Structural and functional changes with depth in microbial communities in a tropical malaysian peat swamp forest

Microbial Ecology

Volumn 57, Issue 3, 2009, Pages 402-412

  Jackson, Colin R ^a   Liew, Kong Cheng ^b   Yule, Catherine M ^b  

^a UNIVERSITY OF MISSISSIPPI   (United States)

^b MONASH UNIVERSITY MALAYSIA   (Malaysia)

Author keywords

[No Author keywords available]

Indexed keywords

ARCHAEAL RNA; BACTERIAL RNA; RNA 16S;

ARCHAEBACTERIUM; ARTICLE; BACTERIUM; CLASSIFICATION; DNA SEQUENCE; ECOSYSTEM; ENZYMOLOGY; GENE LIBRARY; GENETICS; MICROBIOLOGY; SEDIMENT; TREE; WETLAND;

ARCHAEA; BACTERIA; ECOSYSTEM; GENE LIBRARY; GEOLOGIC SEDIMENTS; RNA, ARCHAEAL; RNA, BACTERIAL; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; TREES; WETLANDS;

ACIDOBACTERIA; ARCHAEA; BACTERIA (MICROORGANISMS); CRENARCHAEOTA; PROKARYOTA;

EID: 62549137853     PISSN: 00953628     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00248-008-9409-4     Document Type: Article

References (49)

