Metagenome Skimming of Insect Specimen Pools: Potential for Comparative Genomics.
Bottom Line: In addition to effect of taxonomic composition of the metagenomes, the number of mapped scaffolds also revealed structural differences between the two reference genomes, although the significance of this striking finding remains unclear.Finally, apparently exogenous sequences were recovered, including potential food plants, fungal pathogens, and bacterial symbionts.The "metagenome skimming" approach is useful for capturing the genomic diversity of poorly studied, species-rich lineages and opens new prospects in environmental genomics.
Affiliation: Department of Life Sciences, Natural History Museum, London, United Kingdom.Show MeSH
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Mentions: Gene families recovered from the metagenomes correspond to multicopy and highly conserved elements (fig. 1, scenario D) and represent some of the lcn repeats mapped on the reference genomes (fig. 5C, red bars). Tandemly repeated rRNA genes were present in hundreds of scaffolds, with twice as many matches to the LSU than to the 2-fold shorter SSU gene (fig. 5). In all libraries, more than 80% of rRNA-containing scaffolds were homologous to Hexapoda, but other phyla were represented also (fig. 5). The Weevil and Canopy_Long libraries contained 2.3 and 0.95 rRNA scaffolds per morphospecies on average.Fig. 5.—
Affiliation: Department of Life Sciences, Natural History Museum, London, United Kingdom.