This Article
Right arrow Full Text
Right arrow Full Text (PDF)
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrowReprints and Permissions
Right arrow Copyright Information
Right arrow Books from ASM Press
Right arrow MicrobeWorld
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Cho, J.-C.
Right arrow Articles by Tiedje, J. M.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Cho, J.-C.
Right arrow Articles by Tiedje, J. M.
Agricola
Right arrow Articles by Cho, J.-C.
Right arrow Articles by Tiedje, J. M.

 Previous Article  |  Next Article 

Applied and Environmental Microbiology, December 2000, p. 5448-5456, Vol. 66, No. 12
0099-2240/00/$04.00+0
Copyright © 2000, American Society for Microbiology. All rights reserved.

Biogeography and Degree of Endemicity of Fluorescent Pseudomonas Strains in Soil

Jae-Chang Cho1 and James M. Tiedje1,2,*

Center for Microbial Ecology1 and Departments of Crop and Soil Sciences and Microbiology,2 Michigan State University, East Lansing, Michigan 48824

Received 18 April 2000/Accepted 1 September 2000

Fluorescent Pseudomonas strains were isolated from 38 undisturbed pristine soil samples from 10 sites on four continents. A total of 248 isolates were confirmed as Pseudomonas sensu stricto by fluorescent pigment production and group-specific 16S ribosomal DNA (rDNA) primers. These isolates were analyzed by three molecular typing methods with different levels of resolution: 16S rDNA restriction analysis (ARDRA), 16S-23S rDNA intergenic spacer-restriction fragment length polymorphism (ITS-RFLP) analysis, and repetitive extragenic palindromic PCR genomic fingerprinting with a BOX primer set (BOX-PCR). All isolates showed very similar ARDRA patterns, as expected. Some ITS-RFLP types were also found at every geographic scale, although some ITS-RFLP types were unique to the site of origin, indicating weak endemicity at this level of resolution. Using a similarity value of 0.8 or more after cluster analysis of BOX-PCR fingerprinting patterns to define the same genotypes, we identified 85 unique fluorescent Pseudomonas genotypes in our collection. There were no overlapping genotypes between sites as well as continental regions, indicating strict site endemism. The genetic distance between isolates as determined by degree of dissimilarity in BOX-PCR patterns was meaningfully correlated to the geographic distance between the isolates' sites of origin. Also, a significant positive spatial autocorrelation of the distribution of the genotypes was observed among distances of <197 km, and significant negative autocorrelation was observed between regions. Hence, strong endemicity of fluorescent Pseudomonas genotypes was observed, suggesting that these heterotrophic soil bacteria are not globally mixed.

* Corresponding author. Mailing address: Center for Microbial Ecology, Plant and Soil Science Bldg., Michigan State University, East Lansing, MI 48824. Phone: (517) 353-9021. Fax: (517) 353-2917. E-mail: tiedjej{at}msu.edu.

Applied and Environmental Microbiology, December 2000, p. 5448-5456, Vol. 66, No. 12
0099-2240/00/$04.00+0
Copyright © 2000, American Society for Microbiology. All rights reserved.


This article has been cited by other articles:

