Knowledge Resource Center for Ecological Environment in Arid Area
DOI | 10.1139/W11-091 |
Determination of low bacterial concentrations in hyperarid Atacama soils: comparison of biochemical and microscopy methods with real-time quantitative PCR | |
Fletcher, Lauren E.1,2; Conley, Catharine A.3; Valdivia-Silva, Julio E.2; Perez-Montano, Saul2,4; Condori-Apaza, Renee5; Kovacs, Gregory T. A.6; Glavin, Daniel P.7; McKay, Christopher P.2 | |
通讯作者 | Fletcher, Lauren E. |
来源期刊 | CANADIAN JOURNAL OF MICROBIOLOGY |
ISSN | 0008-4166 |
EISSN | 1480-3275 |
出版年 | 2011 |
卷号 | 57期号:11页码:953-963 |
英文摘要 | Hyperarid Atacama soils are reported to contain significantly reduced numbers of microbes per gram of soil relative to soils from other environments. Molecular methods have been used to evaluate microbial populations in hyperarid Atacama soils; however, conflicting results across the various studies, possibly caused by this low number of microorganisms and consequent biomass, suggest that knowledge of expected DNA concentrations in these soils becomes important to interpreting data from any method regarding microbial concentrations and diversity. In this paper we compare the number of bacteria per gram of Atacama Desert soils determined by real-time quantitative polymerase chain reaction with the number of bacteria estimated by the standard methods of phospholipids fatty acid analysis, adenine composition (determined by liquid chromatography time-of-flight mass spectrometry), and SYBR-green microscopy. The number determined by real-time quantitative polymerase chain reaction as implemented in this study was several orders of magnitude lower than that determined by the other three methods and probably underestimates the concentrations of soil bacteria, most likely because of soil binding during the DNA extraction methods. However, the other methods very possibly overestimate the bacteria concentrations owing to desiccated, intact organisms, which would stain positive in microscopy and preserve both adenine and phospholipid fatty acid for the other methods. |
英文关键词 | soil DNA real-time qPCR hyperarid environment Atacama Desert |
类型 | Article |
语种 | 英语 |
国家 | England ; USA ; Peru |
收录类别 | SCI-E |
WOS记录号 | WOS:000298015800010 |
WOS关键词 | POLYMERASE-CHAIN-REACTION ; RIBOSOMAL-RNA GENE ; ENVIRONMENTAL-SAMPLES ; ESCHERICHIA-COLI ; MICROBIAL LIFE ; PLASMID DNA ; DESERT ; ENUMERATION ; ADSORPTION ; SEDIMENTS |
WOS类目 | Biochemistry & Molecular Biology ; Biotechnology & Applied Microbiology ; Immunology ; Microbiology |
WOS研究方向 | Biochemistry & Molecular Biology ; Biotechnology & Applied Microbiology ; Immunology ; Microbiology |
来源机构 | University of Oxford |
资源类型 | 期刊论文 |
条目标识符 | http://119.78.100.177/qdio/handle/2XILL650/167504 |
作者单位 | 1.Univ Oxford, Clarendon Lab, Oxford OX1 3PU, England; 2.NASA, Div Space Sci, Ames Res Ctr, Moffett Field, CA 94035 USA; 3.NASA Headquarters, Sci Mission Directorate, Planetary Sci Div, Washington, DC 20546 USA; 4.San Jose State Univ, Dept Chem, San Jose, CA 95192 USA; 5.Univ Nacl San Agustin, Arequipa, Peru; 6.Stanford Univ, Dept Elect Engn, Stanford, CA 94305 USA; 7.NASA, Goddard Space Flight Ctr, Solar Syst Explorat Div, Greenbelt, MD 20771 USA |
推荐引用方式 GB/T 7714 | Fletcher, Lauren E.,Conley, Catharine A.,Valdivia-Silva, Julio E.,et al. Determination of low bacterial concentrations in hyperarid Atacama soils: comparison of biochemical and microscopy methods with real-time quantitative PCR[J]. University of Oxford,2011,57(11):953-963. |
APA | Fletcher, Lauren E..,Conley, Catharine A..,Valdivia-Silva, Julio E..,Perez-Montano, Saul.,Condori-Apaza, Renee.,...&McKay, Christopher P..(2011).Determination of low bacterial concentrations in hyperarid Atacama soils: comparison of biochemical and microscopy methods with real-time quantitative PCR.CANADIAN JOURNAL OF MICROBIOLOGY,57(11),953-963. |
MLA | Fletcher, Lauren E.,et al."Determination of low bacterial concentrations in hyperarid Atacama soils: comparison of biochemical and microscopy methods with real-time quantitative PCR".CANADIAN JOURNAL OF MICROBIOLOGY 57.11(2011):953-963. |
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