Estimating and comparing the diversity of marine actinobacteria

被引:93
作者
Stach, JEM [1 ]
Bull, AT [1 ]
机构
[1] Univ Kent, Res Sch Biosci, Canterbury CT1 7NJ, Kent, England
来源
ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY | 2005年 / 87卷 / 01期
基金
英国自然环境研究理事会;
关键词
16S rDNA; actinobacteria; diversity; estimation; marine; OTU; phylogeny;
D O I
10.1007/s10482-004-6524-1
中图分类号
Q93 [微生物学];
学科分类号
071005 ; 100705 ;
摘要
This paper reviews the application of species richness estimators to microbial diversity data and describes phylogenetic approaches to comparing microbial communities. The techniques are demonstrated using a community of marine actinobacteria. Results demonstrate that marine environments harbour massive actinobacterial diversity. Furthermore, these predictions are likely to be severe underestimates due to the use of arbitrary OTU definitions.
引用
收藏
页码:3 / 9
页数:7
相关论文
共 24 条
[1]  
Amann R., 1994, ASM News (Washington), V60, P360
[2]   ESTIMATING THE POPULATION-SIZE FOR CAPTURE RECAPTURE DATA WITH UNEQUAL CATCHABILITY [J].
CHAO, A .
BIOMETRICS, 1987, 43 (04) :783-791
[3]   ESTIMATING THE NUMBER OF CLASSES VIA SAMPLE COVERAGE [J].
CHAO, A ;
LEE, SM .
JOURNAL OF THE AMERICAN STATISTICAL ASSOCIATION, 1992, 87 (417) :210-217
[4]   The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy [J].
Cole, JR ;
Chai, B ;
Marsh, TL ;
Farris, RJ ;
Wang, Q ;
Kulam, SA ;
Chandra, S ;
McGarrell, DM ;
Schmidt, TM ;
Garrity, GM ;
Tiedje, JM .
NUCLEIC ACIDS RESEARCH, 2003, 31 (01) :442-443
[5]   Estimating prokaryotic diversity and its limits [J].
Curtis, TP ;
Sloan, WT ;
Scannell, JW .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2002, 99 (16) :10494-10499
[6]   Empirical and theoretical bacterial diversity in four Arizona soils [J].
Dunbar, J ;
Barns, SM ;
Ticknor, LO ;
Kuske, CR .
APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 2002, 68 (06) :3035-3045
[7]  
Fenical W, 1999, MONSOONS MICROBES UN
[8]   Analysis of actinomycete communities by specific amplification of genes encoding 16S rRNA and gel-electrophoretic separation in denaturing gradients [J].
Heuer, H ;
Krsek, M ;
Baker, P ;
Smalla, K ;
Wellington, EMH .
APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 1997, 63 (08) :3233-3241
[9]   Counting the uncountable: Statistical approaches to estimating microbial diversity [J].
Hughes, JB ;
Hellmann, JJ ;
Ricketts, TH ;
Bohannan, BJM .
APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 2001, 67 (10) :4399-4406
[10]   Relationship of 16S rRNA sequence similarity to DNA hybridization in prokaryotes [J].
Keswani, J ;
Whitman, WB .
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 2001, 51 :667-678