Bacterial communities in sediments of the shallow Lake Dongping in China

Aas, 2005, Defining the normal bacterial flora of the oral cavity, J Clin Microbiol, 43, 5721, 10.1128/JCM.43.11.5721-5732.2005

Blackwood, 2007, Interpreting ecological diversity indices applied to terminal restriction fragment length polymorphism data: insights from simulated microbial communities, Appl Environ Microbiol, 73, 5276, 10.1128/AEM.00514-07

Coolen, 2002, Ongoing modification of Mediterranean Pleistocene sapropels mediated by prokaryotes, Science, 296, 2407, 10.1126/science.1071893

D’Angelo, 1994, Diagenesis of organic matter in a Wetland receiving hypereutrophic lake water: I. Distribution of dissolved nutrients in the soil and water column, J Environ Qual, 23, 928, 10.2134/jeq1994.00472425002300050013x

Dojka, 1998, Microbial diversity in a hydrocarbon- and chlorinated-solvent-contaminated aquifer undergoing intrinsic bioremediation, Appl Environ Microbiol, 64, 3869, 10.1128/AEM.64.10.3869-3877.1998

Doricha, 1984, Availability of phosphorus to algae from eroded soil fractions, Agr Ecosyst Environ, 11, 253, 10.1016/0167-8809(84)90034-3

Dykhuizen, 1998, Santa Rosalia revisited: why are there so many species of bacteria?, Antonie Van Leeuwenhoek, 73, 25, 10.1023/A:1000665216662

Felske, 2000, Response of a soil bacterial community to grassland succession as monitored by 16S rRNA levels of the predominant ribotypes, Appl Environ Microbiol, 66, 3998, 10.1128/AEM.66.9.3998-4003.2000

Fleming, 2006, Mercury methylation from unexpected sources: molybdate-inhibited freshwater sediments and an iron-reducing bacterium, Appl Environ Microbiol, 72, 457, 10.1128/AEM.72.1.457-464.2006

Gachter, 1988, Contribution of bacteria to release and fixation of phosphorus in lake sediments, Limnol Oceanogr, 33, 1542, 10.4319/lo.1988.33.6_part_2.1542

Garrity, 2004, Taxonomic Outline of the Prokaryotes. Bergey’s Manual of Systematic Bacteriology

Haller, 2011, Copmpsition of bacterial archaeal communities in freshwater sediments with different contamination levels (Lake Geneva, Switzerland), Water Res, 45, 1213, 10.1016/j.watres.2010.11.018

Hart, 1994, Methods of Soil Analysis, 985

Jiang, 2002, Analysis of the water environment in Dong-ping lake and its vicinity, Trans Oceanol Limnol, 4, 12

Jiang, 2006, Microbial diversity in water and sediment of Lake Chaka, an athalassohaline lake in northwestern China, Appl Environ Microbiol, 72, 3832, 10.1128/AEM.02869-05

Jin, 2005, The adsorption of phosphate on different trophic lake sediments, Colloids Surfaces A, 254, 241, 10.1016/j.colsurfa.2004.11.016

Jongman, 1995, Data Analysis in Community and Landscape Ecology, 10.1017/CBO9780511525575

Jurgens, 2000, Identification of novel Archaea in bacterioplankton of a boreal forest lake by phylogenetic analysis and fluorescent in situ hybridization, FEMS Microbiol Ecol, 34, 45

Karr, 2005, Diversity and distribution of sulphate-reducing bacteria in permanently frozen Lake Fryxell, McMurdo Dry Valleys, Antarctica, Appl Environ Microbiol, 71, 6353, 10.1128/AEM.71.10.6353-6359.2005

Kemp, 2004, Estimating prokaryotic diversity: when are 16S rDNA libraries large enough?, Limnol Oceanogr, 2, 114, 10.4319/lom.2004.2.114

Kirchman, 2002, The ecology of Cytophaga-Flavobacteria in aquatic environments, FEMS Microbiol Ecol, 39, 91

Lane, 1991, Nucleic Acid Techniques in Bacterial Systematics, 115

Lehours, 2007, Phlogenetic diversity of archaea and bacteria in the anoxic zone of a meromictic lake (Lake Pavin, France), Appl Environ Microbiol, 73, 2016, 10.1128/AEM.01490-06

Li, 2008, Change of bacterial communities in sediments along Songhua River in Northeastern China after a nitrobenzene pollution event, FEMS Microbiol Ecol, 65, 494, 10.1111/j.1574-6941.2008.00540.x

