Genomic sequencing of single microbial cells from environmental samples Title: Author(s): Thomas Ishoey 1 , Tanja Woyke 2 , Ramunas Stepanauskas 3 , Mark Novotny 1 and Roger S Lasken 1 Author Affiliations: J. Craig Venter Institute, 10355 Science Center Drive, San Diego, CA 92121, United States DOE Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA 94598, United States Bigelow Laboratory for Ocean Sciences, 180 McKown Point Road, West Boothbay Harbor, ME 04575, United States Date: 06/10/08 Funding: This work was performed under the auspices of the US Department of Energy's Office of Science, Biological and Environmental Research Program, and by the University of California, Lawrence Berkeley National Laboratory under contract No. DE-AC02- 05CH11231, Lawrence Livermore National Laboratory under Contract No. DE-AC52-07NA27344, and Los Alamos National Laboratory under contract No. DE-AC02-06NA25396.

/pdf/genomic-sequencing-of-single-microbial-cells-from-9wp86dvurf.pdf

Genomic Sequencing of Single Microbial Cells from Environmental Samples - eScholarship

Mahoney Lake is a small, meromictic saline lake in south-central British Columbia noted for its unique layer of purple sulfur bacteria. First examined in 1969, this lake has undergone physical, chemical, biological, and pre-historical research to generate an understanding of how the lake and its biota function have developed through time. Advances in understanding the sulfur transformations and bacterial nutrient cycling over the last fifty years have been prolific, resulting in the description of several new taxa. Mahoney Lake is exceptional in its limnological characteristics and is an ideal site for training future limnologists.

/pdf/fifty-years-of-limnology-1969-2019-at-mahoney-lake-british-ohfvo81n3i.pdf

Fifty years of limnology (1969-2019) at Mahoney Lake, British Columbia, Canada

Thesis: Ph. D., Joint Program in Chemical Oceanography (Massachusetts Institute of Technology, Department of Earth, Atmospheric, and Planetary Sciences; and the Woods Hole Oceanographic Institution), 2015.

/pdf/testing-the-ancient-marine-redox-record-from-oxygenic-446nodroix.pdf

Testing the ancient marine redox record from oxygenic photosynthesis to photic zone euxina

Photic-zone euxinia (PZE) is associated with several times in Earth's history including Phanerozoic extinction events and long parts of the Proterozoic. One of the best modern analogues for extreme PZE is Mahoney Lake in British Columbia, Canada where a dense layer of purple sulfur bacteria separate the oxic mixolimnion from one of the most sulfidic monimolimnions in the world. These purple sulfur bacteria are known to produce the carotenoid okenone. Okenone's diagenetic product, okenane, has potential as a biomarker for photic-zone euxinia, so understanding its production and transport is important for interpreting the geologic record. In the following dissertation, I examine Mahoney Lake with a multi-proxy approach. I use lipid biomarkers to understand organic matter production burial in the lake and find strong evidence of lateral transport of organic matter from shoreline microbial mats to the lake-bottom sediments. I also find evidence of okenone production in these shoreline mats and a carotenoid previously unreported in the environment, Thiothece-484, associated with the okenone synthetic pathway. Finally, I develop a new bioinformatics method to examine high-throughput metagenomic data and use this method to start understanding how the metabolic and lipid synthetic pathways of microbial communities in the lake are associated with each other.

Lipidomic and Genomic Investigation of Mahoney Lake, B.C.

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Lipidomic and Genomic Investigation of Mahoney Lake, B.C.