminated to communities of interest?Results have been published in peer reviewed journals. What do you plan to do during the next reporting period to accomplish the goals?We plan to focus on metabolomics data and omics data collected from chicks in objective 2- to further analyze what metabolic pathways are altered in the intestine of Salmonella and nissle infected chicks versus naive chicks. We also plan to investigate why e. coli nissle inoculation at early age causes accellerated weight gain in chicks. We also plan to complete the remaining aims.
Impacts
What was accomplished under these goals?
1. Objective 1- remains to be completed. Approximately 50% complete. 2. Objective 2- This aim is completed and this work is published. We are further analyzing untargeted metabolomics data collected in this aim to help us identify metabolic pathways used in the intestine during salmonella colonization and in naive chicks. 3. Objective 3- This objective is nearly complete.
Publications
- Type:
Journal Articles
Status:
Published
Year Published:
2022
Citation:
Taxonomic and Metagenomic Analyses Define the Development of the Microbiota in the Chick
Authors: Lydia Bogomolnaya, Marissa Talamantes, Joana Rocha, Aravindh Nagarajan, Wenhan Zhu , Luisella Spiga, Maria G. Winter, Kranti Konganti, L. Garry Adams, Sebastian Winter , Helene Andrews-Polymenis.
Journal: mBio DOI: https://doi.org/10.1128/mbio.02444-22
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Progress 02/01/22 to 01/31/23
Outputs
Target Audience:
Nothing Reported
Changes/Problems:Covid and personnel shortages have delayed our work substantially. Thus this project may take additional time to complete. What opportunities for training and professional development has the project provided?This project has provided training in working with chicks and salmonella to postdoctoral fellows, technical staff and undergraduate students. How have the results been disseminated to communities of interest?Yes- one manuscript on this work has been published: Bogomolnaya et al, mBio, 2023. And a second manuscript is in preparation. What do you plan to do during the next reporting period to accomplish the goals?Complete experiments in Aim 1 if possible, and publish a second manuscript.
Impacts
What was accomplished under these goals?
Objective 1. We have completed some of the work of this aim, the remainder will hopefully be completed in the coming period. Objective 2. This aim is completed. Objective 3. This aim is completed.
Publications
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Progress 02/01/21 to 01/31/22
Outputs
Target Audience:The target audience for this work are scientists and companies that work for preharvest reduction of Salmonella in poultry. In this project period we prepared a manuscript to be published in a scientific journal to disseminate our results to this target audience. Changes/Problems:In the last year our experiments have been slowed down by the COVID epidemic, causing a university wide shut down of research for >6 months. This is very damaging to a research program, and especially slows research involving live animals. What opportunities for training and professional development has the project provided?This project has provided training and professional development for one postdoctoral fellow, one graduate student, and one undergraduate student, both at the bench, and in manuscript preparation. How have the results been disseminated to communities of interest?Results of Aim 2 will be disseminated to communities of interest via publication in a peer reviewed journal. We currently are in the final stages of preparation of the first manuscript, and have data nearly completed for a second manuscript. What do you plan to do during the next reporting period to accomplish the goals?During the next project period we will continue the experiments in Objectives 1 and 3.
Impacts
What was accomplished under these goals?
Objective 1: This aim has yet to be completed. Objective 2. This aim is completed. A manuscript will be submitted on this work within the next two months. Objective 3. We have colonized chicks with E. coli Nissle and have some interesting findings regarding how chick growth is affected and how the intestinal microbiota are affected by Nissle colonization. We know that colonizing chicks with Nissle does not prevent Salmonella colonization but will work on this further in the next project period.
Publications
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Progress 02/01/20 to 01/31/21
Outputs
Target Audience:
Nothing Reported
Changes/Problems:1. This project has been slowed by COVID-19, as we were unable to do experiments from March of 2020- January of 2021 in the laboratory or using infection of live animals. 2. We are undergoing a change in personnel, and hiring is very difficult during COVID-19. This has also slowed this project further. What opportunities for training and professional development has the project provided?This project provided opportunities for training undergraduate students, graduate students, and postdoctoral fellows. How have the results been disseminated to communities of interest?We have a publication in preparation on this work. What do you plan to do during the next reporting period to accomplish the goals?We will continue molecular characterization and infection experiments to identify pathways and metabolic strategies necessary for Salmonella colonization of chicks at 4 days of age- based on our metabolomic, metagenomic, and microbiome profiling work already completed in this proposal.
Impacts
What was accomplished under these goals?
Objective 1. We have completed the analysis of several electron acceptor mutants in this aim. Objective 2. This objective is completed, and molecular pathways that appear to be important in chickens are currently being studied. Objective 3. This objective is partially completed.
