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

 Previous Article  |  Next Article 

Appl Environ Microbiol. 1994 February; 60(2): 746-748

Recognition of chimeric small-subunit ribosomal DNAs composed of genes from uncultivated microorganisms.

Department of Microbiology, Montana State University, Bozeman 59717.

ABSTRACT

When PCR was used to recover small-subunit (SSU) rRNA genes from a hot spring cyanobacterial mat community, chimeric SSU rRNA sequences which exhibited little or no secondary structural abnormality were recovered. They were revealed as chimeras of SSU rRNA genes of uncultivated species through separate phylogenetic analysis of short sequence domains.

This article has been cited by other articles:

• Beser, J., Hagblom, P., Fernandez, V. (2007). Frequent In Vitro Recombination in Internal Transcribed Spacers 1 and 2 during Genotyping of Pneumocystis jirovecii. J. Clin. Microbiol. 45: 881-886 [Abstract] [Full Text]  
• Ashelford, K. E., Chuzhanova, N. A., Fry, J. C., Jones, A. J., Weightman, A. J. (2006). New Screening Software Shows that Most Recent Large 16S rRNA Gene Clone Libraries Contain Chimeras. Appl. Environ. Microbiol. 72: 5734-5741 [Abstract] [Full Text]  
• Ashelford, K. E., Chuzhanova, N. A., Fry, J. C., Jones, A. J., Weightman, A. J. (2005). At Least 1 in 20 16S rRNA Sequence Records Currently Held in Public Repositories Is Estimated To Contain Substantial Anomalies. Appl. Environ. Microbiol. 71: 7724-7736 [Abstract] [Full Text]  
• Acinas, S. G., Sarma-Rupavtarm, R., Klepac-Ceraj, V., Polz, M. F. (2005). PCR-Induced Sequence Artifacts and Bias: Insights from Comparison of Two 16S rRNA Clone Libraries Constructed from the Same Sample. Appl. Environ. Microbiol. 71: 8966-8969 [Abstract] [Full Text]  
• Luo, Q., Krumholz, L. R., Najar, F. Z., Peacock, A. D., Roe, B. A., White, D. C., Elshahed, M. S. (2005). Diversity of the Microeukaryotic Community in Sulfide-Rich Zodletone Spring (Oklahoma). Appl. Environ. Microbiol. 71: 6175-6184 [Abstract] [Full Text]  
• Vrionis, H. A., Anderson, R. T., Ortiz-Bernad, I., O'Neill, K. R., Resch, C. T., Peacock, A. D., Dayvault, R., White, D. C., Long, P. E., Lovley, D. R. (2005). Microbiological and Geochemical Heterogeneity in an In Situ Uranium Bioremediation Field Site. Appl. Environ. Microbiol. 71: 6308-6318 [Abstract] [Full Text]  
• Nocker, A., Lepo, J. E., Snyder, R. A. (2004). Influence of an Oyster Reef on Development of the Microbial Heterotrophic Community of an Estuarine Biofilm. Appl. Environ. Microbiol. 70: 6834-6845 [Abstract] [Full Text]  
• Janse, I., Meima, M., Kardinaal, W. E. A., Zwart, G. (2003). High-Resolution Differentiation of Cyanobacteria by Using rRNA-Internal Transcribed Spacer Denaturing Gradient Gel Electrophoresis. Appl. Environ. Microbiol. 69: 6634-6643 [Abstract] [Full Text]  
• Edwards, K. J., Rogers, D. R., Wirsen, C. O., McCollom, T. M. (2003). Isolation and Characterization of Novel Psychrophilic, Neutrophilic, Fe-Oxidizing, Chemolithoautotrophic {alpha}- and {gamma}-Proteobacteria from the Deep Sea. Appl. Environ. Microbiol. 69: 2906-2913 [Abstract] [Full Text]  
• Hugenholtz, P., Huber, T. (2003). Chimeric 16S rDNA sequences of diverse origin are accumulating in the public databases. Int. J. Syst. Evol. Microbiol. 53: 289-293 [Abstract] [Full Text]  
• Hutter, G., Schlagenhauf, U., Valenza, G., Horn, M., Burgemeister, S., Claus, H., Vogel, U. (2003). Molecular analysis of bacteria in periodontitis: evaluation of clone libraries, novel phylotypes and putative pathogens. Microbiology 149: 67-75 [Abstract] [Full Text]  
• Sekiguchi, H., Watanabe, M., Nakahara, T., Xu, B., Uchiyama, H. (2002). Succession of Bacterial Community Structure along the Changjiang River Determined by Denaturing Gradient Gel Electrophoresis and Clone Library Analysis. Appl. Environ. Microbiol. 68: 5142-5150 [Abstract] [Full Text]  
