Survey of bromodeoxyuridine uptake among environmental bacteria and variation in uptake rates in a taxonomically diverse set of bacterial isolates

Journal of Microbiological Methods

Volumn 86, Issue 3, 2011, Pages 376-378

  Hellman, Maria ^a   Berg, Jeanette ^b   Brandt, Kristian K ^b   Hallin, Sara ^a  

^a SWEDISH UNIVERSITY OF AGRICULTURAL SCIENCES   (Sweden)

^b UNIVERSITY OF COPENHAGEN   (Denmark)

Author keywords

Active bacteria; BrdU incorporation; Replicating bacteria; Soil bacteria; Thymidine analog

Indexed keywords

BACTERIAL DNA; BROXURIDINE; RNA 16S;

ACTINOBACTERIA; ARTICLE; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATE; BACTEROIDETES; CELL SPECIFICITY; COMPUTER MODEL; FIRMICUTES; GENE SEQUENCE; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEOBACTERIA; SOIL MICROFLORA; TAXONOMY;

BACTERIA; BIOLOGICAL TRANSPORT; BROMODEOXYURIDINE; DNA; PHYLOGENY; POLYMERASE CHAIN REACTION; RNA, RIBOSOMAL, 16S; SOIL MICROBIOLOGY;

BACTERIA (MICROORGANISMS);

EID: 79960622665     PISSN: 01677012     EISSN: 18728359     Source Type: Journal    
DOI: 10.1016/j.mimet.2011.05.020     Document Type: Article

References (25)

1. Artursson V., Jansson J.K. Use of bromodeoxyuridine immunocapture to identify active bacteria associated with arbuscular mycorrhizal hyphae. Appl. Environ. Microbiol. 2003, 69:6208-6215.
2. Artursson V., Finlay R.D., Jansson J.K. Combined bromodeoxyuridine immunocapture and terminal-restriction fragment length polymorphism analysis highlights differences in the active soil bacterial metagenome due to Glomus mosseae inoculation or plant species. Environ. Microbiol. 2005, 7:1952-1966.
3. Bååth E., Pettersson M., Söderberg K.H. Adaptation of a rapid and economical microcentrifugation method to measure thymidine and leucine incorporation by soil bacteria. Soil Biol. Biochem. 2001, 33:1571-1574.
4. Berg J., Thorsen M.K., Holm P.E., Jensen J., Nybroe O., Brandt K.K. Cu exposure under field conditions coselects for antibiotic resistance as determined by a novel cultivation-independent bacterial community tolerance assay. Environ. Sci. Technol. 2010, 44:8724-8728.
5. Borneman J. Culture-independent identification of microorganisms that respond to specified stimuli. Appl. Environ. Microbiol. 1999, 65:3398-3400.
6. Edlund A., Jansson J.K. Changes in active bacterial communities before and after dredging of highly polluted Baltic Sea sediments. Appl. Environ. Microbiol. 2006, 72:6800-6807.
7. Edlund A., Jansson J.K. Use of bromodeoxyuridine immunocapture to identify psychrotolerant phenanthrene-degrading bacteria in phenanthrene-enriched polluted Baltic Sea sediments. FEMS Microbiol. Ecol. 2008, 65:513-525.
8. Edlund A., Hardeman F., Jansson J.K., Sjöling S. Active bacterial community structure along vertical redox gradients in Baltic Sea sediment. Environ. Microbiol. 2008, 10:2051-2063.
9. Hamasaki K. Comparison of bromodeoxyuridine immunoassay with tritiated thymidine radioassay for measuring bacterial productivity in oceanic waters. J. Oceanogr. 2006, 62:793-799.
10. Hamasaki K., Long R.A., Azam F. Individual cell growth rates of marine bacteria, measured by bromodeoxyuridine incorporation. Aquat. Microb. Ecol. 2004, 35:217-227.
11. Hamasaki K., Taniguchi A., Tada Y., Long R.A., Azam F. Actively growing bacteria in the Inland Sea of Japan, identified by combined bromodeoxyuridine immunocapture and denaturing gradient gel electrophoresis. Appl. Environ. Microbiol. 2007, 73:2787-2798.
12. Mou X.Z., Hodson R.E., Moran M.A. Bacterioplankton assemblages transforming dissolved organic compounds in coastal seawater. Environ. Microbiol. 2007, 9:2025-2037.
13. Mou X.Z., Sun S.L., Edwards R.A., Hodson R.E., Moran M.A. Bacterial carbon processing by generalist species in the coastal ocean. Nature 2008, 451:708-711.
14. Nelson C.E., Carlson C.A. A nonradioactive assay of bacterial productivity optimized for oligotrophic pelagic environments. Limnol. Oceanogr. Methods 2005, 3:211-220.
15. Nemergut D.R., Costello E.K., Hamady M., Lozupone C., Jiang L., Schmidt S.K., Fierer N., Townsend A.R., Cleveland C.C., Stanish L., Knight R. Global patterns in the biogeography of bacterial taxa. Environ. Microbiol. 2011, 13:135-144.
16. Pérez M.T., Hörtnagl P., Sommaruga R. Contrasting ability to take up leucine and thymidine among freshwater bacterial groups: implications for bacterial production measurements. Environ. Microbiol. 2010, 12:74-82.
17. Pernthaler A., Pernthaler J., Schattenhofer M., Amann R. Identification of DNA-synthesizing bacterial cells in coastal North Sea plankton. Appl. Environ. Microbiol. 2002, 68:5728-5736.
18. Rappe M.S., Giovannoni S.J. The uncultured microbial majority. Annu. Rev. Microbiol. 2003, 57:369-394.
19. Roux-Michollet D.D., Schimel J.P., Holden P.A. Pushing the limits for amplifying BrdU-labeled DNA encoding 16S rRNA: DNA polymerase as the determining factor. J. Microbiol. Methods 2010, 83:312-316.
20. Scupham A.J. Examination of the microbial ecology of the avian intestine in vivo using bromodeoxyuridine. Environ. Microbiol. 2007, 9:1801-1809.
21. Steward G.F., Azam F. Bromodeoxyuridine as an alternative to H-3-thymidine for measuring bacterial productivity in aquatic samples. Aquat. Microb. Ecol. 1999, 19:57-66.
22. Taniguchi A., Hamasaki K. Community structures of actively growing bacteria shift along a north-south transect in the western North Pacific. Environ. Microbiol. 2008, 10:1007-1017.
23. Urbach E., Vergin K.L., Giovannoni S.J. Immunochemical detection and isolation of DNA from metabolically active bacteria. Appl. Environ. Microbiol. 1999, 65:1207-1213.
24. Wang Q., Garrity G.M., Tiedje J.M., Cole J.R. Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. Appl. Environ. Microbiol. 2007, 73:5261-5267.
25. Youssef N.H., Elshahed M.S. Diversity rankings among bacterial lineages in soil. ISME J. 2009, 3:305-313.