title: Microbial community structures in anoxic freshwater lake sediment along a metal contamination gradient.
abstract: Contamination, such as by heavy metals, has frequently been implicated in altering microbial community structure. However, this association has not been extensively studied for anaerobic communities, or in freshwater lake sediments. We investigated microbial community structure in the metal-contaminated anoxic sediments of a eutrophic lake that were impacted over the course of 80 years by nearby zinc-smelting activities. Microbial community structure was inferred for bacterial, archaeal and eukaryotic populations by evaluating terminal restriction fragment length polymorphism (TRFLP) patterns in near-surface sediments collected in triplicate from five areas of the lake that had differing levels of metal contamination. The majority of the fragments in the bacterial and eukaryotic profiles showed no evidence of variation in association with metal contamination levels, and diversity revealed by these profiles remained consistent even as metal concentrations varied from 3000 to 27,000 mg kg(-1) total Zn, 0.125 to 11.2 μ pore water Zn and 0.023 to 5.40 μM pore water As. Although most archaeal fragments also showed no evidence of variation, the prevalence of a fragment associated with mesophilic Crenarchaeota showed significant positive correlation with total Zn concentrations. This Crenarchaeota fragment dominated the archaeal TRFLP profiles, representing between 35% and 79% of the total measured peak areas. Lake DePue 16S rRNA gene sequences corresponding to this TRFLP fragment clustered with anaerobic and soil mesophilic Crenarchaeota sequences. Although Crenarchaeota have been associated with metal-contaminated groundwater and soils, this is a first report (to our knowledge) documenting potential increased prevalence of Crenarchaeota associated with elevated levels of metal contamination.
authors.affiliation: Department of Civil and Environmental Engineering, University of Washington, Seattle, WA 98195-2700, USA. hgough@u.washington.edu
authors.forename: Heidi L
authors.initials: HL
authors.lastname: Gough
authors.forename: David A
authors.initials: DA
authors.lastname: Stahl
mesh_terms: D001105:Archaea / Q000145:classification / Q000235:genetics; D001419:Bacteria / Q000145:classification / Q000235:genetics; D044822:Biodiversity; D000460:Chlorophyta / Q000235:genetics; D019615:Crenarchaeota / Q000145:classification / Q000235:genetics; D030541:Databases, Genetic; D004141:Dinoflagellida / Q000235:genetics; D019015:Geologic Sediments / Q000737:chemistry / Q000382:microbiology; D060106:Lakes / Q000737:chemistry / Q000382:microbiology; D008969:Molecular Sequence Data; D010802:Phylogeny; D012150:Polymorphism, Restriction Fragment Length; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D015032:Zinc / Q000032:analysis*
chemical_list: D012336:RNA, Ribosomal, 16S; D015032:Zinc
references.citation: Appl Environ Microbiol. 1981 Aug;42(2):252-8
references.pmid: 16345825
references.citation: Appl Environ Microbiol. 1998 Nov;64(11):4333-9
references.pmid: 9797286
references.citation: Environ Sci Pollut Res Int. 2006 Oct;13(6):362-78
references.pmid: 17120826
references.citation: Appl Environ Microbiol. 1999 May;65(5):2256-9
references.pmid: 10224032
references.citation: Bioresour Technol. 2002 Sep;84(2):159-63
references.pmid: 12139332
references.citation: Nucleic Acids Res. 1997 May 1;25(9):1870-1
references.pmid: 9108176
references.citation: Microb Ecol. 2006 Feb;51(2):220-31
references.pmid: 16463134
references.citation: Nature. 2004 Feb 26;427(6977):829-32
references.pmid: 14985759
references.citation: Environ Monit Assess. 1987 Mar;8(2):163-80
references.pmid: 24253893
references.citation: Curr Opin Microbiol. 2005 Dec;8(6):638-42
references.pmid: 16236543
references.citation: Environ Geochem Health. 2003 Jun;25(2):247-66
references.pmid: 12901169
references.citation: FEMS Microbiol Ecol. 2003 Feb 1;43(1):13-9
references.pmid: 19719692
references.citation: FEMS Microbiol Ecol. 2008 Nov;66(2):331-42
references.pmid: 18754782
references.citation: Environ Microbiol. 2008 Apr;10(4):1080-6
references.pmid: 18215160
references.citation: Appl Environ Microbiol. 1997 Apr;63(4):1498-504
references.pmid: 9097447
references.citation: Appl Environ Microbiol. 1977 Feb;33(2):275-81
references.pmid: 848951
references.citation: Proc Natl Acad Sci U S A. 1992 Jun 15;89(12):5685-9
references.pmid: 1608980
references.citation: Nucleic Acids Res. 2004 Feb 25;32(4):1363-71
references.pmid: 14985472
references.citation: FEMS Microbiol Ecol. 2007 Jun;60(3):442-8
references.pmid: 17391330
references.citation: Microb Ecol. 2003 Feb;45(2):191-202
references.pmid: 12545313
references.citation: Appl Environ Microbiol. 1981 Dec;42(6):1029-36
references.pmid: 16345898
references.citation: Appl Environ Microbiol. 1996 Aug;62(8):2970-7
references.pmid: 16535383
references.citation: Proc Natl Acad Sci U S A. 2002 May 28;99(11):7658-62
references.pmid: 12032339
references.citation: Appl Environ Microbiol. 2000 Oct;66(10):4547-54
references.pmid: 11010915
references.citation: Appl Environ Microbiol. 1997 Mar;63(3):1178-81
references.pmid: 9055434
references.citation: Environ Pollut. 2006 Nov;144(1):119-26
references.pmid: 16513232
references.citation: Appl Environ Microbiol. 1999 Aug;65(8):3293-7
references.pmid: 10427009
references.citation: Appl Environ Microbiol. 1983 May;45(5):1586-91
references.pmid: 16346294
references.citation: Environ Microbiol. 2009 Mar;11(3):687-99
references.pmid: 19207564
references.citation: Appl Environ Microbiol. 1996 Jan;62(1):300-3
references.pmid: 16535220
references.citation: PLoS Biol. 2006 Apr;4(4):e95
references.pmid: 16533068
references.citation: Appl Environ Microbiol. 2008 May;74(10):3112-20
references.pmid: 18378662
references.citation: Environ Toxicol Chem. 2001 Dec;20(12):2662-9
references.pmid: 11764146
references.citation: Can J Microbiol. 1981 Feb;27(2):198-205
references.pmid: 7214238
references.citation: Nature. 2005 Sep 22;437(7058):543-6
references.pmid: 16177789
references.citation: Appl Environ Microbiol. 1998 Jan;64(1):238-45
references.pmid: 16349483
references.citation: Nature. 1996 Dec 5;384(6608):420
references.pmid: 8945466
references.citation: FEMS Microbiol Ecol. 2003 Feb 1;43(1):1-11
references.pmid: 19719691
references.citation: FEMS Microbiol Ecol. 1999 Nov 1;30(3):237-251
references.pmid: 10525180
references.citation: FEMS Microbiol Ecol. 2002 Dec 1;42(3):431-40
references.pmid: 19709302
references.citation: J Bacteriol. 1990 Feb;172(2):762-70
references.pmid: 1688842
references.citation: J Microbiol Methods. 2000 Apr;40(2):153-62
references.pmid: 10699671