Sequencing bands of ribosomal intergenic spacer analysis fingerprints for characterization and microscale distribution of soil bacterium populations responding to mercury spiking

Applied and Environmental Microbiology

Volumn 66, Issue 12, 2000, Pages 5334-5339

  Ranjard, L ^a   Brothier, E ^a   Nazaret, S ^a  

^a University of Lyon   (France)

Author keywords

[No Author keywords available]

Indexed keywords

MERCURY; OLIGONUCLEOTIDE; POLYACRYLAMIDE GEL;

ARTICLE; BACTERIAL GENETICS; BACTERIAL GROWTH; BACTERIUM CULTURE; BACTERIUM IDENTIFICATION; CLOSTRIDIUM; CONTROLLED STUDY; CULTURE MEDIUM; DNA FINGERPRINTING; GENE SEQUENCE; GENETIC ANALYSIS; GRAM NEGATIVE BACTERIUM; MOLECULAR CLONING; NONHUMAN; NUCLEOTIDE SEQUENCE; OLIGONUCLEOTIDE PROBE; PHYLOGENY; POPULATION DYNAMICS; RALSTONIA; RESTRICTION MAPPING; RIBOSOMAL INTERGENIC SPACER ANALYSIS; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; SOIL MICROFLORA;

ADAPTATION, PHYSIOLOGICAL; BACTERIA; BASE SEQUENCE; DNA FINGERPRINTING; DNA PRIMERS; DNA, BACTERIAL; DNA, INTERGENIC; ECOSYSTEM; MERCURY; MOLECULAR SEQUENCE DATA; NUCLEIC ACID HYBRIDIZATION; SOIL MICROBIOLOGY; SOIL POLLUTANTS; VARIATION (GENETICS);

BACTERIA (MICROORGANISMS); BETAPROTEOBACTERIA; CLOSTRIDIUM; FIRMICUTES; NEGIBACTERIA; RALSTONIA;

EID: 0034466653     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.66.12.5334-5339.2000     Document Type: Article

References (49)

1. Phenotypic and genotypic adaptation of aerobic heterotrophic sediment bacterial communities to mercury stress
2. 2+ resistance
3. The relationships of Hg(II) volatilization from a freshwater pond to the abundance of mer genes in the gene pool of the indigenous microbial community
4. Mercury resistance in aromatic compound degrading Pseudomonas strains
5. The 16S/23S ribosomal spacer region as a target for DNA probes to identify eubacteria
6. Molecular microbial diversity in soils from eastern Amazonia: Evidence for unusual microorganisms and microbial population shifts associated with deforestation
7. Classification of Alcaligenes faecalis-like isolates from the environment and human clinical samples as Ralstonia gilardii sp. nov.
8. PCR fingerprinting of whole genomes: The spacers between the 16S and 23S rRNA genes and of intergenic tRNA gene regions reveal a different intraspecific genomic variability of Bacillus cereus and Bacillus licheniformis
9. DNA probe-mediated detection of resistant bacteria from soils highly polluted by heavy metals
10. Mercury transposons from plasmids governing multiple resistance to heavy metals in Alcaligenes eutrophus CH34
11. Automated approach for ribosomal intergenic spacer analysis of microbial diversity and its application to freshwater bacterial communities
12. Prokaryotic genome size and SSU rDNA copy number: Estimation of microbial relative abundance from a mixed population
13. Cloning, mapping, and molecular characterization of the rRNA operons of Clostridium perfringens
14. Identification of variability of ribosomal DNA spacer from Pseudomonas soil isolates
15. New approaches to typing and identification of bacteria using the 16S-23S rDNA spacer region
16. Sequence analysis by electronic mail server
17. Polynucleotide probes that target a hypervariable region of 16S rRNA genes to identify bacterial isolates corresponding to bands of community fingerprints
18. Rapid identification of bacteria on the basis of polymerase chain reaction-amplified ribosomal DNA spacer polymorphisms
19. Restriction patterns and polypeptide homology among plasmid borne mercury resistance determinants
20. Mercury resistance among soil bacteria: Ecology and transferability of genes encoding resistance
21. Mercury-resistant plasmids in bacteria from a mercury and antimony deposit area
22. rRNA operon copy number reflects ecological strategies of bacteria
23. Alcaligenes eutrophus CH34 is a facultative chemolithotroph with plasmid-bound resistance to heavy metals
24. Bacteria adapted to industrial biotopes: Metal-resistant Ralstonia
25. Phylogenetic relationships of Thiomicrospora species and their identification in deep-sea hydrothermal vent samples by denaturing gradient gel electrophoresis of 16S rDNA fragments
26. Structure, function and dynamics of microbial communities: The molecular biological approach
27. Denaturing gradient gel electrophoresis (DGGE) in microbial ecology
28. Utility of 16S-23S rRNA spacer region methodology: How similar are interspace regions within a genome and between strains for closely related organisms?
29. Molecular analysis of mercury-resistant Bacillus isolates from sediment of Minamata Bay, Japan
30. Distribution of mercury resistance determinants in bacterial communities of river sediments
31. Polymerase chain reaction-restriction fragment length polymorphism analysis shows divergence among mer determinants from gram-negative soil bacteria indistinguishable by DNA-DNA hybridization
32. Distribution, diversity and evolution of the bacterial mercury resistance (mer) operon
33. Role of hydrogen sulfide in mercury resistance determined by plasmid of Clostridium cochlearum T-2
34. Response of soil bacteria to Hg(II) in relation to soil characteristics and cell location
35. A single procedure to recover DNA from the surface or inside aggregates and in various size fractions of soil suitable for PCR-based assays of bacterial communities
36. A soil microscale study to reveal the heterogeneity of Hg(II) impact on indigenous bacteria by quantification of adapted phenotypes and analysis of community DNA fingerprints
37. Heterogeneous cell density and genetic structure of bacterial pools associated with various soil microenvironments as determined by enumeration and DNA fingerprinting approach (RISA)
38. Monitoring complex bacterial communities using culture-independent molecular techniques: Application to soil environment
39. Clostridium paradoxum DSM 7308T contains multiple 16S rRNA genes with heterogeneous intervening sequences
40. Effects of bacterial antibiotic production on rhizosphere microbial communities from a culture-independent perspective
41. DNA sequences encoding narrow- and broad-spectrum mercury resistance
42. Determination of mercury organomercurial resistance in obligate anaerobic bacteria
43. Isolation and characterization of a mercury-resistant broad host-range plasmid from Pseudomonas cepacia
44. Molecular differentiation of bacteria by PCR amplification of the 16S-23S rRNA spacer
45. Clustal W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
46. Detection of heavy metal ion resistance genes in Gram-positive and Gram-negative bacteria isolated from a lead-contaminated site
47. Transfer of two Burkholderia and an Alcaligenes species to Ralstonia gen. nov., proposal of Ralstonia pickettii (Ralston, Palleroni and Doudoroff 1973) comb. nov., Ralstonia solanacearum (Smith 1986) comb. nov. and Ralstonia eutropha (Davis 1969) comb. nov.