HEAD I M, SAUNDERS J R, PICKUP R W. Microbial evolution, diversity, and ecology: a decade of ribosomal RNA analysis of uncultivated microorganisms[J]. Microb Ecol, 1998, 35(1):1-21.
WANG G H, DONG J D, LI X, et al. The bacterial diversity in surface sediment from the South China Sea[J]. Acta Oceanol Sinica, 2010,29(4):98-105.
[4]
CHANG Y L, WANG E T, SUI X H, et al. Molecular diversity and phylogeny of rhizobia associated with Lablab purpureus (Linn.) grown in southern China[J]. Syst Appl Microbiol, 2011, 34(4):276-284.
PACE N R. A molecular view of microbial diversity and the biosphere[J]. Science, 1997, 276(5313):734-740.
[7]
VELJI M I, ALBRIGHT L J. Microscopic enumeration of attached marine bacteria of seawater, marine sediment, fecal matter, and kelp blade samples following pyrophosphate and ultrasound treatments[J]. Can J Microbiol, 1986, 32(2):121-126.
[8]
SCHALLENBERG M, KALFF J. Solutions to problems in enumerating sediment bacteria by direct counts[J]. Appl Environ Microbiol, 1989, 55(5):1214-1219.
[9]
GORDON D A, GIOVANNONI S J. Detection of stratified microbial populations related to Chlorobium and Fibrobacter species in the Atlantic and Pacific Oceans[J]. Appl Environ Microbiol, 1996, 62(4):1171-1177.
[10]
GIOVANNONI S J. The polymerase chain reaction[M]//STACKEBRANDT E, GOODFELLOW M. Nucleic Acid Techniques in Bacterial Systematics. New York:John Wiley & Sons, Inc. ,1991: 177-203.
[11]
ACHENBACH L, WOESE C. 16S and 23S rRNA-like primers[K]//SOWER K R, SCHREIER H J. A Laboratory Manual.Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press, 1995: 521-523.
[12]
MAIDAK B L, OLSEN G J. The RDP (ribosomal database project)[J]. Nucleic Acids Research, 1997, 25(1):109-111.
[13]
KIMURA M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences[J]. J Mol Evol, 1980, 16(2):111-120.
[14]
SAITOU N, NEI M. The neighbor-joining method: a new method for reconstructing phylogenetic trees[J]. Mol Biol Evol, 1987, 4(4):406-425.
[15]
BAKERMANS C, MADSEN E L. Diversity of 16S rDNA and naphthalene dioxygenase genes from coal-tar-waste-contaminated[J]. Microb Ecol, 2002, 44(2):95-106.
[16]
GLOCKNER F O, FUCHS B M, AMANN R. Bacterioplankton compositions of lakes and oceans: a first comparison based on fluorescence in situ hybridization[J]. Appl Environ Microbiol, 1999, 65(8):3721-3726.
RAVENSCHLG K, SAHM K, AMANN R. Quantitative molecular analysis of the microbial community in marine arctic sediments (Svalbard)[J]. Appl Environ Microbiol, 2001, 67(1):387-395.
[20]
WEBSTER N S, WILSON K J, BLACKALL L L, et al. Phylogenetic diversity of bacteria associated with the marine sponge Rhopaloeides odorabile[J]. Appl Environ Microbiol, 2001, 67(1):434-444.
[21]
ADELEKE A, PRUCKLER J, BENSON R, et al. Legionella-like amebal pathogens-phylogenetic status and possible role in respiratory disease[J]. Emerging Infect Dis, 1996, 2(3):225-230.
[22]
FIERER N, JACKSON R B. The diversity and biogeography of soil bacterial communities[J]. Proc Natl Acad Sci USA, 2006, 103(3):626-631.
[23]
LI L, KATO C, HORIKOSHI K. Bacterial diversity in deep-sea sediments from different depths[J]. Biodivers Conserv, 1999, 8(5):659-677.
[24]
BAIK K S, PARK S C, KIM E M, et al. Diversity of bacterial community in freshwater of Woopo wetland[J]. J Microbiol, 2008, 66(6):647-655.
[25]
LI H, YU Y, LUO W, et al. Bacterial diversity in surface sediments from the Pacific Arctic Ocean[J]. Extremophiles, 2009, 13(2):233-46.
[26]
TOBLER D J, BENNING L G. Bacterial diversity in five Icelandic geothermal waters: temperature and sinter growth rate effects[J]. Extremophiles, 2011, 15(4):473-485.
[27]
LU J, DOMINGO J W S, LAMENDELLA R, et al. Phylogenetic diversity and molecular detection of bacteria in gull feces[J]. Appl Environ Microbiol, 2008, 74(13): 3969-3976.
[28]
SEKIGUCHI H, KOSHIKAWA H, HIROKI M, et al. Bacterial distribution and phylogenetic diversity in the Changjiang estuary before the construction[J]. Microb Ecol, 2002, 43(1):82-91.
[29]
PORTER K G, FEIG Y C. The use of DAPI for identifying and counting aquatic microflora[J]. Limnol Oceanogr, 1980, 25(5):943-948.
[30]
Protocols for the Joint Global Ocean Flux studies (JGOFS) core measurements[R]//JGOFS REPORT No.19. JGOFS International Project Office Center for Studies of Environment and Resources. Bergen, Norway Scor, Protocol for the JGOFS core measurements. June 1996.
[31]
THOMPSON J D, HIGGINS D G. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice[J]. Nucleic Acids Research, 1994, 22(22):4673-4680.
[32]
STACKEBRANDT E, GOEBEL B M. Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology[J]. Int J Syst Bacteriol, 1994, 44(4): 846-849.
[33]
RAPPE M S, KEMP P F, GIOVANNONI S J. Phylogenetic diversity of marine coastal picoplankton 16S rRNA genes cloned from the continental shelf off Cape Hatteras, North Carolina[J]. Limnol Oceanogr, 1997, 42(5):811-826.
[34]
HOVANEC T A, DELONG E F. Comparative analysis of nitrifying bacteria associated with freshwater and marine aquaria[J]. Appl Environ Microbiol, 1996, 62(8):2888-2896.
[35]
VOYTEK M A. WARD B B. Detection of ammonium-oxidizing bacteria of the beta-subclass of the class proteobacteria in aquatic samples with the PCR[J]. Appl Environ Microbiol, 1995, 61(4):1444-1450.
BOUVIER T C, GIORGIO P A. Compositional changes in free-living bacterial communities along a salinity gradient in two temperate estuaries[J]. Limnol Oceanogr, 2002, 47(2):453-470.
[38]
KAPLEY A, SIDDIQUI S, MISRA K, et al. Preliminary analysis of bacterial diversity associated with the Porites coral from the Arabian sea[J]. World J Microbiol Biotechnol, 2007, 23(7):923-930.
[39]
DOUCETTE G J, TRICK C G. Characterization of bacteria associated with different isolates of Alexandrium tamarense[M]//LASSUS P, ARZUL G, ERARD E, et al.Harmful Marine Algal Blooms. Paris:Lavoisier Sci Publ, 1995.
[40]
MA Y, WANG L, QIAN L M. Community structure of β-proteobacterial ammonia-oxidizing bacteria in prawn farm sediment[J]. Prog Nat Sci, 2008, 18(6):679-684.
