ABSTRACT
BACKGROUND: Host associated gut microbiota are important in understanding the coevolution of host-microbe, and how they may help wildlife populations to adapt to rapid environmental changes. Mammalian gut microbiota composition and diversity may be affected by a variety of factors including geographic variation, seasonal variation in diet, habitat disturbance, environmental conditions, age, and sex. However, there have been few studies that examined how ecological and environmental factors influence gut microbiota composition in animals' natural environments. In this study, we explore how host habitat, geographical location and environmental factors affect the fecal microbiota of Cynomys ludovicianus at a small spatial scale. We collected fecal samples from five geographically distinct locations in the Texas Panhandle classified as urban and rural areas and analyzed them using high throughput 16S rRNA gene amplicon sequencing. RESULTS: The results showed that microbiota of these fecal samples was largely dominated by the phylum Bacteroidetes. Fecal microbiome diversity and composition differed significantly across sampling sites and habitats. Prairie dogs inhabiting urban areas showed reduced fecal diversity due to more homogenous environment and, likely, anthropogenic disturbance. Urban prairie dog colonies displayed greater phylogenetic variation among replicates than those in rural habitats. Differentially abundant analysis revealed that bacterial species pathogenic to humans and animals were highly abundant in urban areas which indicates that host health and fitness might be negatively affected. Random forest models identified Alistipes shahii as the important species driving the changes in fecal microbiome composition. Despite the effects of habitat and geographic location of host, we found a strong correlation with environmental factors and that- average maximum temperature was the best predictor of prairie dog fecal microbial diversity. CONCLUSIONS: Our findings suggest that reduction in alpha diversity in conjunction with greater dispersion in beta diversity could be indicative of declining host health in urban areas; this information may, in turn, help determine future conservation efforts. Moreover, several bacterial species pathogenic to humans and other animals were enriched in prairie dog colonies near urban areas, which may in turn adversely affect host phenotype and fitness.
Subject(s)
Gastrointestinal Microbiome , Microbiota , Animals , Humans , Phylogeny , RNA, Ribosomal, 16S , SciuridaeABSTRACT
Understanding how niche differences evolve in ecologically similar species and how these differences are maintained is a fundamental question in ecology. We studied resource partitioning and niche overlap between the hoolock gibbon (Hoolock hoolock) and other frugivorous vertebrates from April 2016 to January 2018 in Satchari National Park, Sylhet, Bangladesh. We examined the differences in their diet, niche breadth, niche overlap, and characterization of patch use. We recorded feeding events of gibbons and other frugivorous vertebrates using ad libitum sampling. Gibbons consumed 76 plant species including 32 non-fig fruits and 14 figs. Twenty-one competing frugivorous vertebrate species shared 10-70% of their food species with hoolocks. Competition for fruits was intense among gibbons, macaques, and hornbills, as fruits comprised more than 50% of their diet. The niche breadth of the gibbons varied across seasons. It was lowest during the rainy season (BA = 0.39) when fruits were more readily available, and highest in winter (BA = 0.58) when gibbons were less selective due to food scarcity. The niche overlap was highest between gibbons and northern pig-tailed macaques (Ojk = 0.70), followed by gibbons and hornbills (Ojk = 0.68). Feeding heights and substrate used varied significantly between gibbons and competitors. Gibbons may minimize competition by specializing on various food resources and using different forest patches.
