用于水生细菌群落自动核糖体基因间隔区分析的引物组比较：生态学视角
Comparison of primer sets for use in automated ribosomal intergenic spacer analysis of aquatic bacterial communities: an ecological perspective.
作者信息
Jones Stuart E, Shade Ashley L, McMahon Katherine D, Kent Angela D
机构信息
Limnology and Marine Science Program, University of Wisconsin-Madison, Madison, Wisconsin 53706, USA.
出版信息
Appl Environ Microbiol. 2007 Jan;73(2):659-62. doi: 10.1128/AEM.02130-06. Epub 2006 Nov 22.
Abstract
Two primer sets for automated ribosomal intergenic spacer analysis (ARISA) were used to assess the bacterial community composition (BCC) in Lake Mendota, Wisconsin, over 3 years. Correspondence analysis revealed differences in community profiles generated by different primer sets, but overall ecological patterns were conserved in each case. ARISA is a powerful tool for evaluating BCC change through space and time, regardless of the specific primer set used.
摘要
使用两套用于自动核糖体基因间隔区分析（ARISA）的引物，对威斯康星州门多塔湖的细菌群落组成（BCC）进行了为期3年的评估。对应分析揭示了不同引物组产生的群落图谱存在差异，但在每种情况下总体生态模式是保守的。无论使用何种特定引物组，ARISA都是评估BCC时空变化的有力工具。
相似文献
1
Comparison of primer sets for use in automated ribosomal intergenic spacer analysis of aquatic bacterial communities: an ecological perspective.
Appl Environ Microbiol. 2007 Jan;73(2):659-62. doi: 10.1128/AEM.02130-06. Epub 2006 Nov 22.
2
Coupling 16S-ITS rDNA clone libraries and automated ribosomal intergenic spacer analysis to show marine microbial diversity: development and application to a time series.
Environ Microbiol. 2005 Sep;7(9):1466-79. doi: 10.1111/j.1462-2920.2005.00835.x.
3
Combined use of 16S ribosomal DNA and automated ribosomal intergenic spacer analysis to study the bacterial community in catfish ponds.
Lett Appl Microbiol. 2006 Sep;43(3):287-92. doi: 10.1111/j.1472-765X.2006.01955.x.
4
Experimental manipulations of microbial food web interactions in a humic lake: shifting biological drivers of bacterial community structure.
Environ Microbiol. 2006 Aug;8(8):1448-59. doi: 10.1111/j.1462-2920.2006.01039.x.
5
Richness and diversity of bacterioplankton species along an estuarine gradient in Moreton Bay, Australia.
Appl Environ Microbiol. 2004 Jun;70(6):3425-33. doi: 10.1128/AEM.70.6.3425-3433.2004.
6
Differentiation of bacterial strains by thermal gradient gel electrophoresis using non-GC-clamped PCR primers for the 16S-23S rDNA intergenic spacer region.
FEMS Microbiol Lett. 2005 Feb 1;243(1):235-42. doi: 10.1016/j.femsle.2004.12.011.
7
Geographic and environmental sources of variation in lake bacterial community composition.
Appl Environ Microbiol. 2005 Jan;71(1):227-39. doi: 10.1128/AEM.71.1.227-239.2005.
8
Species-sorting may explain an apparent minimal effect of immigration on freshwater bacterial community dynamics.
Environ Microbiol. 2009 Apr;11(4):905-13. doi: 10.1111/j.1462-2920.2008.01814.x. Epub 2008 Nov 26.
9
Comparison of different primer sets for use in automated ribosomal intergenic spacer analysis of complex bacterial communities.
Appl Environ Microbiol. 2004 Oct;70(10):6147-56. doi: 10.1128/AEM.70.10.6147-6156.2004.
10
Comparison of different denaturing gradient gel electrophoresis primer sets for the study of marine bacterioplankton communities.
Appl Environ Microbiol. 2007 Sep;73(18):5962-7. doi: 10.1128/AEM.00817-07. Epub 2007 Jul 27.
引用本文的文献
1
Variation in gut bacterial composition is associated with Haemonchus contortus parasite infection of sheep.
Anim Microbiome. 2020 Feb 5;2(1):3. doi: 10.1186/s42523-020-0021-3.
