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Stable isotope probing : methods and protocols / edited by Marc G. Dumont, Marcela Hernández García.

Contributor(s): Dumont, Marc G [editor.] | Hernández García, Marcela [editor.].
Material type: materialTypeLabelBookSeries: Methods in molecular biology (Clifton, N.J.): v. 2046Publisher: Totowa, NJ : Humana Press, 2019Description: xi, 247 pages : illustrations ; 26 cm.ISBN: 1493997203; 9781493997206.Subject(s): STABLE ISOTOPES | PROBES | MANUALS | ANALYSIS | DNA | RNA | FATTY ACIDS | PHOSPHOLIPIDS | MICROORGANISMS | GENOMICSHoldings: GRETA POINT: 621.039.8 STA
Contents:
1. Experimental setup and data analysis considerations for DNA- and RNA-SIP experiments in the Omics Era / Roey Angel -- 2. DNA-based stable isotope probing / Zhongjun Jia, Weiwei Cao, and Marcela Hernández García -- 3. RNA stable isotope probing (RNA-SIP) / Noor-Ul-Huda Ghori, Benjamin Moreira-Grez, Paton Vuong, Ian White, Tim Morald, Michael Wise and Andrew S. Whiteley -- 4. Stable isotope probing of microbial phospholipid fatty acids in environmental samples / Andrea Watzinger and Rebecca Hood-Nowotny -- 5. SIP-metaproteomics: linking microbial taxonomy, function, and activity / Martin Taubert -- 6. Chip-SIP: stable isotope probing analyzed with rRNA-targeted microarrays and nanoSIMS / Xavier Mayali, Peter K. Weber, Erin Nuccio, Jory Lietard, Mark Somoza, Steven J. Blazewicz, and Jennifer Pett-Ridge -- 7. Quantifiction of methanigenic pathways using stable carbon isotopic signatures / Quan Yuan -- 8. Stable isotope-labeled single-cell Raman Spectroscopy revealing function and activity of environmental microbes / Li Cui, Kai Yang, and Yong-Guan Zhu -- 9. Data analysis for DNA stable isotope probing experiments using multiple window high-resolution SIP / Samuel E. Barnett, Nicholas D. Youngblut, and Daniel H. Buckley -- 10. Stable isotope probing of microorganisms in environmental samples with H218O / Egbert Schwartz, Michaela Hayer, Bruce A. Hungate, and Rebecca L. Mau -- 11. Microbial taxon-specific isotope incorporation with DNA quantitative stable isotope probing / Brianna K. Finley, Michaela Hayer, Rebecca L. Mau, Alicia M. Purcell, Benjamin J. Koch, Natasja C. Van Getsel, Egbert Schwartz, and Bruce A, Hungate -- 12. Profiling of active microorganisms by stable isotope probing - metagenomics / Eileen Kröber and Özge Eyice -- 13. Targeted metatranscriptomics of soil microbial communities with stable isotope probing / Ang Hu, Yahai Lu, Marcela Hernández García, and Marc G. Dumont -- 14. Stable isotope probing techniques and methodological considerations using 15N / Roey Angel -- 15. DNA and RNA stable isotope probing of methylotrophic methanogenic archaea / Xiuran Yin, Ajinkya C. Kulkarni, and Michael W. Friedrich -- 16. Method development for DNA and proteome SIP analysis of activated sludge for anaerobic dichloromethane biodegradation / Miao Hu, Matthew Lee, Ling Zhong, and Michael J. Manefield -- 17. RNA-based stable isotope probing (RNA-SIP) in the gut environment / Severin Weis, Sylvia Schnell, and Markus Egert -- 18. Stable isotope probing of microbiota structure and function in the plant rhizosphere / Wafa Achouak, Feth el Zahar Haichar.
Summary: This book provides definitive methods to perform stable isotope probing (SIP) experiments, covering a wide spectrum of stable isotope techniques used in microbial ecology, such as methods to target and analyze labeled DNA, rRNA, mRNA, protein, and PLFA. Protocols to study stable isotope fractionation by microbial pathways, the analysis of labeled communities with Raman microscopy, Chip-SIM, as well as quantitative SIP (qSIP) and high-resolution SIP (HR-SIP) are also featured. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.
Holdings
Item type Current library Call number Copy number Status Date due Barcode
BOOK BOOK WELLINGTON BOOKS 621.039.8 STA 1 Available B020614

