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地球科学进展  2005, Vol. 20 Issue (6): 664-670    DOI: 10.11867/j.issn.1001-8166.2005.06.0664
综述与评述     
分子地质微生物学研究方法述评
王红梅1,谢树成2,赖旭龙2,黄俊华2,杨娇艳3
1.中国地质大学环境学院生物科学与技术系,湖北 武汉 430074;2.中国地质大学地球科学学院,湖北 武汉 430074;3.华中师范大学生命科学学院,湖北 武汉 430079
EVALUATION OF THE METHODOLOGY IN MOLECULAR GEOMICROBIOLOGY
WANG Hongmei1;XIE Shucheng2;LAI Xulong2;HUANG Junhua2;YANG Jiaoyan3
1.Biological Science and Technology,School of Environmental Studies, China University of Geosciences, Wuhan 430074,China;                        2.School of Earth Sciences, China University of Geosciences, Wuhan 430074,China;3.College of Life Sciences, Huazhong Normal University, Wuhan 430079,China
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摘要:

微生物在诸如海洋、湖泊、土壤、冰川、洞穴等许多生态系统的地质过程中发挥着重要作用,国际上对一些单个生态系统的地质微生物研究进展及微生物类脂物碳同位素组成与碳循环的关系等已部分地进行了总结。从分子水平上总结了地质微生物研究进展,着重从核酸(16S rRNA、DNA)和类脂物(磷脂酸、藿醇)两大方面评述了分子地质微生物学的研究,重点剖析了地质历史时期的甲烷氧化细菌、绿硫细菌、蓝细菌等一些重要微生物类群的类脂物分子标志化合物特征,揭示了当今分子地质微生物研究领域最新的研究方法及其发展动态,指出单体稳定同位素研究和放射性同位素示踪的结合将使分子地质微生物学研究进入一个崭新阶段。

关键词: 地质微生物生物标志化合物分子化石微生物    
Abstract:

Microbes are extensively involved in geological processes occurring within a variety of ecosystems such as marine and oceans, lakes, soils, glaciers, caves, etc. Specific summaries of the microbial studies in individual ecosystems have been partly, if not wholly, presented in literatures. However, This paper overviews some advances in the studies of the biochemical components in molecular geomicrobiology, including nucleic acids (16S rRNA and DNA) and lipids (PLFA and hopanols). Summary is made on the lipid characteristics of specific geomicrobes. Typically, diplopterol, 2-methylhopanes and aryl isoprenoids (2-alkyl-1,3,4-trimethylbenzene) are respectively reviewed in the exploitation as the biomarkers of methanotrophs, cyanobacteria and green sulfur bacteria through the geological time. It is proposed that new techniques such as the integration of stable with radioactive isotopes of compoundspecific will enhance the further development of molecular geomicrobiology in the future.

Key words: Geomicrobe    Biomarker    Molecular fossil.
收稿日期: 2004-05-25 出版日期: 2005-06-25
:  Q939.99  
基金资助:

国家自然科学基金项目“典型地区土壤微生物芽孢计数异常与下伏金矿化的关系”(编号:40202011);武汉市晨光计划项目“红土型金矿区微生物找矿潜力研究”(编号:2003500216-29);教育部留学回国人员科研启动基金联合资助.

通讯作者: 王红梅   
作者简介: 王红梅(1970-),女,河南濮阳人,副教授,主要从事地质微生物学、分子有机地球化学、生物学等方面的教学和科研工作.E-mail: hmwang@cug.edu.cn
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引用本文:

王红梅;谢树成;赖旭龙;黄俊华;杨娇艳. 分子地质微生物学研究方法述评[J]. 地球科学进展, 2005, 20(6): 664-670.

WANG Hongmei;XIE Shucheng;LAI Xulong;HUANG Junhua;YANG Jiaoyan. EVALUATION OF THE METHODOLOGY IN MOLECULAR GEOMICROBIOLOGY. Advances in Earth Science, 2005, 20(6): 664-670.

