Metagenome-assembled genomes from cow rumen

MAGNI, C; RICARDI, L; BLANCATO, VÍCTOR S.

Congreso; LVII Reunión Anual de SAIB; 2021

Ruminants can transform the energy stored in plants into food products that can be used by Humans, such as meet and milk. The rumen microbiota is composed of protozoa, bacteria, fungi, and archaea, which are responsible for plant material degradation. Despite strong industrial and scientific interest, the rumen remains a poorly understood habitat, with many uncultured microbial species and strains. Metagenomic sequencing of the rumen still produces highly novel sequences, which can be of great interest for biofuels, food and biotechnology industries. In this work, the metagenomes of rumen samples of regional young and adult cows fed with a rich or poor diet were obtained aiming to assemble novel genomes. DNA was extracted and sequenced by WGS, then the reads were quality filtered and assembled with Megahit. Quality of the contigs was assessed with QUAST software, BWA MEM was used to map reads back to the assemblies. Binning was carried out with Metabat2 using the obtained contigs, and BAM files corresponding to reads alignments. 12 to 31 bins were recovered per sample. After that CheckM was used to assess the completeness and contamination of all bins. After filtering for completeness ≥80% and contamination ≤10%, we retained three to five metagenome assembled genomes (MAGs) per sample. Taxonomic assignment was carried out using Microbial Genome Atlas Server. The MAGs were identified as close relatives to bacteria associated to gastrointestinal tract or plants: Parabacteroides distasonis, Pseudomonas citronellolis, Alistipes sp., Roseburia intestinalis, Mageeibacillus indolicus, Alloprevotella sp., and Xanthomonas vasicola. The results obtained will allow further characterization of the metabolic potential of the MAGs and help to understand its role in the rumen ecosystem as well as its interaction with the host. Through these findings it will be possible, to determine enzymes of interest codified by such microorganisms that contribute to improve efficiency and quality of biotechnological and industrial products.