From our experiment, we reconstructed a total of 4,591 metagenome-assembled genomes (MAGs) from all 36 samples, spanning all time points. These MAGs exhibited the following average characteristics:



  1. Genome Completeness: 50.25%

  2. Genome Contamination: 3.36%

  3. Genome Length: 1,775 bp


To ensure quality and for downstream analysis, we applied filtering criteria to select “medium-quality” genomes defined as those with:



  1. Completeness >= 50%

  2. Contamination < 10%


After filtering, we retained 1,957 MAGs meeting these criteria. Below, we present key metrics for MAGs classified taxonomically at a mash distance threshold of 0.05 corresponding to an average nucleotide identity of ~95%.



Taxonomic Distributions


At the phylum level, MAGs are assigned multiple phyla, with Bacteroidota and Bacillota having the highest counts. Other phyla are present but in smaller proportions.



 


Class Level Distribution


At the class level, we see several classes are represented with Bacteroidia and Bacilli being the most frequent. Other classes are assigned to our MAGs but with fewer occurrences.


 



Considering the order level distribution, there is a wide variety of orders present with Bacteroidales appearing most frequently. Other orders are distributed across a wider range but in lower numbers.


Order level distribution 


 



 


Family Level Distribution


The family taxonomic level is dominated by MAGs belonging to Muribaculaceae and Marinifilaceae, followed by several other families with moderate to low representation.



 


Genus Level Distribution (Top 20  Genera)


The top 20 genera include Odoribacter, Duncaniella, and Alistipes, among others. The counts decrease as you move further down the top 20, with notable variation in representation among the genera.



Species Level Distribution (Top 20 Species)


 


The top 20 species include Odoribacter sp910589025, Duncaniella freteri, and Alistipes sp003979135. The distribution at this level shows a gradual decline in counts from the most represented to the least represented species in the top 20.



 


Each taxonomic level reveals a detailed count and variety of organisms, with notable changes in representation as the classifications become more specific.