Phylogenomic proximity and metabolic discrepancy of Methanosarcina mazei Go1 across methanosarcinal genomes.
Methanosarcina mazei Go1 is a heterotrophic methanogenic archaean contributing a significant role in global methane cycling and biomethanation process. Phylogenomic relatedness and metabolic discrepancy of this genome were described herein by comparing its whole genome sequence, intergenomic distance, genome function, synteny homologs and origin of replication, and marker genes with very closely related genomes, Methanosarcina acetivorans and Methanosarcina barkeri. Phylogenomic analysis of this study revealed that genome functional feature and metabolic core of M. mazei and M. barkeri could be originated from M. acetivorans. The metabolic core of these genomes shares a common evolutionary origin to perform the metabolic activity at different environmental niches. Genome expansion, dynamics and gene collinearity were constrained and restrained the conservation of the metabolic core genes by duplication events occurring across methanosarcinal genomes. The Darwinian positive selection was an evolutionary constraint to purify the function of core metabolic genes. Using genome-wide metabolic survey, we found the existence of four novel putative metabolic pathways such as complete methanogenesis from acetate, indole-3-acetate biosynthesis V, 4-aminobutyrate degradation III, galactosamine biosynthesis I and siroheme biosynthesis. Overall, the present study would provide a stand point to revisit its phylogenomic status in order to understand the origin and evolution history of this organism.
Molecular Systems Engineering Lab., Department of Bioinformatics, School of Life Sciences, Bharathidasan University, Tiruchirappalli, 620 024, Tamil Nadu, India.
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Bharathi
Molecular Systems Engineering Lab., Department of Bioinformatics, School of Life Sciences, Bharathidasan University, Tiruchirappalli, 620 024, Tamil Nadu, India. Electronic address: pchellapandi@gmail.com.
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Chellapandi
D019843:Archaeal Proteins / Q000235:genetics / Q000378:metabolism; D019143:Evolution, Molecular; D005688:Galactosamine / Q000096:biosynthesis; D020440:Gene Duplication; D019766:Genes, Archaeal / Q000235:genetics; D014644:Genetic Variation; D020745:Genome, Archaeal / Q000235:genetics*; D006418:Heme / Q000031:analogs & derivatives / Q000096:biosynthesis; D007210:Indoleacetic Acids / Q000378:metabolism; D053858:Metabolic Networks and Pathways / Q000235:genetics; D008697:Methane / Q000378:metabolism*; D017020:Methanosarcina / Q000145:classification / Q000235:genetics* / Q000378:metabolism*; D010802:Phylogeny; D013045:Species Specificity; D005680:gamma-Aminobutyric Acid / Q000096:biosynthesis
D019843:Archaeal Proteins; D007210:Indoleacetic Acids; D006418:Heme; C009272:siroheme; D005680:gamma-Aminobutyric Acid; C030737:indoleacetic acid; D005688:Galactosamine; D008697:Methane
Biogas; Genome evolution; Metabolomics; Methane; Methanogenesis; Methanosarcina