链接本文:

http://www.adearth.ac.cn/CN/10.11867/j.issn.1001-8166.2005.06.0664        http://www.adearth.ac.cn/CN/Y2005/V20/I6/664

[1] Beerstecher E. Petroleum Microbiology [M]. New York: Elsevier, 1954.
[2] Kuznetsov S I, Inanov M V, Lyalikova M N. Introduction to Geomicrobiolgy (English translation)[M]. New York: McGrag-Hill,1963.
[3] Ehrlich H L. Geomicrobiolgy[M]. New York: Marcel Dekker, 2002.
[4] Newman D K, Banfield J F. Geomicrobiology: How molecular-scale interaction underpin biogeochemical systems[J].Science, 2002, 296:1 071-1 077.[5] Kasting J F, Siefert J L. Life and the evolution of Earth's atmosphere[J].Science, 2002, 296:1 066-1 068.
[6] Reysenbach A L, Shock E. Merging genomes with geochemistry in hydrothermal ecosystem[J].Science, 2002, 296:1 077-1 082.
[7] Edwards K J, Bond P L, Gihring T M,et al. An archaeal iron-oxidizing extreme acidophile important in acid mine drainage [J].Science, 2000, 287: 1 796-1 799.
[8] Northup D E, Lavoie K H. Geomicrobiolgy of caves: A review [J].Geomicrobiology Journal, 2001,18:199-222.
[9] Parkes R J, Cragg B A, Wellsbury P. Recent studies on bacterial populations and process in subseafloor sediments: A review [J].Hydrology Journal, 2000,8:11-28.
[10] Pancost R D, Damst J S S. Carbon isotopic compositions of prokaryotic lipids as tracers of carbon cycling in diverse settings [J].Chemical Geology,2003,195:29-58.
[11] Zhang Xiaojun, Ma Xiaojun, Yao Tandong, et al. Diversity of 16S rDNA and environmental factor influencing microorganisms in Malan ice core[J].Chinese Science Bulletin, 2003, 48(9):947-951.[张晓君,马晓军,姚檀栋,等.马兰冰芯16S rDNA的多样性与影响冰芯中微生物的环境因素[J].科学通报,2003,48(9):947-951.]
[12] Fish S A, Shepherd T J, McGenity T J, et al. Recovery of 16S ribosomal RNA gene fragments from ancient halite [J].Nature, 2002, 417 : 432-436.
[13] Macalady J, Banfield J F. Molecular geomicrobiology: Genes and geochemical cycling[J].Earth and Planetary Sciences Letters, 2003, 209:1-17.
[14] Chrestiner B C, Thompson E M, Thompson L G, et al. Recovery and identification of viable bacteria immured in glacial ice[J].Icarus, 2000,144:479-485.
[15] Dancer S J, Shears P, Platt D J. Isolation and characterization of coliforms from glacial ice and water in Canada's high Arctic[J].Journal of Applied Microbiology, 1997, 82:597-609.
[16] Ma L J, Catharine M C, Starmer W T, et al. Revival and characterization of fungi from ancient polar ice [J].Mycologist, 1999, 13:70-73.
[17] Zhang Xiaojun, Yao Tandong, Ma Xiaojun, et al. Analysis of the characteristics of microorganisms packed in the ice core of Malan Glacier, Tiber, China [J].Science in China(D), 2001, 44(suppl.):369-374.
[18] Llobet-Brossa E, Rossell -Mora R, Amann R. Microbial community composition of Wadden Sea sediments as revealed by fluorence in situ hybridization[J].Applied and Environmental Microbiology, 1998, 64:2 691-2 696.
[19] Ramsing N B, Fossing H, Ferdelmann T G, et al. Distribution of bacteria populations in a stratified fjord quatified by in situ hybridization and related to chemical gradients in the water column [J].Applied and Environmental Microbiology, 1996, 62:1 391-1 404.
