Social behavior mediates the microbiome response to antibiotic treatment in a wild mammal

High levels of social connectivity among group-living animals have been hypothesized to benefit individuals by creating opportunities to rapidly reseed the microbiome and maintain stability against disruption. We tested this hypothesis by perturbing the microbiome of a wild population of Grant’s gazelles with an antibiotic and asking whether microbiome recovery differs between individuals with high versus low levels of social connectivity. We found that after treatment, individuals with high social connectivity experienced a faster increase in microbiome richness than less socially connected individuals. Unexpectedly, the rapid increase in microbiome richness of highly connected individuals that received treatment led to their microbiomes becoming more distinct relative to the background population. Our results suggest that the microbiome of individuals with high social connectivity can be rapidly recolonized after a perturbation event, but this leads to a more distinct, rather than sim..., , To run code you must have the necessary software installed. Ensure you have R and any required packages and Qiime 2 associated plugins installed on your system. For reproducibility, ensure that you have the input data and maintain the directory structure and scripts as they are., # Data from: Social behavior mediates the microbiome response to antibiotic treatment in a wild mammal

Short title: Social microbiome response to antibiotic treatment
Keywords: 16S rRNA, degree, social connectivity, gazelle

\###Metadata

File: metadata.csv

The metadata file provides information about each sample, including individual sample IDs, animal IDs, feature counts, antibiotic treatment status, degree, alpha diverisity metric (Observed Richness, Shannon, Chao 1) and Time.

The metadata file include the following:

SampleID: Unique identifier for each sample, used to link samples to the raw data stored on Qiita.

AnimalID: ID tag assigned to each individual, allowing for identification of the animal from which the sample was collected.

Feature Count: Number of Amplicon Sequence Variants (ASVs) found in each sample. This provides information about the richness of microbial diversity in each sample.

Time: The number of days after antibiotic administration when the microbiome sa...