Evaluation of Sampling Methods for the Study of Avian Respiratory Microbiota
| Autor: | Hyesun Jang, Mahesh Kc, Bonnie P. Weber, Amir Ghorbani, Michael C. Abundo, Timothy J. Johnson, Mohamed Elaish, John M. Ngunjiri, Chang-Won Lee, Kara J.M. Taylor, Hana Ji |
|---|---|
| Rok vydání: | 2020 |
| Předmět: |
Veterinary medicine
040301 veterinary sciences Gene copy Respiratory System Biology Nasal wash Specimen Handling 0403 veterinary science Food Animals RNA Ribosomal 16S medicine Animals Microbiome Respiratory system Potential impact Bacteria General Immunology and Microbiology Noninvasive sampling Microbiota 0402 animal and dairy science Sampling (statistics) Sequence Analysis DNA 04 agricultural and veterinary sciences 040201 dairy & animal science RNA Bacterial medicine.anatomical_structure Animal Science and Zoology Chickens Respiratory tract |
| Zdroj: | Avian Diseases. 64 |
| ISSN: | 0005-2086 |
| DOI: | 10.1637/aviandiseases-d-19-00200 |
| Popis: | Although poultry microbiome discoveries are increasing due to the potential impact on poultry performance, studies examining the poultry respiratory microbiome are challenging because of the low microbial biomass and uniqueness of the avian respiratory tract, making it difficult to sample enough material for microbial analysis. Invasive sampling techniques requiring euthanasia are currently used to increase microbial mass for the analysis, thus making it impossible to sample individual birds longitudinally. In this study, we compared invasive (nasal wash, upper tracheal wash, lower tracheal wash, and lower respiratory lavage) and noninvasive (tracheal and choanal swabs) respiratory sampling techniques in two independent experiments by using 4-wk-old chickens. We first established the experimental baseline of respiratory microbiota by using invasive techniques to enable reasonable comparisons between sampling methods and between experiments. Although noninvasive sampling (live-bird swabs) resulted in lower 16S ribosomal RNA gene copy numbers compared with invasive sampling, live swabs were able to detect the dominant microbes captured by invasive techniques. Nevertheless, swabs from euthanatized birds were more reflective of the microbiota captured through invasive methods than live swab. Furthermore, from two separate experiments, we also demonstrated that respiratory microbiota sampling is highly reproducible, especially in the trachea and lower respiratory tract. Our study provides new insights and perspectives on decision making when sampling and studying poultry respiratory microbiota. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|