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A comparison of primer sets for detecting 16S rRNA and hydrazine oxidoreductase genes of anaerobic ammonium-oxidizing bacteria in marine sediments
Li, M; Hong, YG; Klotz, MG; Gu, JD; jdgu@hkucc.hku.hk
2010
Source PublicationAPPLIED MICROBIOLOGY AND BIOTECHNOLOGY
ISSN0175-7598
Volume86Issue:2Pages:781-790
AbstractPublished polymerase chain reaction primer sets for detecting the genes encoding 16S rRNA gene and hydrazine oxidoreductase (hzo) in anammox bacteria were compared by using the same coastal marine sediment samples. While four previously reported primer sets developed to detect the 16S rRNA gene showed varying specificities between 12% and 77%, an optimized primer combination resulted in up to 98% specificity, and the recovered anammox 16S rRNA gene sequences were > 95% sequence identical to published sequences from anammox bacteria in the Candidatus "Scalindua" group. Furthermore, four primer sets used in detecting the hzo gene of anammox bacteria were highly specific (up to 92%) and efficient, and the newly designed primer set in this study amplified longer hzo gene segments suitable for phylogenetic analysis. The optimized primer set for the 16S rRNA gene and the newly designed primer set for the hzo gene were successfully applied to identify anammox bacteria from marine sediments of aquaculture zone, coastal wetland, and deep ocean where the three ecosystems form a gradient of anthropogenic impact. Results indicated a broad distribution of anammox bacteria with high niche-specific community structure within each marine ecosystem.
Department[Li, Meng; Gu, Ji-Dong] Univ Hong Kong, Sch Biol Sci, Div Microbiol, Hong Kong, Hong Kong, Peoples R China; [Hong, Yiguo] Chinese Acad Sci, S China Sea Inst Oceanog, Key Lab Trop Marine Environm Dynam LED, Guangzhou 510301, Guangdong, Peoples R China; [Klotz, Martin Gunter] Univ Louisville, Dept Biol Microbiol & Immunol, Louisville, KY 40292 USA; [Gu, Ji-Dong] Univ Hong Kong, Swire Inst Marine Sci, Hong Kong, Hong Kong, Peoples R China
KeywordAnammox Bacteria Primer Sets 16s Rna Gene Hzo Gene Marine Sediments
Subject AreaBiotechnology & Applied Microbiology
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Indexed Bysci
Funding ProjectLED
WOS IDWOS:000274707600038
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Document Type期刊论文
Identifierhttp://ir.scsio.ac.cn/handle/344004/6321
Collection热带海洋环境国家重点实验室(LTO)
Corresponding Authorjdgu@hkucc.hku.hk
Recommended Citation
GB/T 7714
Li, M,Hong, YG,Klotz, MG,et al. A comparison of primer sets for detecting 16S rRNA and hydrazine oxidoreductase genes of anaerobic ammonium-oxidizing bacteria in marine sediments[J]. APPLIED MICROBIOLOGY AND BIOTECHNOLOGY,2010,86(2):781-790.
APA Li, M,Hong, YG,Klotz, MG,Gu, JD,&jdgu@hkucc.hku.hk.(2010).A comparison of primer sets for detecting 16S rRNA and hydrazine oxidoreductase genes of anaerobic ammonium-oxidizing bacteria in marine sediments.APPLIED MICROBIOLOGY AND BIOTECHNOLOGY,86(2),781-790.
MLA Li, M,et al."A comparison of primer sets for detecting 16S rRNA and hydrazine oxidoreductase genes of anaerobic ammonium-oxidizing bacteria in marine sediments".APPLIED MICROBIOLOGY AND BIOTECHNOLOGY 86.2(2010):781-790.
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