Power law rank-abundance models for marine phage communities

被引:41
作者
Hoffmann, Karl Heinz
Rodriguez-Brito, Beltran
Breitbart, Mya
Bangor, David
Angly, Florent
Felts, Ben
Nulton, James
Rohwer, Forest
Salamon, Peter [1 ]
机构
[1] San Diego State Univ, Dept Math & Stat, San Diego, CA 92182 USA
[2] Tech Univ Chemnitz, Inst Phys, Chemnitz, Germany
[3] San Diego State Univ, Dept Biol, San Diego, CA 92182 USA
[4] Univ S Florida, Coll Marine Sci, St Petersburg, FL 33701 USA
[5] San Diego State Univ, Ctr Microbial Sci, San Diego, CA 92182 USA
关键词
power law; kill the winner; neutral evolution; metagenomics; rank-abundance; generalized Lotka-Volterra;
D O I
10.1111/j.1574-6968.2007.00790.x
中图分类号
Q93 [微生物学];
学科分类号
071005 ; 100705 ;
摘要
Metagenomic analyses suggest that the rank-abundance curve for marine phage communities follows a power law distribution. A new type of power law dependence based on a simple model in which a modified version of Lotka-Vol-terra predator-prey dynamics is sampled uniformly in time is presented. Biologically, the model embodies a kill the winner hypothesis and a neutral evolution hypothesis. The model can match observed power law distributions and uses very few parameters that are readily identifiable and characterize phage ecosystems. The model makes new untested predictions: (1) it is unlikely that the most abundant phage genotype will be the same at different time points and (2) the long-term decay of isolated phage populations follows a power law.
引用
收藏
页码:224 / 228
页数:5
相关论文
共 20 条
[1]   PRODUCTION OF HETEROTROPHIC BACTERIA INHABITING MACROSCOPIC ORGANIC AGGREGATES (MARINE SNOW) FROM SURFACE WATERS [J].
ALLDREDGE, AL ;
COLE, JJ ;
CARON, DA .
LIMNOLOGY AND OCEANOGRAPHY, 1986, 31 (01) :68-78
[2]   PHACCS, an online tool for estimating the structure and diversity of uncultured viral communities using metagenomic information [J].
Angly, F ;
Rodriguez-Brito, B ;
Bangor, D ;
McNairnie, P ;
Breitbart, M ;
Salamon, P ;
Felts, B ;
Nulton, J ;
Mahaffy, J ;
Rohwer, F .
BMC BIOINFORMATICS, 2005, 6 (1)
[3]  
[Anonymous], 2003, MEASURING BIOL DIVER
[4]   Microbial control of oceanic carbon flux: The plot thickens [J].
Azam, F .
SCIENCE, 1998, 280 (5364) :694-696
[5]   Microscale nutrient patches in planktonic habitats shown by chemotactic bacteria [J].
Blackburn, N ;
Fenchel, T ;
Mitchell, J .
SCIENCE, 1998, 282 (5397) :2254-2256
[6]   Global distribution of nearly identical phage-encoded DNA sequences [J].
Breitbart, M ;
Miyake, JH ;
Rohwer, F .
FEMS MICROBIOLOGY LETTERS, 2004, 236 (02) :249-256
[7]   Genomic analysis of uncultured marine viral communities [J].
Breitbart, M ;
Salamon, P ;
Andresen, B ;
Mahaffy, JM ;
Segall, AM ;
Mead, D ;
Azam, F ;
Rohwer, F .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2002, 99 (22) :14250-14255
[8]   Widespread occurrence of phage-encoded exotoxin genes in terrestrial and aquatic environments in Southern California [J].
Casas, Veronica ;
Miyake, Jon ;
Balsley, Heather ;
Roark, Julie ;
Telles, Serena ;
Leeds, Steven ;
Zurita, Ivan ;
Breitbart, Mya ;
Bartlett, Doug ;
Azam, Farooq ;
Rohwer, Forest .
FEMS MICROBIOLOGY LETTERS, 2006, 261 (01) :141-149
[9]   Spontaneous assembly of marine dissolved organic matter into polymer gels [J].
Chin, WC ;
Orellana, MV ;
Verdugo, P .
NATURE, 1998, 391 (6667) :568-572
[10]  
Costello J. S., 1999, NONLINEAR J, V1, P11