The DOI matches its Crossref record; 1 of the 1 references it cites were found in a registry or an index.
The genomic basis of trophic strategy in marine bacteria
Open accessAbstract
Many marine bacteria have evolved to grow optimally at either high (copiotrophic) or low (oligotrophic) nutrient concentrations, enabling different species to colonize distinct trophic habitats in the oceans. Here, we compare the genome sequences of two bacteria, Photobacterium angustum S14 and Sphingopyxis alaskensis RB2256, that serve as useful model organisms for copiotrophic and oligotrophic modes of life and specifically relate the genomic features to trophic strategy for these organisms and define their molecular mechanisms of adaptation. We developed a model for predicting trophic lifestyle from genome sequence data and tested >400,000 proteins representing >500 million nucleotides of sequence data from 126 genome sequences with metagenome data of whole environmental samples. When applied to available oceanic metagenome data (e.g., the Global Ocean Survey data) the model demonstrated that oligotrophs, and not the more readily isolatable copiotrophs, dominate the ocean's free-living microbial populations. Using our model, it is now possible to define the types of bacteria that specific ocean niches are capable of sustaining.
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Cites
Prokaryotes: The unseen majority
Whitman, W. B., Coleman, D. C., & Wiebe, W. J. (1998) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.95.12.6578 · Cited by 4,871 · cited 1×
“Within this environment, marine bacteria (and archaea) play a pivotal role in biogeochemical cycles while constantly assimilating, storing, transforming, exporting, and remineralizing the largest pool of organic carbon on the planet (1).”
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Cited by
Bacteria and archaea on Earth and their abundance in biofilms
Flemming, H.-C., & Wuertz, S. (2019) · Nature Reviews Microbiology · doi:10.1038/s41579-019-0158-9 · Cited by 1,729
Implications of streamlining theory for microbial ecology
Giovannoni, S. J., Cameron Thrash, J., & Temperton, B. (2014) · The ISME Journal · doi:10.1038/ismej.2014.60 · Cited by 853
Breitbart, M. (2012) · Annual Review of Marine Science · doi:10.1146/annurev-marine-120709-142805 · Cited by 607
Dai, T., Wen, D., Bates, C. T., Wu, L., Guo, X., Liu, S., Su, Y., Lei, J., Zhou, J., & Yang, Y. (2022) · Nature Communications · doi:10.1038/s41467-021-27857-6 · Cited by 470
DeLong, J. P., Okie, J. G., Moses, M. E., Sibly, R. M., & Brown, J. H. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1007783107 · Cited by 442
Metadata
- Authors
- Lauro, F. M., McDougald, D., Thomas, T., Williams, T. J., Egan, S., Rice, S., DeMaere, M. Z., Ting, L., Ertan, H., Johnson, J., Ferriera, S., Lapidus, A., Anderson, I., Kyrpides, N., Munk, A. C., Detter, C., Han, C. S., Brown, M. V., Robb, F. T., Kjelleberg, S., & Cavicchioli, R.
- Venue
- Proceedings of the National Academy of Sciences
- Published
- 2009-09-15
- Volume
- 106
- Issue
- 37
- Pages
- 15527-15533
- ISSN
- 0027-8424 (ISSN-L)
- 1091-6490
- OpenAlex
- W2123016662
- Cited by
- 758
- References
- 1
- FWCI
- 26.03
- Type
- journal article
- Language
- en
- Open access
- bronze
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- Lauro, F. M., McDougald, D., Thomas, T., Williams, T. J., Egan, S., Rice, S., DeMaere, M. Z., Ting, L., Ertan, H., Johnson, J., Ferriera, S., Lapidus, A., Anderson, I., Kyrpides, N., Munk, A. C., Detter, C., Han, C. S., Brown, M. V., Robb, F. T., . . . Cavicchioli, R. (2009). The genomic basis of trophic strategy in marine bacteria. Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.0903507106
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
