The effect of extrinsic mortality on genome size evolution in prokaryotes

ISME Journal

Volumn 11, Issue 4, 2017, Pages 1011-1018

  Bentkowski, Piotr ^a,b   Van Oosterhout, Cock ^a   Ashby, Ben ^c,d   Mock, Thomas ^a  

^a UNIVERSITY OF EAST ANGLIA   (United Kingdom)

^b ADAM MICKIEWICZ UNIVERSITY   (Poland)

^c University of Bath   (United Kingdom)

^d UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CYANOBACTERIUM; ENVIRONMENTAL STRESS; GENE TRANSFER; GENOME; LIFE EXPECTANCY; METABOLISM; MORTALITY; NATURAL SELECTION; NUMERICAL MODEL; PHENOTYPE; PROKARYOTE; STARVATION; TOLERANCE;

CYANOBACTERIA; PROKARYOTA;

BACTERIAL GENOME; BACTERIUM; EVOLUTION; GENE EXPRESSION REGULATION; GENETIC SELECTION; GENETICS; GENOME SIZE; HORIZONTAL GENE TRANSFER; METABOLISM; MOLECULAR EVOLUTION;

BACTERIA; BIOLOGICAL EVOLUTION; EVOLUTION, MOLECULAR; GENE EXPRESSION REGULATION, BACTERIAL; GENE TRANSFER, HORIZONTAL; GENOME SIZE; GENOME, BACTERIAL; SELECTION, GENETIC;

EID: 85001861311     PISSN: 17517362     EISSN: 17517370     Source Type: Journal    
DOI: 10.1038/ismej.2016.165     Document Type: Article

References (36)