[20] Felske A, Akkermans A D L, De Vos W M. In situ detection of an uncultured predominant Bacillus in dutch grassland soils [J].Applied and Environmental Microbiology, 1998, 64:4 588-4 590.
[21] Pennanen T, Frostegard A, Fritze H, et al. Phospholipid acid composition and heavy metal tolerance of soil microbial communities along two heavy metal-polluted gradients in Coniferous forest [J].Applied and Environmental Microbiology, 1996, 62(2): 420-428. 
[22] Fierer N, Schimel J P, Holden P A. Variation in microbial composition through two soil depth profiles [J].Soil & Biochemistry, 2003, 35: 167-176.
[23] Farriond P, Head I M, Innes E. Environmental influence on the biohopanoid composition of recent sediments [J].Geochimica et Cosmochimica, 2000, 64:2 985-2 992.
[24] Kelly J J, Häggblom M, Tate III R L. Changes in soil microbial communities over time resulting from one time application of zinc: A laboratory microcosm study [J].Soil Biology & Biochemistry,1999,31:1 455-1 465.
[25] Waldrop M P, Balser T C, Firestone M K. Linking microbial community composition to function in a tropical soil [J].Soil & Biochemistry, 2000, 32: 1 837-1 846.
[26] Petsch S T, Edwards K J, Eglinton T I. Abundance, distribution and δ13C analysis of microbial phospholipids-derived fatty acids in a black shale weathering profile[J].Organic Geochemistry, 2003, 34:731-743.
[27] Qi Hongyan, Xue Kai, Zhang Hongxun. Phospholipid fatty acid analysis and its application in microbial ecology[J].Acta Ecologica Sinica,2003,23(8):1 576-1 582.[齐鸿雁, 薛凯, 张洪勋.磷脂脂肪酸谱图分析方法及其在微生物生态学领域的应用[J].生态学报,2003,23(8):1 576-1 582.]
[28] Zhang Hanbo,Duan Changqun,Qu Lianghu. Culture independent methods for studies on microbial ecology of soils[J]. Chinese Journal of Ecology, 2003,22 (5):131-136.[张汉波,段昌群,屈良鹄.非培养方法在土壤微生物生态学研究中的应用[J].生态学杂志,2003,22(5):131-136.]
[29] Ourrison G, Albret P. Geohopanoids: The most abundant natural products on Earth? [J].Accounts of Chemistry Research, 1992, 25:398-402.
[30] Summons R E, Jahnke L L, Hope J M, et al. 2-Methylhopanoids as biomarkers for cyanobacterial oxygenic photosynthesis [J].Nature, 1999, 400:554-557.
[31] Pancost R D, Baas M, Damsté J S S. δ13C values and radiocarbon dates of microbial biomarkers as tracers for carbon recycling in peat deposits [J].Geology, 2000, 28: 663-666.
[32] Boschker H T S, Nold S C, Wellsbury P, et al. Direct linking of microbial populations to specific biogeochemical processes by 13C-labelling biomarkers[J].Nature, 1998, 392:801-805.
[33] Hesselbo S P. Massive dissociation of gas hydrate a Jurassic oceanic event [J].Nature, 2000,406: 392-395.
[34] Hanson R S, Habson T E. Methanotrophic bacteria [J].Microbiology Review, 1996, 60:439-471.
[35] Bowman J P, Sly L I, Stacklebrandt E. The phylogenetic position of the family methylococcaceae [J].International Symposium on Bacteriology, 1993, 45:182-185.
[36] Freeman K H, Hayers J M, Trendel J M, et al. Evidence from carbon isotope measurements for diverse origins of sedimentary hydrocarbons [J].Nature, 1990, 343:254-256.