  • Sachs, J. L., Kembel, S. W., Lau, A. H., Simms, E. L. (2009). In Situ Phylogenetic Structure and Diversity of Wild Bradyrhizobium Communities. Appl. Environ. Microbiol. 75: 4727-4735 [Abstract] [Full Text]  
  • Thomas, S. H., Padilla-Crespo, E., Jardine, P. M., Sanford, R. A., Loffler, F. E. (2009). Diversity and Distribution of Anaeromyxobacter Strains in a Uranium-Contaminated Subsurface Environment with a Nonuniform Groundwater Flow. Appl. Environ. Microbiol. 75: 3679-3687 [Abstract] [Full Text]  
  • Reno, M. L., Held, N. L., Fields, C. J., Burke, P. V., Whitaker, R. J. (2009). Biogeography of the Sulfolobus islandicus pan-genome. Proc. Natl. Acad. Sci. USA 106: 8605-8610 [Abstract] [Full Text]  
  • Stefanic, P., Mandic-Mulec, I. (2009). Social Interactions and Distribution of Bacillus subtilis Pherotypes at Microscale. J. Bacteriol. 191: 1756-1764 [Abstract] [Full Text]  
  • Han, T. X., Han, L. L., Wu, L. J., Chen, W. F., Sui, X. H., Gu, J. G., Wang, E. T., Chen, W. X. (2008). Mesorhizobium gobiense sp. nov. and Mesorhizobium tarimense sp. nov., isolated from wild legumes growing in desert soils of Xinjiang, China. Int. J. Syst. Evol. Microbiol. 58: 2610-2618 [Abstract] [Full Text]  
  • Porter, M. L., Engel, A. S. (2008). Diversity of Uncultured Epsilonproteobacteria from Terrestrial Sulfidic Caves and Springs. Appl. Environ. Microbiol. 74: 4973-4977 [Abstract] [Full Text]  
  • Han, T. X., Wang, E. T., Wu, L. J., Chen, W. F., Gu, J. G., Gu, C. T., Tian, C. F., Chen, W. X. (2008). Rhizobium multihospitium sp. nov., isolated from multiple legume species native of Xinjiang, China. Int. J. Syst. Evol. Microbiol. 58: 1693-1699 [Abstract] [Full Text]  
  • Griffin, D. W. (2007). Atmospheric Movement of Microorganisms in Clouds of Desert Dust and Implications for Human Health. Clin. Microbiol. Rev. 20: 459-477 [Abstract] [Full Text]  
  • Wawrik, B., Kutliev, D., Abdivasievna, U. A., Kukor, J. J., Zylstra, G. J., Kerkhof, L. (2007). Biogeography of Actinomycete Communities and Type II Polyketide Synthase Genes in Soils Collected in New Jersey and Central Asia. Appl. Environ. Microbiol. 73: 2982-2989 [Abstract] [Full Text]  
  • Zwolinski, M. D. (2007). DNA Sequencing: Strategies for Soil Microbiology. Soil Sci. 71: 592-600 [Abstract] [Full Text]  
  • Ramette, A., Tiedje, J. M. (2007). Multiscale responses of microbial life to spatial distance and environmental heterogeneity in a patchy ecosystem. Proc. Natl. Acad. Sci. USA 104: 2761-2766 [Abstract] [Full Text]  
  • Whitaker, R. J (2006). Allopatric origins of microbial species. Phil Trans R Soc B 361: 1975-1984 [Abstract] [Full Text]  
  • Buckley, D. H., Huangyutitham, V., Nelson, T. A., Rumberger, A., Thies, J. E. (2006). Diversity of planctomycetes in soil in relation to soil history and environmental heterogeneity.. Appl. Environ. Microbiol. 72: 4522-4531 [Abstract] [Full Text]  
  • Vos, M., Velicer, G. J. (2006). Genetic Population Structure of the Soil Bacterium Myxococcus xanthus at the Centimeter Scale.. Appl. Environ. Microbiol. 72: 3615-3625 [Abstract] [Full Text]  
  • Souza, V., Espinosa-Asuar, L., Escalante, A. E., Eguiarte, L. E., Farmer, J., Forney, L., Lloret, L., Rodriguez-Martinez, J. M., Soberon, X., Dirzo, R., Elser, J. J. (2006). From the Cover: An endangered oasis of aquatic microbial biodiversity in the Chihuahuan desert. Proc. Natl. Acad. Sci. USA 103: 6565-6570 [Abstract] [Full Text]  
  • Fierer, N., Jackson, R. B. (2006). From the Cover: The diversity and biogeography of soil bacterial communities. Proc. Natl. Acad. Sci. USA 103: 626-631 [Abstract] [Full Text]  
  • Langenheder, S., Lindstrom, E. S., Tranvik, L. J. (2006). Structure and Function of Bacterial Communities Emerging from Different Sources under Identical Conditions. Appl. Environ. Microbiol. 72: 212-220 [Abstract] [Full Text]  
  • Rauch, E. M., Bar-Yam, Y. (2005). Estimating the total genetic diversity of a spatial field population from a sample and implications of its dependence on habitat area. Proc. Natl. Acad. Sci. USA 102: 9826-9829 [Abstract] [Full Text]  
  • Hahn, M. W., Pockl, M. (2005). Ecotypes of Planktonic Actinobacteria with Identical 16S rRNA Genes Adapted to Thermal Niches in Temperate, Subtropical, and Tropical Freshwater Habitats. Appl. Environ. Microbiol. 71: 766-773 [Abstract] [Full Text]  
