2009年12月17日木曜日

集めた論文の覚書 [微生物分析法] Literature Review [Analytical methods for microbial activities]

修士論文に関連して集めた、微生物分析法(特に同位体ラベル)の論文。

Single-Cell Ecophysiology of Microbes as Revealed by Raman Microspectroscopy or Secondary Ion Mass Spectrometry Imaging
Michael Wagner
Annual Review of Microbiology (2009) Vol. 63: 411-429, doi:10.1146/annurev.micro.091208.073233
→顕微ラマンとSIMSを用いた、微生物細胞ごとの安定同位体ラベル分析のレビュー。

A single-cell view on the ecophysiology of anaerobic phototrophic bacteria
Niculina Musat, Hannah Halm, Barbel Winterholler, Peter Hoppe, Sandro Peduzzi, Francois Hillion, Francois Horreard, Rudolf Amann, Bo B. Jorgensen and Marcel M. M. Kuypers
PNAS November 18, 2008 vol. 105 no. 46 17861-17866, doi: 10.1073/pnas.0809329105→HISH-SIMSによる種特異的1細胞レベルの炭素・窒素同位体ラベル取り込み評価法の開発と、嫌気光合成バクテリアへの応用。

Biogeochemical processes in the saline meromictic Lake Kaiike, Japan: implications from molecular isotopic evidences of photosynthetic pigments
Naohiko Ohkouchi, Yoji Nakajima, Hisatake Okada, Nanako O. Ogawa, Hisami Suga, Kazumasa Oguri and Hiroshi Kitazato
Environmental Microbiology (2005) Volume 7 Issue 7, Pages 1009 - 1016, doi:10.1111/j.1462-2920.2005.00772.x
→貝池の水中のバクテリオクロロフィルの化合物レベル炭素・窒素同位体組成などから、光合成細菌による生物地球化学循環を推定。

Stable-isotope probing of DNA: insights into the function of uncultivated microorganisms from isotopically labeled metagenomes
Michael W Friedrich
Current Opinion in Biotechnology (2006) Volume 17, Issue 1, February 2006, Pages 59-66, doi:10.1016/j.copbio.2005.12.003
→DNA-SIPのレビュー。

Unlocking the 'microbial black box' using RNA-based stable isotope probing technologiesAndrew S Whiteley, Mike Manefield and Tillmann Lueders
Current Opinion in Biotechnology (2006) Volume 17, Issue 1, February 2006, Pages 67-71, doi:10.1016/j.copbio.2005.11.002
→RNA-SIPのレビュー。

13C-Labelling of lipids to investigate microbial communities in the environment
Richard P Evershed, Zoe M Crossman, Ian D Bull, Hazel Mottram, Jennifer AJ Dungait, Peter J Maxfield and Emma L Brennand
Current Opinion in Biotechnology (2006) Volume 17, Issue 1, February 2006, Pages 72-82, doi:10.1016/j.copbio.2006.01.003
→脂質SIPのレビュー。

Linking microbial community structure with function: fluorescence in situ hybridization-microautoradiography and isotope arrays
Michael Wagner, Per H Nielsen, Alexander Loy, Jeppe L Nielsen and Holger Daims
Current Opinion in Biotechnology, Volume 17, Issue 1, February 2006, Pages 83-91, doi:10.1016/j.copbio.2005.12.006
→FISH-MARのレビュー。

DNA-based stable isotope probing: a link between community structure and function
Ondrej Uhlik, Katerina Jecna, Mary Beth Leigh, Martina Mackova and Tomas Macek
Science of The Total Environment (2009) Volume 407, Issue 12, 1 June 2009, Pages 3611-3619, doi:10.1016/j.scitotenv.2008.05.012
→DNA-SIPの2009年度版レビュー。

Comparison of methods for simultaneous identification of bacterial species and determination of metabolic activity by protein-based stable isotope probing (Protein-SIP) experiments
Nico Jehmlich, Frank Schmidt, Martin Taubert, Jana Seifert, Martin von Bergen, Hans-Hermann Richnow, Carsten Vogt
Rapid Communications in Mass Spectrometry (2009) Volume 23 Issue 12, Pages 1871 - 1878, DOI:10.1002/rcm.4084
→タンパク質-SIPの手法の比較。

Quantifying 3H-thymidine incorporation rates by a phylogenetically defined group of marine planktonic bacteria (Bacteriodetes phylum)
Benjamin A. S. Van Mooy, Allan H. Devol and Richard G. Keil
Environmental Microbiology (2004) Volume 6 Issue 10, Pages 1061 - 1069, doi:10.1111/j.1462-2920.2004.00636.x
→SNAP-BACの開発。

Who eats what, where and when? Isotope-labelling experiments are coming of age
Josh D Neufeld, Michael Wagner and J Colin Murrell
The ISME Journal (2007) 1, 103?110; doi:10.1038/ismej.2007.30
→微生物細胞の同位体ラベルによる代謝活性測定法のレビュー。

Microbial community proteomics: elucidating the catalysts and metabolic mechanisms that drive the Earth's biogeochemical cycles
Paul Wilmes and Philip L Bond
Current Opinion in Microbiology, Volume 12, Issue 3, June 2009, Pages 310-317, doi:10.1016/j.mib.2009.03.004
→“メタ”微生物プロテオミクスのレビュー。

Anaerobic Oxidation of Methane: Progress with an Unknown Process
Katrin Knittel and Antje Boetius
Annual Review of Microbiology (2009) Vol. 63: 311-334, doi:10.1146/annurev.micro.61.080706.093130
→嫌気的メタン酸化の最新レビュー論文。

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