• Nubel, U., Bateson, M. M., Vandieken, V., Wieland, A., Kuhl, M., Ward, D. M. (2002). Microscopic Examination of Distribution and Phenotypic Properties of Phylogenetically Diverse Chloroflexaceae-Related Bacteria in Hot Spring Microbial Mats. Appl. Environ. Microbiol. 68: 4593-4603 [Abstract] [Full Text]  
• Dunbar, J., Barns, S. M., Ticknor, L. O., Kuske, C. R. (2002). Empirical and Theoretical Bacterial Diversity in Four Arizona Soils. Appl. Environ. Microbiol. 68: 3035-3045 [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]  
• Nubel, U., Bateson, M. M., Madigan, M. T., Kuhl, M., Ward, D. M. (2001). Diversity and Distribution in Hypersaline Microbial Mats of Bacteria Related to Chloroflexus spp.. Appl. Environ. Microbiol. 67: 4365-4371 [Abstract] [Full Text]  
• Derakshani, M., Lukow, T., Liesack, W. (2001). Novel Bacterial Lineages at the (Sub)Division Level as Detected by Signature Nucleotide-Targeted Recovery of 16S rRNA Genes from Bulk Soil and Rice Roots of Flooded Rice Microcosms. Appl. Environ. Microbiol. 67: 623-631 [Abstract] [Full Text]  
• Qiu, X., Wu, L., Huang, H., McDonel, P. E., Palumbo, A. V., Tiedje, J. M., Zhou, J. (2001). Evaluation of PCR-Generated Chimeras, Mutations, and Heteroduplexes with 16S rRNA Gene-Based Cloning. Appl. Environ. Microbiol. 67: 880-887 [Abstract] [Full Text]  
• Dahllöf, I., Baillie, H., Kjelleberg, S. (2000). rpoB-Based Microbial Community Analysis Avoids Limitations Inherent in 16S rRNA Gene Intraspecies Heterogeneity. Appl. Environ. Microbiol. 66: 3376-3380 [Abstract] [Full Text]  
• Lueders, T., Friedrich, M. (2000). Archaeal Population Dynamics during Sequential Reduction Processes in Rice Field Soil. Appl. Environ. Microbiol. 66: 2732-2742 [Abstract] [Full Text]  
• Dang, H., Lovell, C. R. (2000). Bacterial Primary Colonization and Early Succession on Surfaces in Marine Waters as Determined by Amplified rRNA Gene Restriction Analysis and Sequence Analysis of 16S rRNA Genes. Appl. Environ. Microbiol. 66: 467-475 [Abstract] [Full Text]  
• Crump, B. C., Armbrust, E. V., Baross, J. A. (1999). Phylogenetic Analysis of Particle-Attached and Free-Living Bacterial Communities in the Columbia River, Its Estuary, and the Adjacent Coastal Ocean. Appl. Environ. Microbiol. 65: 3192-3204 [Abstract] [Full Text]  
• Chin, K.-J., Lukow, T., Conrad, R. (1999). Effect of Temperature on Structure and Function of the Methanogenic Archaeal Community in an Anoxic Rice Field Soil. Appl. Environ. Microbiol. 65: 2341-2349 [Abstract] [Full Text]  
• Schwieger, F., Tebbe, C. C. (1998). A New Approach To Utilize PCR-Single-Strand-Conformation Polymorphism for 16S rRNA Gene-Based Microbial Community Analysis. Appl. Environ. Microbiol. 64: 4870-4876 [Abstract] [Full Text]  
• Großkopf, R., Stubner, S., Liesack, W. (1998). Novel Euryarchaeotal Lineages Detected on Rice Roots and in the Anoxic Bulk Soil of Flooded Rice Microcosms. Appl. Environ. Microbiol. 64: 4983-4989 [Abstract] [Full Text]  
• Ward, D. M., Ferris, M. J., Nold, S. C., Bateson, M. M. (1998). A Natural View of Microbial Biodiversity within Hot Spring Cyanobacterial Mat Communities. Microbiol. Mol. Biol. Rev. 62: 1353-1370 [Abstract] [Full Text]  
• Hugenholtz, P., Goebel, B. M., Pace, N. R. (1998). Impact of Culture-Independent Studies on the Emerging Phylogenetic View of Bacterial Diversity. J. Bacteriol. 180: 4765-4774 [Full Text]  
• Großkopf, R., Janssen, P. H., Liesack, W. (1998). Diversity and Structure of the Methanogenic Community in Anoxic Rice Paddy Soil Microcosms as Examined by Cultivation and Direct 16S rRNA Gene Sequence Retrieval. Appl. Environ. Microbiol. 64: 960-969 [Abstract] [Full Text]  
• Rappé, M. S., Suzuki, M. T., Vergin, K. L., Giovannoni, S. J. (1998). Phylogenetic Diversity of Ultraplankton Plastid Small-Subunit rRNA Genes Recovered in Environmental Nucleic Acid Samples from the Pacific and Atlantic Coasts of the United States. Appl. Environ. Microbiol. 64: 294-303 [Abstract] [Full Text]  
• Bintrim, S. B., Donohue, T. J., Handelsman, J., Roberts, G. P., Goodman, R. M. (1997). Molecular phylogeny of Archaea from soil. Proc. Natl. Acad. Sci. USA 94: 277-282 [Abstract] [Full Text]