Document Detail

Heterotrophic archaea contribute to carbon cycling in low-pH, suboxic biofilm communities.
MedLine Citation:
PMID:  23001646     Owner:  NLM     Status:  MEDLINE    
Archaea are widely distributed and yet are most often not the most abundant members of microbial communities. Here, we document a transition from Bacteria- to Archaea-dominated communities in microbial biofilms sampled from the Richmond Mine acid mine drainage (AMD) system (∼pH 1.0, ∼38°C) and in laboratory-cultivated biofilms. This transition occurs when chemoautotrophic microbial communities that develop at the air-solution interface sink to the sediment-solution interface and degrade under microaerobic and anaerobic conditions. The archaea identified in these sunken biofilms are from the class Thermoplasmata, and in some cases, the highly divergent ARMAN nanoarchaeal lineage. In several of the sunken biofilms, nanoarchaea comprise 10 to 25% of the community, based on fluorescent in situ hybridization and metagenomic analyses. Comparative community proteomic analyses show a persistence of bacterial proteins in sunken biofilms, but there is clear evidence for amino acid modifications due to acid hydrolysis. Given the low representation of bacterial cells in sunken biofilms based on microscopy, we infer that hydrolysis reflects proteins derived from lysed cells. For archaea, we detected ∼2,400 distinct proteins, including a subset involved in proteolysis and peptide uptake. Laboratory cultivation experiments using complex carbon substrates demonstrated anaerobic enrichment of Ferroplasma and Aplasma coupled to the reduction of ferric iron. These findings indicate dominance of acidophilic archaea in degrading biofilms and suggest that they play roles in anaerobic nutrient cycling at low pH.
Nicholas B Justice; Chongle Pan; Ryan Mueller; Susan E Spaulding; Vega Shah; Christine L Sun; Alexis P Yelton; Christopher S Miller; Brian C Thomas; Manesh Shah; Nathan VerBerkmoes; Robert Hettich; Jillian F Banfield
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Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.     Date:  2012-09-21
Journal Detail:
Title:  Applied and environmental microbiology     Volume:  78     ISSN:  1098-5336     ISO Abbreviation:  Appl. Environ. Microbiol.     Publication Date:  2012 Dec 
Date Detail:
Created Date:  2012-11-09     Completed Date:  2013-04-15     Revised Date:  2013-07-11    
Medline Journal Info:
Nlm Unique ID:  7605801     Medline TA:  Appl Environ Microbiol     Country:  United States    
Other Details:
Languages:  eng     Pagination:  8321-30     Citation Subset:  IM    
University of California-Berkeley, Berkeley, California, USA.
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MeSH Terms
Archaea / classification,  genetics,  metabolism*,  physiology*
Bacteria / classification,  genetics,  metabolism*
Bacterial Physiological Phenomena*
Biofilms / growth & development*
Carbon / metabolism*
Environmental Microbiology
Genes, rRNA
Heterotrophic Processes
Hydrogen-Ion Concentration
RNA, Archaeal / genetics
RNA, Bacterial / genetics
RNA, Ribosomal, 16S / genetics
Sequence Analysis, DNA
Reg. No./Substance:
0/RNA, Archaeal; 0/RNA, Bacterial; 0/RNA, Ribosomal, 16S; 7440-44-0/Carbon

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