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SARST-V6 Reveals Interesting Aspects of the Ecological Diversity in the Extremely Acidic Rio Tinto (Spain)

Palacios, C ; Amaral-Zettler, L A ; Zettler, E R ; Amils, R ; Sogin, M L

Eos (Washington, D.C.), 2006-09, Vol.87 (36)

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  • Título:
    SARST-V6 Reveals Interesting Aspects of the Ecological Diversity in the Extremely Acidic Rio Tinto (Spain)
  • Autor: Palacios, C ; Amaral-Zettler, L A ; Zettler, E R ; Amils, R ; Sogin, M L
  • Assuntos: Acidithiobacillus ferrooxidans ; Freshwater ; Leptospirillum ferrooxidans ; Marine
  • É parte de: Eos (Washington, D.C.), 2006-09, Vol.87 (36)
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  • Descrição: The Rio Tinto is an extremely acidic, heavy metal laden river that runs through the Iberian Pyritic Belt in Southwestern Spain. Several studies have previously investigated the microbial communities in this extreme environment at both the prokaryotic and eukaryotic levels using culture-dependent and independent methods. We studied the bacterial diversity in the water column using a new high-throughput sequencing method called SARST-V6 (Serial Analysis of Ribosomal Sequence Tags in the hypervariable V6 region of the small-subunit rRNA gene). We chose to study three key stations in the river because of their particular physico-chemical characteristics. High-throughput SARST-V6 allowed for a thorough, hierarchical sampling of each station. We sampled each station in triplicate for DNA together with numerous measurements of physico-chemical parameters. We added DNA lysis/storage buffer to our filtered samples as soon as filtering was complete and immediately froze them at liquid nitrogen temperature. All these steps were undertaken in the field except for geochemical measurements. Direct sequencing information obtained with SARST-V6 revealed a hidden bacterial diversity in the river. We observed what appears to be possible microheterogeneity of the predominant bacterial strains that represented more than 50% of all 10,000 tags sequenced. These are tags that matched known typical species from this river, such as {\it Acidithiobacillus ferrooxidans} (>4500 tags) and {\it Leptospirillum ferrooxidans} (>400 tags). There are also other tags never reported before in this environment that matched uncultured bacteria typical from similar environments (>1600 tags). The remaining diversity encountered also corresponded to either bacteria already reported in the river or are similar to free-living or endosymbiont strains found in environments with similar geochemical characteristics. Multivariate analysis methods reveal patterns between the physico-chemical parameters and the ecological alpha and beta diversity from our different sampling sites. The SARST-V6 method as applied to the Rio Tinto shows that an in-depth analysis of the community composition and structure reveals a level of microbial diversity not seen with traditional methods, and should help to understand the general principles that control microbial dynamics under variable environmental conditions.
  • Idioma: Inglês
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  • Realização: ABCD-USP USP   Logos de Redes Sociais: Freepik

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