Evaluation of the Function of Wild Animal Gut Microbiomes Using Next-Generation Sequencing and Bioinformatics and its Relevance to Animal Conservation
| Autor: | Ran Yao, Lifeng Zhu, Lianglaing Xu, Guoqing Lu |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2019 |
| Předmět: |
0106 biological sciences
conservation biology lcsh:Evolution Zoology gut microbiome Chromosomal translocation 010603 evolutionary biology 01 natural sciences DNA sequencing 03 medical and health sciences translocated populations Microbial ecology Père David’s deer Genetics lcsh:QH359-425 animal translocation Microbiome sodium transport system Ecology Evolution Behavior and Systematics Feces 030304 developmental biology 0303 health sciences Elaphurus davidianus metagenomics biology digestive oral and skin physiology conservation Original Articles bioinformatics biology.organism_classification Computer Science Applications Microbial population biology Metagenomics coevolution Metagenomics and the Analysis of Microbiomes Commentary Original Article next-generation sequencing gut microbiomes |
| Zdroj: | Evolutionary Bioinformatics, Vol 15 (2019) Evolutionary Bioinformatics Evolutionary Applications |
| ISSN: | 1176-9343 |
| Popis: | The gut microbial composition and function are shaped by different factors (e.g., host diet and phylogeny). Gut microbes play an important role in host nutrition and development. The gut microbiome may be used to evaluate the host potential environmental adaptation. In this study, we focused on the coevolution of the gut microbiome of captive and translocated Père David's deer populations (Elaphurus davidianus; Chinese: Père David's deer). To address this, we used several different macro‐ and micro‐ecological approaches (landscape ecology, nutritional methods, microscopy, isotopic analysis, and metagenomics). In this long‐term study (2011–2014), we observed some dissimilarities in gut microbiome community and function between the captive and wild/translocated Dafeng Père David's deer populations. These differences might link microbiome composition with deer diet within a given season. The proportion of genes coding for putative enzymes (endoglucanase, beta‐glucosidase, and cellulose 1,4‐beta‐cellobiosidase) involved in cellulose digestion in the gut microbiome of the captive populations was higher than that of the translocated population, possibly because of the high proportion of cellulose, hemicellulose, and lignin in the plants most consumed by the captive populations. However, the two enzymes (natA and natB) involved in sodium transport system were enriched in the gut microbiome in translocated population, possibly because of their high salt diet (e.g., Spartina alterniflora). Thus, our results suggested that Père David's deer gut microorganisms potentially coevolved with host diet, and reflected the local adaptation of translocated population in the new environment (e.g., new dietary plants: Spartina alterniflora). A current problem for Père David's deer conservation is the saturation of captive populations. Given that the putative evolutionary adaptation of Père David's deer gut microbiome and its possible applications in conservation, the large area of wetlands along the Yellow Sea dominated by S. alterniflora might be the major translocation region in the future. |
| Databáze: | OpenAIRE |
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