Prevalence of lysogeny among soil bacteria and presence of 16S rRNA and trzN genes in viral-community DNA

被引:89
作者
Ghosh, Dhritiman [1 ]
Roy, Krishnakali [1 ]
Williamson, Kurt E. [6 ]
White, David C. [2 ]
Wommack, K. Eric [3 ,4 ]
Sublette, Kerry L. [5 ]
Radosevich, Mark [1 ]
机构
[1] Univ Tennessee, Dept Biosyst Engn & Soil Sci, Knoxville, TN 37996 USA
[2] Univ Tennessee, Ctr Biomarker Anal, Knoxville, TN 37932 USA
[3] Univ Delaware, Dept Plant & Soil Sci, Newark, DE 19716 USA
[4] Univ Delaware, Delaware Biotechnol Inst, Newark, DE 19716 USA
[5] Univ Tulsa, Dept Chem Engn, Tulsa, OK 74104 USA
[6] J Craig Venter Inst, La Jolla, CA 92037 USA
关键词
D O I
10.1128/AEM.01435-07
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
Bacteriophages are very abundant in the biosphere, and viral infection is believed to affect the activity and genetic diversity of bacterial communities in aquatic environments. Lysogenic conversion, for example, can improve host fitness and lead to phage-mediated horizontal gene transfer. However, little is known about lysogeny and transduction in the soil environment. In this study we employed atrazine-impregnated Bio-Sep beads (a cell immobilization matrix) to sample active microbiota from soils with prior pesticide exposure history. Once recovered from soil, the bead communities were induced with mitomycin C (MC), and viral and bacterial abundances were determined to evaluate the incidence of inducible prophage in soil bacteria. The inducible fraction calculated within bead communities was high (ca. 85%) relative to other studies in aquatic and sedimentary environments. Moreover, the bacterial genes encoding 16S rRNA and trzN, a chlorohydrolase gene responsible for dehalogenation of atrazine, were detected by PCR in the viral DNA fraction purified from MC-induced bead communities. A diverse collection of actinobacterial 16S rRNA gene sequences occurred within the viral DNA fraction of induced, water-equilibrated beads. Similar results were observed in induced atrazine-equilibrated beads, where 77% of the cloned sequences were derived from actinobacterial lineages. Heterogeneous 16S rRNA gene sequences consisting of fragments from two different taxa, were detected in the clone libraries. The results suggest that lysogeny is a prevalent reproductive strategy among soil bacteriophages and that the potential for horizontal gene transfer via transduction is significant in soil microbial communities.
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收藏
页码:495 / 502
页数:8
相关论文
共 41 条
[1]   Gapped BLAST and PSI-BLAST: a new generation of protein database search programs [J].
Altschul, SF ;
Madden, TL ;
Schaffer, AA ;
Zhang, JH ;
Zhang, Z ;
Miller, W ;
Lipman, DJ .
NUCLEIC ACIDS RESEARCH, 1997, 25 (17) :3389-3402
[2]   Elevated abundance of bacteriophage infecting bacteria in soil [J].
Ashelford, KE ;
Day, MJ ;
Fry, JC .
APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 2003, 69 (01) :285-289
[3]  
Bakken L. R., 1995, Nucleic acids in the environment., P9
[4]   A broad-host-range, generalized transducing phage (SN-T) acquires 16S rRNA genes from different genera of bacteria [J].
Beumer, A ;
Robinson, JB .
APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 2005, 71 (12) :8301-8304
[5]  
Cochran PK, 1998, APPL ENVIRON MICROB, V64, P2308
[6]   The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy [J].
Cole, JR ;
Chai, B ;
Marsh, TL ;
Farris, RJ ;
Wang, Q ;
Kulam, SA ;
Chandra, S ;
McGarrell, DM ;
Schmidt, TM ;
Garrity, GM ;
Tiedje, JM .
NUCLEIC ACIDS RESEARCH, 2003, 31 (01) :442-443
[7]   Biotreatment of refinery spent-sulfidic caustic using an enrichment culture immobilized in a novel support matrix [J].
Conner, JA ;
Beitle, RR ;
Duncan, K ;
Kolhatkar, R ;
Sublette, KL .
APPLIED BIOCHEMISTRY AND BIOTECHNOLOGY, 2000, 84-6 (1-9) :707-719
[8]   Quantification of bacterial subgroups in soil:: comparison of DNA extracted directly from soil or from cells previously released by density gradient centrifugation [J].
Courtois, S ;
Frostegård, Å ;
Göransson, P ;
Depret, G ;
Jeannin, P ;
Simonet, P .
ENVIRONMENTAL MICROBIOLOGY, 2001, 3 (07) :431-439
[9]   The atrazine catabolism genes atzABC are widespread and highly conserved [J].
de Souza, ML ;
Seffernick, J ;
Martinez, B ;
Sadowsky, MJ ;
Wackett, LP .
JOURNAL OF BACTERIOLOGY, 1998, 180 (07) :1951-1954
[10]   In situ assessment of biodegradation potential using biotraps amended with 13C-labeled benzene or toluene [J].
Geyer, R ;
Peacock, AD ;
Miltner, A ;
Richnow, HH ;
White, DC ;
Sublette, KL ;
Kästner, M .
ENVIRONMENTAL SCIENCE & TECHNOLOGY, 2005, 39 (13) :4983-4989