Quantification, base composition, and fate of extracellular DNA in marine sediments

被引:71
作者
Dell'Anno, A
Bompadre, S
Danovaro, R
机构
[1] Univ Ancona, Fac Sci, Inst Marine Sci, I-60131 Ancona, Italy
[2] Univ Bari, Dept Zool, I-70125 Bari, Italy
[3] Univ Ancona, Inst Biomed Sci, I-60131 Ancona, Italy
关键词
D O I
10.4319/lo.2002.47.3.0899
中图分类号
Q [生物科学];
学科分类号
07 ; 0710 ; 09 ;
摘要
The discovery of high concentrations of DNA in marine sediments unaccounted for by living biomass suggests the presence of a large fraction of extracellular DNA, which might play an important role in gene transfer via natural transformation as well as in phosphorous biogeochemical cycling. But a universally accepted procedure for extracellular DNA extraction is not available yet. In this study, we developed a new nuclease-based procedure to extract extracellular DNA from marine sediments. Coastal sand and deep-sea mud samples were collected to test the efficiency of extracellular DNA removal from different sediment types. Extracellular DNA concentrations were quantified at six sediment depths, and changes in base composition were investigated to gather information on extracellular DNA fate. The extraction procedure was highly specific and only extracellular DNA was hydrolyzed after nuclease treatment. Hydrolyzable DNA accounted for <10 to >70% of the total DNA pool, suggesting that extracellular DNA can only be partially degraded. Base composition changed vertically with depth in the sediment as deoxycytidine content increased and deoxyadenosine decreased with increasing depth. Integrating our results for the top 15 cm of the sediment, we calculate that more than 50% of extracellular DNA was recalcitrant to enzymatic degradation. This finding might explain why DNA accumulates in surface sediments and suggests that DNA, might play a nonnegligible role in P biogeochemical cycle.
引用
收藏
页码:899 / 905
页数:7
相关论文
共 38 条
[1]  
ATLAS RM, 1993, HDB METHODS AQUATIC, P261
[2]   DISSOLVED AND PARTICULATE DNA DYNAMICS DURING A SPRING BLOOM IN THE ANTARCTIC PENINSULA REGION, 1986-87 [J].
BAILIFF, MD ;
KARL, DM .
DEEP-SEA RESEARCH PART A-OCEANOGRAPHIC RESEARCH PAPERS, 1991, 38 (8-9) :1077-1095
[3]   Determination of virus abundance in marine sediments [J].
Danovaro, R ;
Dell'anno, A ;
Trucco, A ;
Serresi, M ;
Vanucci, S .
APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 2001, 67 (03) :1384-1387
[4]   Nucleic acid concentrations (DNA, RNA) in the continental and deep-sea sediments of the eastern Mediterranean: relationships with seasonally varying organic inputs and bacterial dynamics [J].
Danovaro, R ;
Dell'anno, A ;
Pusceddu, A ;
Fabiano, M .
DEEP-SEA RESEARCH PART I-OCEANOGRAPHIC RESEARCH PAPERS, 1999, 46 (06) :1077-1094
[5]   Genetic exchange between bacteria in the environment [J].
Davison, J .
PLASMID, 1999, 42 (02) :73-91
[6]  
Dell'Anno A, 1998, APPL ENVIRON MICROB, V64, P3238
[7]  
Dell'Anno A, 1999, APPL ENVIRON MICROB, V65, P4451
[8]   Evaluation of biological and physical protection against nuclease degradation of clay-bound plasmid DNA [J].
Demanèche, S ;
Jocteur-Monrozier, L ;
Quiquampoix, H ;
Simonet, P .
APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 2001, 67 (01) :293-299
[9]   Purification and characterization of the single-strand-specific and guanylic-acid-preferential deoxyribonuclease activity of the extracellular nuclease from Basidiobolus haptosporus [J].
Desai, NA ;
Shankar, V .
EUROPEAN JOURNAL OF BIOCHEMISTRY, 2000, 267 (16) :5123-5135
[10]   Fluxes of phytopigments and labile organic matter to the deep ocean in the NE Atlantic Ocean [J].
Fabiano, M ;
Pusceddu, A ;
Dell'Anno, A ;
Armeni, M ;
Vanucci, S ;
Lampitt, RS ;
Wolff, GA ;
Danovaro, R .
PROGRESS IN OCEANOGRAPHY, 2001, 50 (1-4) :89-104