1. Experimental setup and data analysis considerations for DNA- and RNA-SIP experiments in the Omics Era / Roey Angel -- 2. DNA-based stable isotope probing / Zhongjun Jia, Weiwei Cao, and Marcela Hernández García -- 3. RNA stable isotope probing (RNA-SIP) / Noor-Ul-Huda Ghori, Benjamin Moreira-Grez, Paton Vuong, Ian White, Tim Morald, Michael Wise and Andrew S. Whiteley -- 4. Stable isotope probing of microbial phospholipid fatty acids in environmental samples / Andrea Watzinger and Rebecca Hood-Nowotny -- 5. SIP-metaproteomics: linking microbial taxonomy, function, and activity / Martin Taubert -- 6. Chip-SIP: stable isotope probing analyzed with rRNA-targeted microarrays and nanoSIMS / Xavier Mayali, Peter K. Weber, Erin Nuccio, Jory Lietard, Mark Somoza, Steven J. Blazewicz, and Jennifer Pett-Ridge -- 7. Quantifiction of methanigenic pathways using stable carbon isotopic signatures / Quan Yuan -- 8. Stable isotope-labeled single-cell Raman Spectroscopy revealing function and activity of environmental microbes / Li Cui, Kai Yang, and Yong-Guan Zhu -- 9. Data analysis for DNA stable isotope probing experiments using multiple window high-resolution SIP / Samuel E. Barnett, Nicholas D. Youngblut, and Daniel H. Buckley -- 10. Stable isotope probing of microorganisms in environmental samples with H218O / Egbert Schwartz, Michaela Hayer, Bruce A. Hungate, and Rebecca L. Mau -- 11. Microbial taxon-specific isotope incorporation with DNA quantitative stable isotope probing / Brianna K. Finley, Michaela Hayer, Rebecca L. Mau, Alicia M. Purcell, Benjamin J. Koch, Natasja C. Van Getsel, Egbert Schwartz, and Bruce A, Hungate -- 12. Profiling of active microorganisms by stable isotope probing - metagenomics / Eileen Kröber and Özge Eyice -- 13. Targeted metatranscriptomics of soil microbial communities with stable isotope probing / Ang Hu, Yahai Lu, Marcela Hernández García, and Marc G. Dumont -- 14. Stable isotope probing techniques and methodological considerations using 15N / Roey Angel -- 15. DNA and RNA stable isotope probing of methylotrophic methanogenic archaea / Xiuran Yin, Ajinkya C. Kulkarni, and Michael W. Friedrich -- 16. Method development for DNA and proteome SIP analysis of activated sludge for anaerobic dichloromethane biodegradation / Miao Hu, Matthew Lee, Ling Zhong, and Michael J. Manefield -- 17. RNA-based stable isotope probing (RNA-SIP) in the gut environment / Severin Weis, Sylvia Schnell, and Markus Egert -- 18. Stable isotope probing of microbiota structure and function in the plant rhizosphere / Wafa Achouak, Feth el Zahar Haichar.


This book provides definitive methods to perform stable isotope probing (SIP) experiments, covering a wide spectrum of stable isotope techniques used in microbial ecology, such as methods to target and analyze labeled DNA, rRNA, mRNA, protein, and PLFA. Protocols to study stable isotope fractionation by microbial pathways, the analysis of labeled communities with Raman microscopy, Chip-SIM, as well as quantitative SIP (qSIP) and high-resolution SIP (HR-SIP) are also featured. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.

GRETA POINT: 621.039.8 STA

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