1. Bentkowski P, van Oosterhout C, Mock T. (2015). A model of genome size evolution for prokaryotes in stable and fluctuating environments. Genome Biol Evol 7: 2344-2351.
2. Bullerjahn GS, Post AF. (2015). Physiological and Molecular Ecology of Aquatic Cyanobacteria. Frontiers Media SA: Lausanne, Switzerland.
3. Christaki U, Jacquet S, Dolan JR, Vaulot D, Rassoulzadegan F. (1999). Growth and grazing on Prochlorococcus and Synechococcus by two marine ciliates. Limnol Oceanogr 44: 52-61.
4. Elliott TA, Gregory TR. (2015). What's in a genome? The C-value enigma and the evolution of eukaryotic genome content. Philos Trans R Soc B Biol Sci 370: 20140331.
5. Geritz SAH, Kisdi É, Meszéna G, Metz JAJ. (1998). Evolutionarily singular strategies and the adaptive growth and branching of the evolutionary tree. Evol Ecol 12: 35-57.
6. Giovannoni SJ, Thrash JC, Temperton B. (2014). Implications of streamlining theory for microbial ecology. ISME J 8: 1553-1565.
7. Gómez P, Buckling A. (2011). Bacteria-phage antagonistic coevolution in soil. Science 332: 106-109.
8. Greenblum S, Carr R, Borenstein E. (2015). Extensive strain-level copy-number variation across human gut microbiome species. Cell 160: 583-594.
9. Gregory TR. (2001). Coincidence, coevolution, or causation? DNA content, cell size, and the C-value enigma. Biol Rev 76: 65-101.
10. Grimm V. (1999). Ten years of individual-based modelling in ecology: what have we learned and what could we learn in the future? Ecol Model 115: 129-148.
11. Harold FM. (1986). The Vital Force: A Study of Bioenergetics. WH Freeman: New York, USA.
12. Hibbing ME, Fuqua C, Parsek MR, Peterson SB. (2010). Bacterial competition: surviving and thriving in the microbial jungle. Nat Rev Microbiol 8: 15-25.
13. Klein J, Ono H, Klein D, O'hUigin C. (1993). The accordion model of MHC evolution. Prog Immunol 8: 137-143.
14. Koonin EV. (2011). The Logic of Chance: The Nature and Origin of Biological Evolution. 1st edn. FT Press Science: Upper Saddle River, New Jersey, USA.
15. Koonin EV, Wolf YI. (2008). Genomics of bacteria and archaea: the emerging dynamic view of the prokaryotic world. Nucleic Acids Res 36: 6688-6719.
16. Lennon JT, Khatana SAM, Marston MF, Martiny JBH. (2007). Is there a cost of virus resistance in marine cyanobacteria? ISME J 1: 300-312.
17. Liu H, Campbell L, Landry M. (1995). Growth and mortality rates of Prochlorococcus and Synechococcus measured with a selective inhibitor technique. Mar Ecol Prog Ser 116: 277-287.
18. Lürling M, Eshetu F, Faassen EJ, Kosten S, Huszar VLM. (2013). Comparison of cyanobacterial and green algal growth rates at different temperatures. Freshwater Biol 58: 552-559.
19. Lynch M. (2006). Streamlining and simplification of microbial genome architecture. Annu Rev Microbiol 60: 327-349.
20. Lynch M. (2007). The Origins of Genome Architecture. 1st edn. Sinauer Associates Inc: Sunderland, MA, USA.
21. Marco S, Aboal M, Chaves E, Mulero I, García-Ayala A. (2012). Immunolocalisation of microcystins in colonies of the cyanobacterium Rivularia in calcareous streams. Mar Freshwater Res 63: 160-165.
22. Martínez-Cano DJ, Reyes-Prieto M, Martínez-Romero E, Partida-Martínez LP, Latorre A, Moya A et al. (2015). Evolution of small prokaryotic genomes. Front Microbiol 5: 1-23.
23. Maynard Smith J. (1982). Evolution and the Theory of Games. Cambridge University Press: Cambridge, UK.
24. Molina N, van Nimwegen E. (2008). The evolution of domain-content in bacterial genomes. Biol Direct 3: 51.
25. van Nimwegen E. (2003). Scaling laws in the functional content of genomes. Trends Genet 19: 479-484.
26. Omelchenko MV, Wolf YI, Gaidamakova EK, Matrosova VY, Vasilenko A, Zhai M et al. (2005). Comparative genomics of Thermus thermophilus and Deinococcus radiodurans: divergent routes of adaptation to thermophily and radiation resistance. BMC Evol Biol 5: 57.
27. Parsons RJ, Breitbart M, Lomas MW, Carlson CA. (2012). Ocean time-series reveals recurring seasonal patterns of virioplankton dynamics in the northwestern Sargasso Sea. ISME J 6: 273-284.
28. Prabha R, Singh DP, Somvanshi P, Rai A. (2016). Functional profiling of cyanobacterial genomes and its role in ecological adaptations. Genomics Data 9: 89-94.
29. Sime-Ngando T. (2014). Environmental bacteriophages: viruses of microbes in aquatic ecosystems. Front Microbiol 5: 355.
30. Sun Z, Blanchard JL. (2014). Strong genome-wide selection early in the evolution of Prochlorococcus resulted in a reduced genome through the loss of a large number of small effect genes. PLoS One 9: e88837.
31. Suttle CA. (2007). Marine viruses - major players in the global ecosystem. Nat Rev Microbiol 5: 801-812.
32. Swingley WD, Chen M, Cheung PC, Conrad AL, Dejesa LC, Hao J et al. (2008). Niche adaptation and genome expansion in the chlorophyll d-producing cyanobacterium Acaryochloris marina. Proc Natl Acad Sci USA 105: 2005-2010.
33. Tomala K, Korona R. (2013). Evaluating the fitness cost of protein expression in Saccharomyces cerevisiae. Genome Biol Evol 5: 2051-2060.
34. Tschitschko B, Williams TJ, Allen MA, Páez-Espino D, Kyrpides N, Zhong L et al. (2015). Antarctic archaea- virus interactions: metaproteome-led analysis of invasion, evasion and adaptation. ISME J 1: 1-14.
35. Weinbauer MG, Hornák K, Jezbera J, Nedoma J, Dolan JR, Šimek K. (2007). Synergistic and antagonistic effects of viral lysis and protistan grazing on bacterial biomass, production and diversity. Environ Microbiol 9: 777-788.
36. Wommack KE, Colwell RR. (2000). Virioplankton : viruses in aquatic ecosystems. Microbiol Mol Biol Rev 64: 69-114.