Limits...
Residence of habitat-specific anammox bacteria in the deep-sea subsurface sediments of the South China Sea: analyses of marker gene abundance with physical chemical parameters.

Hong YG, Li M, Cao H, Gu JD - Microb. Ecol. (2011)

Bottom Line: Results indicated that the anammox bacterial sequences recovered from this habitat by amplifying both 16S rRNA gene and hydrazine oxidoreductase encoding hzo gene were all closely related to the Candidatus Scalindua genus.A total of 96 16S rRNA gene sequences from 346 clones were grouped into five subclusters: two subclusters affiliated with the brodae and arabica species, while three new subclusters named zhenghei-I, -II, and -III showed ≤ 97.4% nucleic acid sequence identity with other known Candidatus Scalindua species.Meanwhile, 88 hzo gene sequences from the sediments also formed five distant subclusters within hzo cluster 1c.

View Article: PubMed Central - PubMed

Affiliation: Key Laboratory of Tropical Marine Environment Dynamics (LED), South China Sea Institute of Oceanography, Chinese Academy of Sciences, Guangzhou, 510301, People's Republic of China.

ABSTRACT
Anaerobic ammonium oxidation (anammox) has been recognized as an important process for the global nitrogen cycle. In this study, the occurrence and diversity of anammox bacteria in the deep-sea subsurface sediments of the South China Sea (SCS) were investigated. Results indicated that the anammox bacterial sequences recovered from this habitat by amplifying both 16S rRNA gene and hydrazine oxidoreductase encoding hzo gene were all closely related to the Candidatus Scalindua genus. A total of 96 16S rRNA gene sequences from 346 clones were grouped into five subclusters: two subclusters affiliated with the brodae and arabica species, while three new subclusters named zhenghei-I, -II, and -III showed ≤ 97.4% nucleic acid sequence identity with other known Candidatus Scalindua species. Meanwhile, 88 hzo gene sequences from the sediments also formed five distant subclusters within hzo cluster 1c. Through fluorescent real-time PCR analysis, the abundance of anammox bacteria in deep-sea subsurface sediment was quantified by hzo genes, which ranged from 1.19 × 10(4) to 7.17 × 10(4) copies per gram of dry sediments. Combining all the information from this study, diverse Candidatus Scalindua anammox bacteria were found in the deep-sea subsurface sediments of the SCS, and they could be involved in the nitrogen loss from the fixed inventory in the habitat.

Show MeSH
Abundance of hzo gene of anammox bacteria in sediments of selective sampling sites at the South China Sea. The experiment was performed in triplicate. Error bars represent standard deviations of triplicate analysis
© Copyright Policy
Related In: Results  -  Collection


getmorefigures.php?uid=PMC3141849&req=5

Fig3: Abundance of hzo gene of anammox bacteria in sediments of selective sampling sites at the South China Sea. The experiment was performed in triplicate. Error bars represent standard deviations of triplicate analysis

Mentions: The copy numbers of the hzo gene in all the samples were determined using the fluorescent real-time PCR method with the same primer pair HZOF1/HZOR2 (Fig. 3). The abundance of the hzo gene in CF5 was the highest, up to 7.17 × 104 copies per gram of dry sediments. In E407 and E525, the abundances of the hzo gene were 4.54 × 104 and 5.44 × 104 copies per gram of dry sediments, respectively. The lowest hzo gene copy number of 1.19 × 104 copies per gram of dry sediments was determined at the sampling site E401, where the water column is the deepest (3,300 m below sea surface).Figure 3


Residence of habitat-specific anammox bacteria in the deep-sea subsurface sediments of the South China Sea: analyses of marker gene abundance with physical chemical parameters.

Hong YG, Li M, Cao H, Gu JD - Microb. Ecol. (2011)

Abundance of hzo gene of anammox bacteria in sediments of selective sampling sites at the South China Sea. The experiment was performed in triplicate. Error bars represent standard deviations of triplicate analysis
© Copyright Policy
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC3141849&req=5

Fig3: Abundance of hzo gene of anammox bacteria in sediments of selective sampling sites at the South China Sea. The experiment was performed in triplicate. Error bars represent standard deviations of triplicate analysis
Mentions: The copy numbers of the hzo gene in all the samples were determined using the fluorescent real-time PCR method with the same primer pair HZOF1/HZOR2 (Fig. 3). The abundance of the hzo gene in CF5 was the highest, up to 7.17 × 104 copies per gram of dry sediments. In E407 and E525, the abundances of the hzo gene were 4.54 × 104 and 5.44 × 104 copies per gram of dry sediments, respectively. The lowest hzo gene copy number of 1.19 × 104 copies per gram of dry sediments was determined at the sampling site E401, where the water column is the deepest (3,300 m below sea surface).Figure 3

Bottom Line: Results indicated that the anammox bacterial sequences recovered from this habitat by amplifying both 16S rRNA gene and hydrazine oxidoreductase encoding hzo gene were all closely related to the Candidatus Scalindua genus.A total of 96 16S rRNA gene sequences from 346 clones were grouped into five subclusters: two subclusters affiliated with the brodae and arabica species, while three new subclusters named zhenghei-I, -II, and -III showed ≤ 97.4% nucleic acid sequence identity with other known Candidatus Scalindua species.Meanwhile, 88 hzo gene sequences from the sediments also formed five distant subclusters within hzo cluster 1c.

View Article: PubMed Central - PubMed

Affiliation: Key Laboratory of Tropical Marine Environment Dynamics (LED), South China Sea Institute of Oceanography, Chinese Academy of Sciences, Guangzhou, 510301, People's Republic of China.

ABSTRACT
Anaerobic ammonium oxidation (anammox) has been recognized as an important process for the global nitrogen cycle. In this study, the occurrence and diversity of anammox bacteria in the deep-sea subsurface sediments of the South China Sea (SCS) were investigated. Results indicated that the anammox bacterial sequences recovered from this habitat by amplifying both 16S rRNA gene and hydrazine oxidoreductase encoding hzo gene were all closely related to the Candidatus Scalindua genus. A total of 96 16S rRNA gene sequences from 346 clones were grouped into five subclusters: two subclusters affiliated with the brodae and arabica species, while three new subclusters named zhenghei-I, -II, and -III showed ≤ 97.4% nucleic acid sequence identity with other known Candidatus Scalindua species. Meanwhile, 88 hzo gene sequences from the sediments also formed five distant subclusters within hzo cluster 1c. Through fluorescent real-time PCR analysis, the abundance of anammox bacteria in deep-sea subsurface sediment was quantified by hzo genes, which ranged from 1.19 × 10(4) to 7.17 × 10(4) copies per gram of dry sediments. Combining all the information from this study, diverse Candidatus Scalindua anammox bacteria were found in the deep-sea subsurface sediments of the SCS, and they could be involved in the nitrogen loss from the fixed inventory in the habitat.

Show MeSH