AUTHOR=Sharrar Allison M. , Flood Beverly E. , Bailey Jake V. , Jones Daniel S. , Biddanda Bopaiah A. , Ruberg Steven A. , Marcus Daniel N. , Dick Gregory J. 

TITLE=Novel Large Sulfur Bacteria in the Metagenomes of Groundwater-Fed Chemosynthetic Microbial Mats in the Lake Huron Basin

JOURNAL=Frontiers in Microbiology

VOLUME=8

YEAR=2017

URL=https://www.frontiersin.org/journals/microbiology/articles/10.3389/fmicb.2017.00791

DOI=10.3389/fmicb.2017.00791

ISSN=1664-302X

ABSTRACT=<p>Little is known about large sulfur bacteria (LSB) that inhabit sulfidic groundwater seeps in large lakes. To examine how geochemically relevant microbial metabolisms are partitioned among community members, we conducted metagenomic analysis of a chemosynthetic microbial mat in the Isolated Sinkhole, which is in a deep, aphotic environment of Lake Huron. For comparison, we also analyzed a white mat in an artesian fountain that is fed by groundwater similar to Isolated Sinkhole, but that sits in shallow water and is exposed to sunlight. <italic>De novo</italic> assembly and binning of metagenomic data from these two communities yielded near complete genomes and revealed representatives of two families of LSB. The Isolated Sinkhole community was dominated by novel members of the <italic>Beggiatoaceae</italic> that are phylogenetically intermediate between known freshwater and marine groups. Several of these <italic>Beggiatoaceae</italic> had 16S rRNA genes that contained introns previously observed only in marine taxa. The Alpena fountain was dominated by populations closely related to <italic>Thiothrix lacustris</italic> and an SM1 euryarchaeon known to live symbiotically with <italic>Thiothrix</italic> spp. The SM1 genomic bin contained evidence of H<sub>2</sub>-based lithoautotrophy. Genomic bins of both the <italic>Thiothrix</italic> and <italic>Beggiatoaceae</italic> contained genes for sulfur oxidation via the rDsr pathway, H<sub>2</sub> oxidation via Ni-Fe hydrogenases, and the use of O<sub>2</sub> and nitrate as electron acceptors. Mats at both sites also contained Deltaproteobacteria with genes for dissimilatory sulfate reduction (<italic>sat, apr</italic>, and <italic>dsr</italic>) and hydrogen oxidation (Ni-Fe hydrogenases). Overall, the microbial mats at the two sites held low-diversity microbial communities, displayed evidence of coupled sulfur cycling, and did not differ largely in their metabolic potentials, despite the environmental differences. These results show that groundwater-fed communities in an artesian fountain and in submerged sinkholes of Lake Huron are a rich source of novel LSB, associated heterotrophic and sulfate-reducing bacteria, and archaea.</p>