Fig. 5
Methanomassiliicoccales genomes reconstructed from the ruminant GITs. A Schematic depicting an overview of the workflow for this section. B A phylogenetic tree was constructed using 68 Methanomassiliicoccales genomes derived from ruminant GITs. C Genome features of Methanomassiliicoccales strains LGM-RCC1 and LGM-DZ1. Cell imaging of the two strains was performed using an electron microscope. Line plot showing methane production by two strains under different nutrients, substrates, pH, and temperature. D Comparison of the levels of functional modules (COGs, KOs, and CAZymes) of the two strains. The right bar charts show the categories of the functional modules in the specific sets, and the major enriched categories are labeled. E Phylogenetic trees of G. 22 genera extracted from the whole Methanomassiliicoccales tree are shown. Colored strips and stars represent the genomes reconstructed in this study, and the strain LGM-RCC1 is highlighted. The 16S rRNA gene sequence identity, AAI values, and ANI values (ANIm and ANIb) between the strains ISO4-G1 and LGM-RCC1 and their genome-wide alignments are shown. F Circle visualization showing a pan-genome comparison of the strain LGM-DZ1 and 13 other genomes belonging to one clade. LGM-DZ1 was used as the reference, and the two inner rings show the DNA size and GC content of the reference genome. Colored outer rings show regions of the comparison genomes that matched the LGM-DZ1 genome. Genome names from inside to outside are listed at the bottom right. The location of the selected genes in the reference genome is denoted at the outer ring. G The genome structure of a prophage found in the strain LGM-DZ1 is shown at the bottom