Publications
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Progress 02/01/19 to 01/31/20
Outputs
Target Audience:
Nothing Reported
Changes/Problems:We have had several setbacks during the last project period.. 1. Change in personnel. The postdoctoral fellow on this project took a faculty position elsewhere, and has been replaced by a new postdoctoral fellow. This new individual will require a bit of time to get up to speed in this project. 2. Other groups are studying the requirement for different electron acceptors during colonization of chicks. A publication in this area from a competing group was published in 2019. In order to compensate for this, we are focused on the large and detailed data sets we have collected in Objective 2. We will mine these data sets to identify genes, metabolites, and pathways that Salmonella relies upon during colonization of the chick intestine. What opportunities for training and professional development has the project provided?This project has provided training opportunity for a postdoctoral fellow. How have the results been disseminated to communities of interest?
Nothing Reported
What do you plan to do during the next reporting period to accomplish the goals?We will focus on the data sets obtained in Objective 2- to identify genes and metabolites needed by Salmonella to colonize the chick intestine early on.
Impacts
What was accomplished under these goals?
Objective 1. Identify theSalmonellagenes needed for formate oxidation in the chick. PROGRESS ON THIS OBJECTIVE; This objective will be accomplished in the next project period. Objective 2: Determine intestinal formate level and correlate with taxonomic shifts and formate metabolic pathways in the microbiota. PROGRESS ON THIS OBJECTIVE: A. WE HAVE COMPLETED THIS OBJECTIVE IN THIS AND THE LAST PROJECT PERIODS. WE HAVE COLLECTED EXTENSIVE 16S DATA DURING DEVELOPMENT OF THE CHICK MICROBIOTA. B. WE HAVE MEASURED THE LEVEL OF MULTIPLE SHORT CHAIN FATTY ACIDS AT THE SAME TIME POINTS DURING CHICK DEVELOPMENT. C. IN ADDITION, WE HAVE DETAILED THE FORMATION OF THE MICROBIOTA DURING CHICK DEVELOPMENT WHEN BOTH SALMONELLA OR E. COLI NISSLE ARE PRESENT. D. WE HAVE MEASURED THE LEVEL OF MULTIPLE SHORT CHAIN FATTY ACIDS IN DEVELOPING CHICKS WHEN SALMONELLA IS PRESENT FROM DAY 4 POST HATCH. E. WE HAVE COMPLETED THE METAGENOMIC ANALYSIS OF THE CHICK INTESTINAL CONTENTS DURING CHICK DEVELOPMENT. F. FROM ALL OF THESE ANALYSES WE HAVE DEVELOPED SEVERAL VERY RICH DATA SETS THAT WE ARE MINING FOR THE IDENTIFICATION OF GENES AND METABOLITES THAT SALMONELLA MAY REQUIRE TO COLONIZE THE CHICK INTESTINE DURING CHICK DEVELOPMENT. Objective 3: Test commensalE. coli"Nissle" strains unable to generate formate for their ability to reduceSalmonellacolonization in chicks. WE HAVE COLONIZED CHICKS WITH NISSLE, AND PERFORMED COMPETITIVE INFECTION EXPERIMENTS WITH NISSLE AND SALMONELLA. WE HAVE ALSO TESTED THE NISSLE PYRUVATE FORMATE LYASE MUTANT FOR ITS ABILITY TO COLONIZE CHICKS AND ITS ABILITY TO REDUCE SALMONELLA COLONIZATION. FOR THESE EXPERIMENTS WE HAVE PRIMARILY USED S. TYPHIMUIUM.
Publications
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Progress 02/01/18 to 01/31/19
Outputs
Target Audience:
Nothing Reported
Changes/Problems:We may shift our focus slightly toward examining carbon utilization and other metabolic pathways in the chick intestine, as a competitor has recently published terminal electron acceptor work in a similar system. What opportunities for training and professional development has the project provided?This project has provided a training opportunity for a postdoctoral fellow and an undergraduate student. How have the results been disseminated to communities of interest?
Nothing Reported
What do you plan to do during the next reporting period to accomplish the goals?During the next project period we will make substantial progress on Objective 3, and Objective 1.
Impacts
What was accomplished under these goals?
Objective 1. We have not yet comleted this objective. This objective will be approached during the next project period. Objective 2. We have completed the quantification of formate in the chick intestine in both infected and uninfected animals, we have completed 16s and metagenonic analysis data collection. This aim is experimentally complete, but the data remain to be analyzed to inform the experiments performed in Objective 1. Objective 3. We have colonized chicks with E. coli Nissle (wild type) and will colonize the chicks with EcN lacking the ability to produce formate within the next month. This remaining experiments in this aim will be begun during this next project period.
Publications
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