Lindstrom, 2005, Distribution of typical freshwater bacterial groups is associated with pH, temperature, and lake water retention time, Appl Environ Microbiol, 71, 8201, 10.1128/AEM.71.12.8201-8206.2005

Liu, 1997, Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA, Appl Environ Microbiol, 63, 4516, 10.1128/AEM.63.11.4516-4522.1997

Lu, 2006, Structure and activity of bacterial community inhabiting rice roots and the rhizosphere, Environ Microbiol, 8, 1351, 10.1111/j.1462-2920.2006.01028.x

Lueders, 2006, Identification of bacterial micropredators distinctively active in a soil microbial food web, Appl Environ Microbiol, 72, 5342, 10.1128/AEM.00400-06

Lukow, 2000, Use of the T-RFLP technique to assess spatial and temporal changes in the bacterial community structure within an agricultural soil planted with transgenic and non-transgenic potato plants, FEMS Microbiol Ecol, 32, 241, 10.1111/j.1574-6941.2000.tb00717.x

Maidak, 2000, The RDP (Ribosomal Database Project) continues, Nucleic Acid Res, 28, 173, 10.1093/nar/28.1.173

Mallet, 2004, Microbial population dynamics in the sediments of a eutrophic lake (Aydat, France) and characterization of some heterotrophic bacterial isolates, Microb Ecol, 48, 66, 10.1007/s00248-003-2017-4

Meyers, 1993, Lacustrine organic geochemistry. An overview of indicators of organic matter sources and diagenesis in lake sediments, Org Geochem, 20, 867, 10.1016/0146-6380(93)90100-P

Nealson, 1997, Sediment bacteria: who’s there, what are they doing, and what’s new?, Annu Rev Earth Planet Sci, 25, 403, 10.1146/annurev.earth.25.1.403

Nelson, 1996, Methods of Soil Analyses, Part 3, Chemical Methods, 961

Nelson, 2007, Bacterial diversity and distribution in the holocene sediments of a northern temperate lake, Microb Ecol, 54, 252, 10.1007/s00248-006-9195-9

Olsen, 1982, Methods of Soil Analyses, Part 2, Chemical and Microbiological Properties, 403

Ott, 2004, Reduction in diversity of the colonic mucosa associated bacterial microflora in patients with active inflammatory bowel disease, Gut, 53, 685, 10.1136/gut.2003.025403

Percent, 2008, Bacterial community structure of acid-impacted lakes: what controls diversity?, Appl Environ Microbiol, 74, 1856, 10.1128/AEM.01719-07

Riviere, 2009, Towards the definition of a core of microorganisms involved in anaerobic digestion of sludge, ISME J, 3, 700, 10.1038/ismej.2009.2

Röske, 2008, Characterization of the bacterial population and chemistry in the bottom sediment of a laterally subdivided drinking water reservoir system, Limnologica, 38, 367, 10.1016/j.limno.2008.06.005

Schallenberg, 1993, The ecology of sediment bacteria in lakes and comparisons with other aquatic ecosystems, Ecology, 74, 919, 10.2307/1940816

Spring, 2000, Identification and characterization of ecologically significant prokaryotes in the sediment of freshwater lakes: molecular and cultivation studies, FEMS Microbiol Rev, 24, 573, 10.1111/j.1574-6976.2000.tb00559.x

Tang, 2009, Characterization of bacterial communities associated with organic aggregates in a large, shallow, eutrophic freshwater lake (Lake Taihu, China), Microb Ecol, 58, 307, 10.1007/s00248-008-9482-8

Ter Braak, 1988, Advances in Ecological Research, 271

Thomas, 2000, BIO-DAP, Ecological Diversity and its Measurement

Vergin, 2001, Streamlined method to analyze 16S rRNA gene clone libraries, BioTechniques, 30, 938, 10.2144/01305bm03

Wang, 2003, Biogeochemical cycling of iron at lake water sediment interface and its influence on tracemetals, Geol Geochem, 31, 63

Wang, 2006, Phosphorus fractions and its release in the sediments from the shallow lakes in the middle and lower reaches of Yangtze River area in China, Colloids and Surfaces A: Physicochemical and Engineering Aspects, 273, 109, 10.1016/j.colsurfa.2005.08.015

Wang, 2007, Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy, Appl Environ Microbiol, 73, 5261, 10.1128/AEM.00062-07

Wittebolle, 2009, Initial community evenness favours functionality under selective stress, Nature, 458, 623, 10.1038/nature07840