The dense microbial communities inhabiting Lost City chimneys are the most dramatic examples of life powered by the geochemical reactions known as serpentinization. Ongoing work in the Brazelton Lab includes analyses of metagenomic data recovered from Lost City chimney samples.
Reports from previous Lost City Expeditions:
News articles about Lost City:
These are files useful for analyzing the JGI assembly of metagenomic sequences from a Lost City chimney:
Artemis file for visualizing contigs and best BLAST hits. You can download Artemis here.
Files generated by the Joint Genome Institute containing information about paired end sequences and contigs:
This FASTA file contains all 6324 contigs in the assembly (zip compressed):
This FASTA file contains all 46,360 sequencing reads used to make the assembly (zip compressed):
This folder contains all transposase-related PFAM seeds used in the transposase BLAST search described in the paper cited below (zip compressed):
Brazelton WJ, Baross JA (2009) Abundant transposases encoded by the metagenome of a hydrothermal chimney biofilm. ISME J 3: 1420-1424. [PDF]
Brazelton WJ, Baross JA (2010) Metagenomic comparison of two Thiomicrospira species inhabiting contrasting deep sea hydrothermal environments PLoS ONE. [HTML]
Brazelton, W.J., B. Nelson and M.O. Schrenk (2012) Metagenomic evidence for H2 oxidation and H2 production by serpentinite-hosted subsurface microbial communities. Frontiers in Extreme Microbiology. 2:268. doi: 10.3389/fmicb.2011.00268. [PDF][HTML]