2
Biochemical but not compositional recovery of skin mucosal microbiome communities after disruption.
Infect Drug Resist. 2019 Feb 13;12:399-416. doi: 10.2147/IDR.S185992. eCollection 2019.
3
Transition of Ethiopian highland forests to agriculture-dominated landscapes shifts the soil microbial community composition.
BMC Ecol. 2018 Dec 17;18(1):58. doi: 10.1186/s12898-018-0214-8.
4
Dynamics of Soil Bacterial Communities Over a Vegetation Season Relate to Both Soil Nutrient Status and Plant Growth Phenology.
Microb Ecol. 2018 Jan;75(1):216-227. doi: 10.1007/s00248-017-1012-0. Epub 2017 Jul 15.
5
Environmental Disturbances Decrease the Variability of Microbial Populations within Periphyton.
mSystems. 2016 May 17;1(3). doi: 10.1128/mSystems.00013-16. eCollection 2016 May-Jun.
6
Application of multivariate statistical techniques in microbial ecology.
Mol Ecol. 2016 Mar;25(5):1032-57. doi: 10.1111/mec.13536.
7
Seasonal Patterns in Microbial Community Composition in Denitrifying Bioreactors Treating Subsurface Agricultural Drainage.
Microb Ecol. 2015 Oct;70(3):710-23. doi: 10.1007/s00248-015-0605-8. Epub 2015 Apr 26.
8
Effects of forest management practices in temperate beech forests on bacterial and fungal communities involved in leaf litter degradation.
Microb Ecol. 2015 May;69(4):905-13. doi: 10.1007/s00248-015-0585-8. Epub 2015 Mar 7.
9
Influence of commonly used primer systems on automated ribosomal intergenic spacer analysis of bacterial communities in environmental samples.
PLoS One. 2015 Mar 6;10(3):e0118967. doi: 10.1371/journal.pone.0118967. eCollection 2015.
10
Involvement of dietary salt in shaping bacterial communities in European sea bass (Dicentrarchus labrax).
Sci Rep. 2013;3:1558. doi: 10.1038/srep01558.
本文引用的文献
1
Coupling 16S-ITS rDNA clone libraries and automated ribosomal intergenic spacer analysis to show marine microbial diversity: development and application to a time series.
Environ Microbiol. 2005 Sep;7(9):1466-79. doi: 10.1111/j.1462-2920.2005.00835.x.
2
Annual patterns in bacterioplankton community variability in a humic lake.
Microb Ecol. 2004 Nov;48(4):550-60. doi: 10.1007/s00248-004-0244-y. Epub 2004 Oct 28.
3
Geographic and environmental sources of variation in lake bacterial community composition.
Appl Environ Microbiol. 2005 Jan;71(1):227-39. doi: 10.1128/AEM.71.1.227-239.2005.
4
Comparison of different primer sets for use in automated ribosomal intergenic spacer analysis of complex bacterial communities.
Appl Environ Microbiol. 2004 Oct;70(10):6147-56. doi: 10.1128/AEM.70.10.6147-6156.2004.
5
Molecular microbial ecology: land of the one-eyed king.
Curr Opin Microbiol. 2004 Jun;7(3):210-20. doi: 10.1016/j.mib.2004.04.015.
6
Richness and diversity of bacterioplankton species along an estuarine gradient in Moreton Bay, Australia.
Appl Environ Microbiol. 2004 Jun;70(6):3425-33. doi: 10.1128/AEM.70.6.3425-3433.2004.
7
Automated approach for ribosomal intergenic spacer analysis of microbial diversity and its application to freshwater bacterial communities.
Appl Environ Microbiol. 1999 Oct;65(10):4630-6. doi: 10.1128/AEM.65.10.4630-4636.1999.
8
Determination of microbial diversity in environmental samples: pitfalls of PCR-based rRNA analysis.
FEMS Microbiol Rev. 1997 Nov;21(3):213-29. doi: 10.1111/j.1574-6976.1997.tb00351.x.
9
Gene organization and primary structure of a ribosomal RNA operon from Escherichia coli.
J Mol Biol. 1981 May 15;148(2):107-27. doi: 10.1016/0022-2836(81)90508-8.
Zotero 插件