Single cell genomics indicates horizontal gene transfer and viral infections in a deep subsurface Firmicutes population
| Author(s) | Labonté, Jessica M. | |
| Author(s) | Field, Erin K. | |
| Author(s) | Lau, Maggie | |
| Author(s) | Chivian, Dylan | |
| Author(s) | Van Heerden, Esta | |
| Author(s) | Wommack, K. Eric | |
| Author(s) | Kieft, Thomas L. | |
| Author(s) | Onstott, Tullis C. | |
| Author(s) | Stepanauskas, Ramunas | |
| Ordered Author | Jessica M. Labonté, Erin K.Field, Maggie Lau, Dylan Chivian, Esta Van Heerden, K. Eric Wommack, Thomas L. Kieft, Tullis C.Onstott and Ramunas Stepanauskas | |
| UD Author | Wommack, K. Eric | en_US |
| Date Accessioned | 2015-12-09T14:39:58Z | |
| Date Available | 2015-12-09T14:39:58Z | |
| Copyright Date | Copyright ©2015 Labonté, Field, Lau, Chivian, Van Heerden, Wommack, Kieft, Onstott and Stepanauskas | en_US |
| Publication Date | 2015-04-22 | |
| Description | Publisher's PDF. | en_US |
| Abstract | A major fraction of Earth's prokaryotic biomass dwells in the deep subsurface, where cellular abundances per volume of sample are lower, metabolism is slower, and generation times are longer than those in surface terrestrial and marine environments. How these conditions impact biotic interactions and evolutionary processes is largely unknown. Here we employed single cell genomics to analyze cell-to-cell genome content variability and signatures of horizontal gene transfer (HGT) and viral infections in five cells of Candidatus Desulforudis audaxviator, which were collected from a 3 km-deep fracture water in the 2.9 Ga-old Witwatersrand Basin of South Africa. Between 0 and 32% of genes recovered from single cells were not present in the original, metagenomic assembly of Desulforudis, which was obtained from a neighboring subsurface fracture. We found a transposable prophage, a retron, multiple clustered regularly interspaced short palindromic repeats (CRISPRs) and restriction-modification systems, and an unusually high frequency of transposases in the analyzed single cell genomes. This indicates that recombination, HGT and viral infections are prevalent evolutionary events in the studied population of microorganisms inhabiting a highly stable deep subsurface environment. | en_US |
| Department | University of Delaware. Department of Plant and Soil Sciences. | en_US |
| Citation | Labonté JM, Field EK, Lau M, Chivian D, Van Heerden E, Wommack KE, Kieft TL, Onstott TC and Stepanauskas R (2015) Single cell genomics indicates horizontal gene transfer and viral infections in a deep subsurface Firmicutes population. Front. Microbiol. 6:349. doi: 10.3389/fmicb.2015.00349 | en_US |
| DOI | doi:10.3389/fmicb.2015.00349 | en_US |
| ISSN | 1664-302X | en_US |
| URL | http://udspace.udel.edu/handle/19716/17285 | |
| Language | en_US | en_US |
| Publisher | Frontiers Media S.A. | en_US |
| dc.rights | CC-BY 4.0 This Document is Protected by copyright and was first published by Frontiers. All rights reserved. it is reproduced with permission. | en_US |
| dc.source | Frontiers in Microbiology | en_US |
| dc.source.uri | http://journal.frontiersin.org/journal/microbiology | en_US |
| Title | Single cell genomics indicates horizontal gene transfer and viral infections in a deep subsurface Firmicutes population | en_US |
| Type | Article | en_US |
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