[37] Summons R E, Jahbke L L, Roksandic Z. Carbon isotopic fractionation in lipids from methanotrophic bacteria: Relevance for interpretation of the geochemical record of biomarkers [J]. Geochimica et Cosmochimica Acta, 1994, 58:2 853-2 863.
[38] Hinrichs U, Hayers M, Sylva S P, et al. Methane-consuming archaebacteria in marine sediments [J].Nature, 1999, 398: 802-805.
[39] Hinrichs K U. A molecular recorder of methane hydrate destabilization[J]. Geochemistry Geophysics Geosystems,2001, 2(1):2000GC0001 118.
[40] Rohmer M, Bouvier-Nave P, Ourisson G. Distribution of hopanoid triterpenes in prokaryotes [J].Journal of General Microbiology, 1984, 130:1 137-1 150.
[41] Hinrichs K U, Hmelo L, Sylva S P. Molecular fossils record of elevated methane levels in late Pleistocene coastal waters[J].Science, 2003, 229:1 214-1 217.
[42] Summons R E, Powell T G. Chlorobiaceae in Palaeozoic seas revealed by biological markers, isotopes and geology [J].Nature, 1986, 319:763-765.[43] Summons R E, Powell T G. Identification of aryl isoprenoids in source rocks and crude oils: Biological markers for the green sulphur bacteria[J]. Geochimica et Cosmochimica Acta,1987, 51:557-566.
[44] Yu K, Fan P, Philp R P. Novel biomarkers found in South Florida basin [J].Organic Geochemistry, 1990, 15:433-438. 
[45] Grice K, Schaeffer P, Schwark L, et al. Changes in palaeoenvironmental conditions during deposition of Permian Kupferschiefer (Lower Rhine Basin, northwest Germany) inferred from molecular and isotopic compositions of biomarker components[J].Organic Geochemistry, 1997, 26: 677-690.
[46] Sinninghe D J S, Kock-van D A C, de Leeuw J W. Identification of long-chain isoprenoid alkylbenzenes in sediments and crude oils [J].Geochimica et Cosmochimica Acta, 1988, 52:2 671-2 677.
[47] Simonin P, Jurgens U J, Rohmer M. Bacterial triterpenoids of the hopane series from the prochlorophyte Prochlorothrix hollandica and their intracellular localization[J].European Journal of Biochemistry, 1996, 241:865-871.
[48] Brocks J J, Logan G A, Buick R, et al. Archean molecular fossils and the early rise of eukaryotes [J].Science, 1999, 285:1 033-1 036.
[49] Finlay B J. Global dispersal of free-living microbial Eukaryote species [J].Science, 2002,296:1 061-1 063.
[50] Whitman W, Coleman D C, Wiebe W J. Prokaryotes: The unseen majority [J].Proceedings of the National Academy of Sciences USA, 1998, 95(12):6 578-6 583.
[51] Fenchel T. Microbial behavior in a heterogeneous world [J].Science, 2002, 296:1 068-1 071.
[52] Hilkert A W, Douthitt C B, Schluter H J, et al. Isotope ratio monitoring gas chromatography/mass spectrometry of D/H by high temperature conversion isotope ratio mass spectrometry [J].Rapid Communications in Mass Spectrometry,1999,13:1 226-1 230.

[1] 蒲阳,张虎才,雷国良,常凤琴,杨明生,庞有智. 西北地区晚第四纪沉积地层一元正脂肪酸酰胺分布特征及古气候意义[J]. 地球科学进展, 2010, 25(5): 533-542.
[2] 党宏月;宋林生;李铁刚;秦蕴珊. 海底深部生物圈微生物的研究进展[J]. 地球科学进展, 2005, 20(12): 1306-1313.
[3] 赖旭龙. 古代生物分子与分子考古学[J]. 地球科学进展, 2001, 16(2): 163-171.
[4] 范璞,张柏生,于心科. 近代盐湖沉积物中的生物标志化合物[J]. 地球科学进展, 1994, 9(3): 6-17.
[5] 李任伟. 分子地层学[J]. 地球科学进展, 1992, 7(2): 78-.