1. S Alvarez MC Guerrero 2000 Enzymatic activities associated with decomposition of particulate organic matter in two shallow ponds Soil Biol Biochem 32 1941 1951
2. JAR Anderson 1983
3. SM Barns SL Takala CR Kuske 1999 Wide distribution and diversity of members of the bacterial kingdom Acidobacterium in the environment Appl Environ Microbiol 65 1731 1737
4. SM Barns EC Cain L Sommerville CR Kuske 2007 Acidobacteria phylum sequences in uranium-contaminated subsurface sediments greatly expand the known diversity within the phylum Appl Environ Microbiol 73 3113 3116
5. N Basiliko JB Yavitt PM Dees SM Merkel 2003 Methane biogeochemistry and methanogen communities in two northern peatland ecosystems, New York State Geomicrobiol J 20 563 577
6. DH Buckley JR Graber TM Schmidt 1998 Phylogenetic analysis of nonthermophilic members of the Kingdom Crenarchaeota and their diversity and abundance in soils Appl Environ Microbiol 64 4333 4339
7. A Chao 1987 Estimating the population size for capture-recapture data with unequal catchability Biometrics 43 783 791
8. OC Chan X Yang Y Fu Z Feng L Sha P Casper X Zou 2006 16S rRNA gene analyses of bacterial community structures in the soils of evergreen broad-leaved forests in south-west China FEMS Microbiol Ecol 58 247 259
9. K-J Chin T Lukow R Conrad 1999 Effect of temperature on structure and function of the methanogenic archaeal community in an anoxic rice field soil Appl Environ Microbiol 65 2341 2349
10. SN Dedysh TA Pankratov SE Belova IS Kulichevskaya W Liesack 2006 Phylogenetic analysis and in situ identification of Bacteria community composition in an acidic Sphagnum peat bog Appl Environ Microbiol 72 2110 2117
11. C Dennis P Aldhous 2004 A tragedy with many players Nature 430 396 398
12. MJ Ferris G Muyzer DM Ward 1996 Denaturing gradient gel electrophoresis profiles of 16S rRNA-defined populations inhabiting a hot spring microbial mat community Appl Environ Microbiol 62 340 346
13. C Freeman G Liska NJ Ostle SE Jones MA Lock 1995 The use of fluorogenic substrates for measuring enzyme activity in peatlands Plant Soil 175 147 152
14. E Gorham 1991 Northern peatlands: role in the carbon cycle and probable responses to climate warming Ecol Appl 1 182 195
15. P Hugenholtz 2002 Exploring prokaryotic diversity in the genomic era Genome Biol 3 reviews0003.1 reviews0003.8
16. P Hugenholtz BM Goebel NR Pace 1998 Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity J Bacteriol 180 4765 4774
17. CR Jackson SC Vallaire 2007 Microbial activity and decomposition of fine particulate organic matter in a Louisiana cypress swamp J N Am Benthol Soc 26 742 752
18. CR Jackson CM Foreman RL Sinsabaugh 1995 Microbial enzyme activities as indicators of organic matter processing rates in a Lake Erie coastal wetland Freshwater Biol 34 329 342
19. CR Jackson HW Langner J Donahoe-Christiansen WP Inskeep TR McDermott 2001 Molecular analysis of microbial community structure in an arsenite-oxidizing acidic thermal spring Environ Microbiol 3 532 542
20. EF Jackson HL Echlin CR Jackson 2006 Changes in the phyllosphere community of the resurrection fern, Polypodium polypodioides, associated with rainfall and wetting FEMS Microbiol Ecol 58 236 246
21. Jacobs M (1988) The tropical rainforests: a first encounter. Springer, Berlin
22. PH Janssen 2006 Identifying the dominant soil bacterial taxa in libraries of 16S rRNA and 16S rRNA genes Appl Environ Microbiol 72 1719 1728
23. PH Janssen PS Yates BE Grinton PM Taylor M Sait 2002 Improved culturability of soil bacteria and isolation in pure culture of novel members of the divisions Acidobacteria, Actinobacteria, Proteobacteria, and Verrucomicrobia Appl Environ Microbiol 68 2391 2396
24. J Jauhiainen H Takahashi JEP Heikkinen PJ Martikainen H Vasanderet 2005 Carbon fluxes from a tropical peat swamp forest floor Glob Chang Biol 11 1788 1797
25. PF Kemp JY Aller 2004 Estimating prokaryotic diversity: when are 16S rDNA libraries large enough? Limnol Oceanogr Methods 2 114 125
26. OR Kotsyurbenko K-J Chin MV Glagolev S Stubner MV Simankova AN Nozhevnikova R Conrad 2004 Acetoclastic and hydrogenotrophic methane production and methanogenic populations in acidic West-Siberian peat bogs Environ Microbiol 6 1159 1173
27. W Ludwig O Strunk R Westram L Richter H Meier BA Yadhukumar T Lai S Steppi G Jobb W Förster I Brettske S Gerber AW Ginhart O Gross S Grumann S Hermann R Jost A König T Liss R Lüßmann M May B Nonhoff B Reichel R Strehlow A Stamatakis N Stuckmann A Vilbig M Lenke T Ludwig A Bode K-H Schleifer 2004 ARB: a software environment for sequence data Nucleic Acids Res 32 1363 1371
28. T Lueders M Friedrich 2000 Archaeal population dynamics during sequential reduction processes in rice field soil Appl Environ Microbiol 66 2732 2742
29. E Maltby CP Immirzi 1993 Carbon dynamics in peatlands and other wetland soils-regional and global perspectives Chemosphere 27 999 1023
30. WB McGill CV Cole 1981 Comparative aspects of cycling of organic C, N, S, and P through soil organic matter Geoderma 26 267 286
31. T Ochsenreiter D Selesi A Quaiser L Bonch-Osmolovskaya C Schleper 2003 Diversity and abundance of Crenarchaeota in terrestrial habitats studied by 16S RNA surveys and real time PCR Environ Microbiol 5 787 797
32. LP Olander PM Vitousek 2000 Regulation of soil phosphatase and chitinase activity by N and P availability Biogeochem 49 175 190
33. DK Oline SK Schmidt MC Grant 2006 Biogeography and landscape-scale diversity of the dominant Crenarchaeota of soil Microb Ecol 52 480 490
34. SE Page F Siegert JO Rieley H-DV Boehm A Jaya S Limin 2002 The amount of carbon released from peat and forest fires in Indonesia during 1997 Nature 420 61 65
35. SE Page RAJ Wust D Weiss JO Rieley W Shotyk S Limin 2004 A record of late Pleistocene and Holocene carbon accumulation and climate change from an equatorial peat bog (Kalimantan, Indonesia): implications for past, present and future carbon dynamics J Quat Sci 19 625 635
36. A Pind C Freeman MA Lock 1994 Enzymic degradation of phenolic materials in peatlands-measurement of phenol oxidase activity Plant Soil 159 227 231
37. RG Qualls BL Haines 1990 The influence of humic substances on the aerobic decomposition of submerged leaf litter Hydrobiology 206 133 138
38. JO Rieley AA Ahmad-Shah MA Brady 1996
39. I Sundh M Nilsson P Borga 1997 Variation in microbial community structure in two boreal peatlands as determined by analysis of phospholipid fatty acid profiles Appl Environ Microbiol 63 1476 1482
40. C Thawai S Tanasupawat T Itoh K Suwanborirux K Suzuki T Kudo 2005 Micromonospora eburnea sp. nov., isolated from a Thai peat swamp forest Int J Syst Evol Microbiol 55 417 422
41. GR van der Werf JT Randerson GJ Collatz L Giglio PS Kasibhatla A Avelino SC Olsen ES Kasischke 2004 Continental-scale partitioning of fire emissions during the 1997 to 2001 El Ninõ/La Ninã Period Science 303 73 76
42. H Voglmayr CM Yule 2006 Polyancora globosa gen. sp. nov., an aeroaquatic fungus from Malaysian peat swamp forests Mycol Res 110 1242 1252
43. KM Wantzen CM Yule JM Mathooko CM Pringle 2007
44. A Wells CM Yule 2008 The caddisflies (Trichoptera) from a tropical peat swamp in Selangor, Peninsular Malaysia, including two new species Aquatic Insects 30 69 76
45. Whitmore TC (1984) Tropical rainforests of the far east. Clarendon, Oxford
46. Whitten T, Damanik SJ, Anwar J, Hisyam N (2000) The ecology of Sumatra. Periplus, Singapore
47. AL Wright KR Reddy 2001 Phosphorus loading effects on extracellular enzyme activity in Everglades wetland soils Soil Sci Soc Am J 65 588 595
48. X Xie S Xiao Z He J Liu G Qiu 2007 Microbial populations in acid mineral bioleaching systems of Tong Shankou Copper Mine, China J Appl Microbiol 103 1227 1238
49. T Zhang HHP Fang 2000 Digitization of DGGE (denaturing gradient gel electrophoresis) profile and cluster analysis of microbial communities Biotechnol Lett 22 399 405