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A New Primer to Amplify pmoA Gene From NC10 Bacteria in the Sediments of Dongchang Lake and Dongping Lake

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Abstract

Nitrite-dependent anaerobic methane oxidation (n-damo) is catalyzed by the NC10 phylum bacterium “Candidatus Methylomirabilis oxyfera” (M. oxyfera). Generally, the pmoA gene is applied as a functional marker to test and identify NC10-like bacteria. However, it is difficult to detect the NC10 bacteria from sediments of freshwater lake (Dongchang Lake and Dongping Lake) with the previous pmoA gene primer sets. In this work, a new primer cmo208 was designed and used to amplify pmoA gene of NC10-like bacteria. A newly nested PCR approach was performed using the new primer cmo208 and the previous primers cmo182, cmo682, and cmo568 to detect the NC10 bacteria. The obtained pmoA gene sequences exhibited 85–92% nucleotide identity and 95–97% amino acid sequence identity to pmoA gene of M. oxyfera. The obtained diversity of pmoA gene sequences coincided well with the diversity of 16S rRNA sequences. These results indicated that the newly designed pmoA primer cmo208 could give one more option to detect NC10 bacteria from different environmental samples.

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Acknowledgements

This study was supported by the National Natural Science Foundation of China (no. 41401288) and Innovative Research Team in University and Research Fund (no.318051417) for the Doctoral Program of Higher Education of Liaocheng University.

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Authors and Affiliations

  1. College of Life Science, Liaocheng University, Liaocheng, 252059, People’s Republic of China

    Shenghui Wang, Yanjun Liu, Guofu Liu, Yaru Huang & Yu Zhou

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  1. Shenghui Wang
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  2. Yanjun Liu
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  3. Guofu Liu
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  4. Yaru Huang
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  5. Yu Zhou
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Correspondence to Shenghui Wang.

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Wang, S., Liu, Y., Liu, G. et al. A New Primer to Amplify pmoA Gene From NC10 Bacteria in the Sediments of Dongchang Lake and Dongping Lake. Curr Microbiol 74, 908–914 (2017). https://doi.org/10.1007/s00284-017-1260-8

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  • DOI: https://doi.org/10.1007/s00284-017-1260-8

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