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Methodological constraints in the molecular biodiversity study of a thermomineral spring cyanobacterial mat: a case study.
Antonie Van Leeuwenhoek. 2011 Feb; 99(2):271-81.AV

Abstract

The biodiversity of a specific cyanobacterial mat associated to a thermomineral spring from the Western Plain of Romania was investigated. Light and electron microscopy, together with molecular tools (denaturing gradient gel electrophoresis-DGGE, automated ribosomal intergenic spacer analysis-ARISA and amplified ribosomal DNA restriction analysis-ARDRA), based on 16S rDNA and 16S-23S internal transcribed spacer markers were used. Based on the partial 16S rRNA fragments sequenced, eight cyanobacterial taxons were identified, all belonging to the Oscillatoriales order, Phormidium and Leptolyngbya being dominant. A significant difference was observed, in comparison with the morphological approach. In certain conditions, DGGE can provide misleading information due to multiple melting domains in the same sequence, to multiple rrn operons in the same genome and due to unspecific hybridization among closely related sequences. This can lead to an overestimated species abundance which can cause incorrect description of the microbial community investigated. Additional techniques, such as ARISA and ARDRA, can improve the microbial biodiversity studies, thus providing optimal results.

Authors+Show Affiliations

Department of Biology, Babeş-Bolyai University, 1 Kogălniceanu Street, Cluj-Napoca, Romania. cristian.coman@hasdeu.ubbcluj.roNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info available

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

20665239

Citation

Coman, Cristian, et al. "Methodological Constraints in the Molecular Biodiversity Study of a Thermomineral Spring Cyanobacterial Mat: a Case Study." Antonie Van Leeuwenhoek, vol. 99, no. 2, 2011, pp. 271-81.
Coman C, Bica A, Drugă B, et al. Methodological constraints in the molecular biodiversity study of a thermomineral spring cyanobacterial mat: a case study. Antonie Van Leeuwenhoek. 2011;99(2):271-81.
Coman, C., Bica, A., Drugă, B., Barbu-Tudoran, L., & Dragoş, N. (2011). Methodological constraints in the molecular biodiversity study of a thermomineral spring cyanobacterial mat: a case study. Antonie Van Leeuwenhoek, 99(2), 271-81. https://doi.org/10.1007/s10482-010-9486-5
Coman C, et al. Methodological Constraints in the Molecular Biodiversity Study of a Thermomineral Spring Cyanobacterial Mat: a Case Study. Antonie Van Leeuwenhoek. 2011;99(2):271-81. PubMed PMID: 20665239.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Methodological constraints in the molecular biodiversity study of a thermomineral spring cyanobacterial mat: a case study. AU - Coman,Cristian, AU - Bica,Adriana, AU - Drugă,Bogdan, AU - Barbu-Tudoran,Lucian, AU - Dragoş,Nicolae, Y1 - 2010/07/28/ PY - 2010/05/25/received PY - 2010/07/16/accepted PY - 2010/7/29/entrez PY - 2010/7/29/pubmed PY - 2011/5/4/medline SP - 271 EP - 81 JF - Antonie van Leeuwenhoek JO - Antonie Van Leeuwenhoek VL - 99 IS - 2 N2 - The biodiversity of a specific cyanobacterial mat associated to a thermomineral spring from the Western Plain of Romania was investigated. Light and electron microscopy, together with molecular tools (denaturing gradient gel electrophoresis-DGGE, automated ribosomal intergenic spacer analysis-ARISA and amplified ribosomal DNA restriction analysis-ARDRA), based on 16S rDNA and 16S-23S internal transcribed spacer markers were used. Based on the partial 16S rRNA fragments sequenced, eight cyanobacterial taxons were identified, all belonging to the Oscillatoriales order, Phormidium and Leptolyngbya being dominant. A significant difference was observed, in comparison with the morphological approach. In certain conditions, DGGE can provide misleading information due to multiple melting domains in the same sequence, to multiple rrn operons in the same genome and due to unspecific hybridization among closely related sequences. This can lead to an overestimated species abundance which can cause incorrect description of the microbial community investigated. Additional techniques, such as ARISA and ARDRA, can improve the microbial biodiversity studies, thus providing optimal results. SN - 1572-9699 UR - https://www.unboundmedicine.com/medline/citation/20665239/Methodological_constraints_in_the_molecular_biodiversity_study_of_a_thermomineral_spring_cyanobacterial_mat:_a_case_study_ L2 - https://doi.org/10.1007/s10482-010-9486-5 DB - PRIME DP - Unbound Medicine ER -