Taxonomic and functional assignment of cloned sequences from high Andean forest soil metagenome

José Salvador Montaña, Diego Jiménez Avella, Tatiana Angel, Mónica Hernández, Sandra Baena

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12 Citations (Scopus)


Total metagenomic DNA was isolated from high Andean forest soil and subjected to taxonomical and functional composition analyses by means of clone library generation and sequencing. The obtained yield of 1.7 μg of DNA/g of soil was used to construct a metagenomic library of approximately 20,000 clones (in the plasmid p-Bluescript II SK+) with an average insert size of 4 Kb, covering 80 Mb of the total metagenomic DNA. Metagenomic sequences near the plasmid cloning site were sequenced and them trimmed and assembled, obtaining 299 reads and 31 contigs (0.3 Mb). Taxonomic assignment of total sequences was performed by BLASTX, resulting in 68.8, 44.8 and 24.5% classification into taxonomic groups using the metagenomic RAST server v2.0, WebCARMA v1.0 online system and MetaGenome Analyzer v3.8 software, respectively. Most clone sequences were classified as Bacteria belonging to phlya Actinobacteria, Proteobacteria and Acidobacteria. Among the most represented orders were Actinomycetales (34% average), Rhizobiales, Burkholderiales and Myxococcales and with a greater number of sequences in the genus Mycobacterium (7% average), Frankia, Streptomyces and Bradyrhizobium. The vast majority of sequences were associated with the metabolism of carbohydrates, proteins, lipids and catalytic functions, such as phosphatases, glycosyltransferases, dehydrogenases, methyltransferases, dehydratases and epoxide hydrolases. In this study we compared different methods of taxonomic and functional assignment of metagenomic clone sequences to evaluate microbial diversity in an unexplored soil ecosystem, searching for putative enzymes of biotechnological interest and generating important information for further functional screening of clone libraries.

Original languageEnglish
Pages (from-to)205-15
Number of pages11
JournalAntonie van Leeuwenhoek
Issue number2
Publication statusPublished - Feb-2012
Externally publishedYes


  • Altitude
  • Bacteria
  • Colombia
  • DNA, Bacterial
  • DNA, Ribosomal
  • Metagenome
  • Molecular Sequence Data
  • Phylogeny
  • RNA, Ribosomal, 16S
  • Soil Microbiology
  • Trees

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