  • Perez-Jimenez, J. R., Kerkhof, L. J. (2005). Phylogeography of Sulfate-Reducing Bacteria among Disturbed Sediments, Disclosed by Analysis of the Dissimilatory Sulfite Reductase Genes (dsrAB). Appl. Environ. Microbiol. 71: 1004-1011 [Abstract] [Full Text]  
  • Whitaker, R. J., Banfield, J. F. (2005). Population Dynamics Through the Lens of Extreme Environments. Reviews in Mineralogy and Geochemistry 59: 259-277 [Full Text]  
  • Syrmis, M. W, O'Carroll, M. R, Sloots, T. P, Coulter, C., Wainwright, C. E, Bell, S. C, Nissen, M. D (2004). Rapid genotyping of Pseudomonas aeruginosa isolates harboured by adult and paediatric patients with cystic fibrosis using repetitive-element-based PCR assays. J Med Microbiol 53: 1089-1096 [Abstract] [Full Text]  
  • Glaeser, J., Overmann, J. (2004). Biogeography, Evolution, and Diversity of Epibionts in Phototrophic Consortia. Appl. Environ. Microbiol. 70: 4821-4830 [Abstract] [Full Text]  
  • Yang, H.-H., Vinopal, R. T., Grasso, D., Smets, B. F. (2004). High Diversity among Environmental Escherichia coli Isolates from a Bovine Feedlot. Appl. Environ. Microbiol. 70: 1528-1536 [Abstract] [Full Text]  
  • Meyer, A. F., Lipson, D. A., Martin, A. P., Schadt, C. W., Schmidt, S. K. (2004). Molecular and Metabolic Characterization of Cold-Tolerant Alpine Soil Pseudomonas Sensu Stricto. Appl. Environ. Microbiol. 70: 483-489 [Abstract] [Full Text]  
  • Oda, Y., Star, B., Huisman, L. A., Gottschal, J. C., Forney, L. J. (2003). Biogeography of the Purple Nonsulfur Bacterium Rhodopseudomonas palustris. Appl. Environ. Microbiol. 69: 5186-5191 [Abstract] [Full Text]  
  • Bent, S. J., Gucker, C. L., Oda, Y., Forney, L. J. (2003). Spatial Distribution of Rhodopseudomonas palustris Ecotypes on a Local Scale. Appl. Environ. Microbiol. 69: 5192-5197 [Abstract] [Full Text]  
  • Whitaker, R. J., Grogan, D. W., Taylor, J. W. (2003). Geographic Barriers Isolate Endemic Populations of Hyperthermophilic Archaea. Science 301: 976-978 [Abstract] [Full Text]  
  • Bowman, J. P., McCuaig, R. D. (2003). Biodiversity, Community Structural Shifts, and Biogeography of Prokaryotes within Antarctic Continental Shelf Sediment. Appl. Environ. Microbiol. 69: 2463-2483 [Abstract] [Full Text]  
  • Vogel, J., Normand, P., Thioulouse, J., Nesme, X., Grundmann, G. L. (2003). Relationship between Spatial and Genetic Distance in Agrobacterium spp. in 1 Cubic Centimeter of Soil. Appl. Environ. Microbiol. 69: 1482-1487 [Abstract] [Full Text]  
  • Eriksson, M., Sodersten, E., Yu, Z., Dalhammar, G., Mohn, W. W. (2003). Degradation of Polycyclic Aromatic Hydrocarbons at Low Temperature under Aerobic and Nitrate-Reducing Conditions in Enrichment Cultures from Northern Soils. Appl. Environ. Microbiol. 69: 275-284 [Abstract] [Full Text]  
  • Coenye, T., Spilker, T., Martin, A., LiPuma, J. J. (2002). Comparative Assessment of Genotyping Methods for Epidemiologic Study of Burkholderia cepacia Genomovar III. J. Clin. Microbiol. 40: 3300-3307 [Abstract] [Full Text]  
  • Heyer, J., Galchenko, V. F., Dunfield, P. F. (2002). Molecular phylogeny of type II methane-oxidizing bacteria isolated from various environments. Microbiology 148: 2831-2846 [Abstract] [Full Text]  
  • Curtis, T. P., Sloan, W. T., Scannell, J. W. (2002). From the Cover: Estimating prokaryotic diversity and its limits. Proc. Natl. Acad. Sci. USA 99: 10494-10499 [Abstract] [Full Text]  
  • Oda, Y., Wanders, W., Huisman, L. A., Meijer, W. G., Gottschal, J. C., Forney, L. J. (2002). Genotypic and Phenotypic Diversity within Species of Purple Nonsulfur Bacteria Isolated from Aquatic Sediments. Appl. Environ. Microbiol. 68: 3467-3477 [Abstract] [Full Text]  
  • Zhou, J., Xia, B., Treves, D. S., Wu, L.-Y., Marsh, T. L., O'Neill, R. V., Palumbo, A. V., Tiedje, J. M. (2002). Spatial and Resource Factors Influencing High Microbial Diversity in Soil. Appl. Environ. Microbiol. 68: 326-334 [Abstract] [Full Text]  
  • Cho, J.-C., Tiedje, J. M. (2001). Bacterial Species Determination from DNA-DNA Hybridization by Using Genome Fragments and DNA Microarrays. Appl. Environ. Microbiol. 67: 3677-3682 [Abstract] [Full Text]  


Copyright © 2009 by the American Society for Microbiology.   For an alternate route to Journals.ASM.org, visit: http://intl-journals.asm.org | More Info»