Ameer, A., Cheng, Y., Saleem, F., Uzma, , McKenna, A., Richmond, A., Gundogdu, O., Sloan, W. T. , Javed, S. and Ijaz, U. Z. (2023) Temporal stability and community assembly mechanisms in healthy broiler cecum. Frontiers in Microbiology, 14, 1197838. (doi: 10.3389/fmicb.2023.1197838) (PMID:37779716) (PMCID:PMC10534011)
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Abstract
In recent years, there has been an unprecedented advancement in in situ analytical approaches that contribute to the mechanistic understanding of microbial communities by explicitly incorporating ecology and studying their assembly. In this study, we have analyzed the temporal profiles of the healthy broiler cecal microbiome from day 3 to day 35 to recover the stable and varying components of microbial communities. During this period, the broilers were fed three different diets chronologically, and therefore, we have recovered signature microbial species that dominate during each dietary regime. Since broilers were raised in multiple pens, we have also parameterized these as an environmental condition to explore microbial niches and their overlap. All of these analyses were performed in view of different parameters such as body weight (BW-mean), feed intake (FI), feed conversion ratio (FCR), and age (days) to link them to a subset of microbes that these parameters have a bearing upon. We found that gut microbial communities exhibited strong and statistically significant specificity for several environmental variables. Through regression models, genera that positively/negatively correlate with the bird’s age were identified. Some short-chain fatty acids (SCFAs)-producing bacteria, including Izemoplasmatales, Gastranaerophilales, and Roseburia, have a positive correlation with age. Certain pathogens, such as Escherichia-Shigella, Sporomusa, Campylobacter, and Enterococcus, negatively correlated with the bird’s age, which indicated a high disease risk in the initial days. Moreover, the majority of pathways involved in amino acid biosynthesis were also positively correlated with the bird’s age. Some probiotic genera associated with improved performance included Oscillospirales; UCG-010, Shuttleworthia, Bifidobacterium, and Butyricicoccaceae; UCG-009. In general, predicted antimicrobial resistance genes (piARGs) contributed at a stable level, but there was a slight increase in abundance when the diet was changed. To the best of the authors’ knowledge, this is one of the first studies looking at the stability, complexity, and ecology of natural broiler microbiota development in a temporal setting.
| Item Type: | Articles |
|---|---|
| Additional Information: | AA acknowledges support from the International Research Support Initiative Program of the Higher Education Commission, Pakistan Project No. 1-8/HEC/HRD/2023/12790. UI is funded by the NERC Independent Research Fellowship (NE/L011956/1). UI and WS are further supported by EPSRC (EP/P029329/1 and EP/V030515/1). |
| Status: | Published |
| Refereed: | Yes |
| Glasgow Author(s) Enlighten ID: | Uzma, Dr Uzma and Ijaz, Dr Umer and Sloan, Professor William |
| Creator Roles: | Ameer, A.Data curation, Investigation, Methodology, Writing – original draft, Writing – review and editing Uzma, Data curation, Methodology, Visualization, Validation, Writing – review and editing, Software Sloan, W.Writing – review and editing, Funding acquisition Ijaz, U.Methodology, Software, Writing – original draft, Writing – review and editing, Project administration, Supervision, Funding acquisition |
| Authors: | Ameer, A., Cheng, Y., Saleem, F., Uzma, , McKenna, A., Richmond, A., Gundogdu, O., Sloan, W. T., Javed, S., and Ijaz, U. Z. |
| College/School: | College of Science and Engineering > School of Engineering > Infrastructure and Environment |
| Journal Name: | Frontiers in Microbiology |
| Publisher: | Frontiers Media |
| ISSN: | 1664-302X |
| ISSN (Online): | 1664-302X |
| Copyright Holders: | Copyright © 2023 Ameer, Cheng, Saleem, Uzma, McKenna, Richmond, Gundogdu, Sloan, Javed and Ijaz. |
| First Published: | First published in Frontiers in Microbiology 14:1197838 |
| Publisher Policy: | Reproduced under a Creative Commons license |
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