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Title: Proteogenemic Approaches for the Molecular Characterization of Natural Microbial Communities

Microbial biofilms involved in acid mine drainage formation have served as a model systems for the study of microbial communities. Over the grant period we developed community metagenomic methods for recovery of genomes of uncultivated bacteria, archaea, viruses/phage, and plasmids from natural systems. We leveraged highly curated metagenomic datasets to develop methods to monitor microbial function in situ. Beyond new insight into extremophilic microbial ecosystems, we have shown that our strain-resolved proteogenomic methods can be applied to other systems. Our studies have uncovered new patters of inter-species recombination that likely lead to fine-scale environmental adaptation, defined the importance of inter-species vs. intra-species recombination in archaea, and evaluated the processes shaping fine-scale sequence variation. The project was the subject of study for six Ph.D. students, two of whom are now Associate Professors, the others are post docs; for M.S. or undergraduate researchers, and thirteen post docs, ten of which are now Assistant or Associate professors. The research generated 53 publications, five of which appeard in Science or Nature.
  1. Univ. of California, Berkeley, CA (United States)
Publication Date:
OSTI Identifier:
Report Number(s):
DOE-UCB--64134; ER--63160-1017457-0007147
DOE Contract Number:
Resource Type:
Technical Report
Research Org:
The Regents of the Univ. of California, Berkeley, CA (United States)
Sponsoring Org:
Country of Publication:
United States