title: Stratified communities of active archaea in shallow sediments of the Pearl River Estuary, Southern China.
abstract: Marine subsurface sediments represent a novel archaeal biosphere with unknown physiology. To get to know the composition and ecological roles of the archaeal communities within the sediments of the Pearl River Estuary, Southern China, the diversity and vertical distribution of active archaea in a sediment core were characterized by 16S rRNA phylogenetic analysis of clone libraries derived from RNA. In this study, the archaeal diversity above, within, and beneath the sulfate-methane transition zone (SMTZ) in the Pearl River Estuary sediment core was described. The majority of the clones obtained from the metabolically active fraction of the archaeal community were most closely related to miscellaneous crenarchaeotal group and terrestrial miscellaneous euryarchaeotal group. Notably, although the Pearl River Estuary sediment belong to high methane and high organic carbon environment, sequences affiliated with methanotrophic and methanogenic archaea were detected as minor group in 16S rRNA clone libraries. No obvious evidence suggested that these unknown archaeal phylotypes related directly to anaerobic oxidation of methane in SMTZ. This is the first phylogenetic analysis of the metabolically active fraction of the archaeal community in the coastal sediment environments.
authors: Research Institute of Engineering and Technology, Yunnan University, Kunming 650091, China. powercjq@gmail.com
authors: Jinquan
authors: J
authors: Chen
authors: Fengping
authors: F
authors: Wang
authors: Lijing
authors: L
authors: Jiang
authors: Xijie
authors: X
authors: Yin
authors: Xiang
authors: X
authors: Xiao
mesh_terms: D000693:Anaerobiosis; D001105:Archaea / Q000145:classification* / Q000235:genetics* / Q000502:physiology; D044822:Biodiversity; D002681:China; D016000:Cluster Analysis; D019641:DNA, Archaeal / Q000737:chemistry / Q000235:genetics; D004275:DNA, Ribosomal / Q000737:chemistry / Q000235:genetics; D063366:Estuaries; D019015:Geologic Sediments / Q000382:microbiology*; D008697:Methane / Q000378:metabolism; D008969:Molecular Sequence Data; D010802:Phylogeny; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D045483:Rivers / Q000382:microbiology*; D017422:Sequence Analysis, DNA
chemical_list: D019641:DNA, Archaeal; D004275:DNA, Ribosomal; D012336:RNA, Ribosomal, 16S; D008697:Methane
references: J Microbiol. 2006 Oct;44(5):566-71
references: 17082752
references: Nature. 2000 Oct 5;407(6804):623-6
references: 11034209
references: Appl Environ Microbiol. 2006 Jul;72(7):4596-603
references: 16820449
references: Science. 2004 Dec 24;306(5705):2216-21
references: 15618510
references: FEMS Microbiol Ecol. 2006 Jul;57(1):55-66
references: 16819950
references: FEMS Microbiol Ecol. 1999 Nov 1;30(3):253-260
references: 10525181
references: Proc Natl Acad Sci U S A. 2006 Feb 21;103(8):2815-20
references: 16477011
references: Appl Environ Microbiol. 1993 May;59(5):1303-9
references: 16348926
references: Mar Pollut Bull. 2003;47(1-6):30-6
references: 12787594
references: Microb Ecol. 2005 Oct;50(3):375-84
references: 16254761
references: Proc Natl Acad Sci U S A. 2006 Mar 7;103(10):3846-51
references: 16505362
references: Nucleic Acids Res. 1997 Dec 15;25(24):4876-82
references: 9396791
references: Appl Environ Microbiol. 2009 Mar;75(6):1487-99
references: 19139232
references: Appl Environ Microbiol. 2001 Nov;67(11):5143-53
references: 11679338
references: Proc Natl Acad Sci U S A. 2002 May 28;99(11):7663-8
references: 12032340
references: Appl Environ Microbiol. 2001 Dec;67(12):5750-60
references: 11722932
references: Nature. 2008 Aug 21;454(7207):991-4
references: 18641632
references: Nature. 1992 Mar 12;356(6365):148-9
references: 1545865
references: Environ Microbiol. 2002 May;4(5):296-305
references: 12080959
references: Appl Environ Microbiol. 2001 Aug;67(8):3618-29
references: 11472939
references: Environ Microbiol. 2005 Jun;7(6):806-18
references: 15892700
references: Proc Natl Acad Sci U S A. 1992 Jun 15;89(12):5685-9
references: 1608980
references: Appl Environ Microbiol. 2003 Dec;69(12):7224-35
references: 14660370
references: Astrobiology. 2005 Apr;5(2):141-53
references: 15815165
references: Nature. 2005 Sep 22;437(7058):543-6
references: 16177789
references: Extremophiles. 2001 Dec;5(6):385-92
references: 11778839
references: FEMS Microbiol Ecol. 2000 Oct 1;34(1):45-56
references: 11053735
references: Appl Environ Microbiol. 1996 Feb;62(2):316-22
references: 8593035
references: Mol Biol Evol. 2007 Aug;24(8):1596-9
references: 17488738
references: Appl Environ Microbiol. 1999 Oct;65(10):4375-84
references: 10508063
references: Science. 2002 Mar 15;295(5562):2067-70
references: 11896277
references: FEMS Microbiol Ecol. 2007 Mar;59(3):611-21
references: 17059478
references: Environ Microbiol. 2006 Oct;8(10):1783-96
references: 16958759
references: FEMS Microbiol Ecol. 2005 Feb 1;51(3):341-52
references: 16329882
references: FEMS Microbiol Ecol. 2010 Jun;72(3):429-44
references: 20370830
references: Appl Environ Microbiol. 2001 Apr;67(4):1646-56
references: 11282617
references: Appl Environ Microbiol. 2005 Jan;71(1):467-79
references: 15640223
references: Antonie Van Leeuwenhoek. 2011 May;99(4):739-51
references: 21229314
references: Appl Environ Microbiol. 1993 Aug;59(8):2594-601
references: 16349018
references: Proc Natl Acad Sci U S A. 1998 Jun 9;95(12):6578-83
references: 9618454