Summary of project PR002172
This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR002172. The data can be accessed directly via it's Project DOI: 10.21228/M8VV6J This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Project ID: | PR002172 |
| Project DOI: | doi: 10.21228/M8VV6J |
| Project Title: | Microbiome and metabolome association network analysis identifies Clostridium_sensu_stricto_1 and Paraprevotella as putative keystone genera in the gut of common marmosets |
| Project Summary: | The common marmoset (Callithrix jacchus), a nonhuman primate species, is a model organism that has garnered interest in recent years for its potential translational value in a variety of research settings including the field of microbiomics. While the composition of the marmoset’s gut microbiome has been described in captivity, little is known about how gut microbiota interact with each other over time and how they relate to metabolite productions. To help answer this, we characterized interactions in the gut microbiome of the common marmoset by calculating the Spearman correlation coefficient between 16S rDNA-derived relative genera abundance data and targeted metabolomics data collected longitudinally from 10 marmosets (6 males and 4 females). Association network graphs were used to visualize significant correlations and identify genera and metabolites that exhibit a high degree of associations, marking them as more influential within the microbiome. Clostridium_sensu_stricto_1, among the highest-degree genera for bacterial and metabololomic associations, also had a high relative betweenness centrality and negatively associated with high-degree Paraprevotella, indicating that it potentially plays a gatekeeping role within the bacteria-bacteria interaction and communication network. Corresponding metabolites with more numerous bacterial associations, including bile acids and taurine, are known regulators of bacterial growth that provide a potential mechanism through which Clostridium_sensu_stricto_1 and others exert their influence. To further characterize microbiome interactions, we performed hierarchical clustering on significant within-dataset associations and developed a new “Keystone Candidate Score” metric that identified Clostridium_sensu_stricto_1 and Paraprevotella as the most influential bacteria (so-called candidate keystone genera) in the marmoset gut microbiome. |
| Institute: | University of Nebraska-Lincoln |
| Last Name: | Alvarez |
| First Name: | Sophie |
| Address: | 1901 Vine St |
| Email: | salvarez@unl.edu |
| Phone: | 4024724575 |
Summary of all studies in project PR002172
| Study ID | Study Title | Species | Institute | Analysis(* : Contains Untargted data) | Release Date | Version | Samples | Download(* : Contains raw data) |
|---|---|---|---|---|---|---|---|---|
| ST003530 | Microbiome and metabolome association network analysis identifies Clostridium_sensu_stricto_1 and Paraprevotella as putative keystone genera in the gut of common marmosets | Callithrix jacchus | University of Nebraska-Lincoln | MS | 2024-12-31 | 1 | 40 | Uploaded data (3.9M)* |
