Shewanella baltica Ecotypes Have Wide Transcriptional Variation under the Same Growth Conditions

Hambright, W. S.; Deng, Jie; Tiedje, James M.; Brettar, Ingrid; Rodrigues, Jorge L.  M.

doi:10.1128/msphere.00158-16

Shewanella baltica Ecotypes Have Wide Transcriptional Variation under the Same Growth Conditions

Journal Article · Wed Oct 19 04:00:00 EDT 2016 · mSphere

DOI:https://doi.org/10.1128/msphere.00158-16· OSTI ID:1626155

Hambright, W. S. ^[1]; Deng, Jie ^[2]; Tiedje, James M. ^[2]; Brettar, Ingrid ^[3]; ^[4]

Univ. of Texas at San Antonio, TX (United States)Health Science Center. Dept. of Cellular and Structural Biology,; DOE/OSTI
Michigan State Univ., East Lansing, MI (United States). Center for Microbial Ecology
Helmholtz Center for Infection Research, Braunschweig (Germany). Dept. of Vaccinology and Applied Microbiology
Univ. of California, Davis, CA (United States) Dept. of Land, Water and Air Resources; Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Environmental Genomics and Systems Biology Division

In bacterial populations, subtle expressional differences may promote ecological specialization through the formation of distinct ecotypes. In a barrier-free habitat, this process most likely precedes population divergence and may predict speciation events. To examine this, we used four sequenced strains of the bacterium Shewanella baltica, OS155, OS185, OS195, and OS223, as models to assess transcriptional variation and ecotype formation within a prokaryotic population. All strains were isolated from different depths throughout a water column of the Baltic Sea, occupying different ecological niches characterized by various abiotic parameters. Although the genome sequences are nearly 100% conserved, when grown in the laboratory under standardized conditions, all strains exhibited different growth rates, suggesting significant expressional variation. Using the Ecotype Simulation algorithm, all strains were considered to be discrete ecotypes when compared to 32 other S. baltica strains isolated from the same water column, suggesting ecological divergence. Next, we employed custom microarray slides containing oligonucleotide probes representing the core genome of OS155, OS185, OS195, and OS223 to detect natural transcriptional variation among strains grown under identical conditions. Significant transcriptional variation was noticed among all four strains. Differentially expressed gene profiles seemed to coincide with the metabolic signatures of the environment at the original isolation depth. Transcriptional pattern variations such as the ones highlighted here may be used as indicators of short-term evolution emerging from the formation of bacterial ecotypes.

View Accepted Manuscript (DOE)

Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 1626155

Journal Information:: mSphere, Journal Name: mSphere Journal Issue: 5 Vol. 1; ISSN 2379-5042

Publisher:: American Society for MicrobiologyCopyright Statement

Country of Publication:: United States

Language:: English

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