Current advances in molecular methods for detection of nitrite-dependent anaerobic methane oxidizing bacteria in natural environments

TY - JOUR

T1 - Current advances in molecular methods for detection of nitrite-dependent anaerobic methane oxidizing bacteria in natural environments

AU - Chen, Jing

AU - Dick, Richard

AU - Lin, Jih Gaw

AU - Gu, Ji Dong

N1 - Publisher Copyright: © 2016, Springer-Verlag Berlin Heidelberg.

PY - 2016/12/1

Y1 - 2016/12/1

N2 - Nitrite-dependent anaerobic methane oxidation (n-damo) process uniquely links microbial nitrogen and carbon cycles. Research on n-damo bacteria progresses quickly with experimental evidences through enrichment cultures. Polymerase chain reaction (PCR)-based methods for detecting them in various natural ecosystems and engineered systems play a very important role in the discovery of their distribution, abundance, and biodiversity in the ecosystems. Important characteristics of n-damo enrichments were obtained and their key significance in microbial nitrogen and carbon cycles was investigated. The molecular methods currently used in detecting n-damo bacteria were comprehensively reviewed and discussed for their strengths and limitations in applications with a wide range of samples. The pmoA gene-based PCR primers for n-damo bacterial detection were evaluated and, in particular, several incorrectly stated PCR primer nucleotide sequences in the published papers were also pointed out to allow correct applications of the PCR primers in current and future investigations. Furthermore, this review also offers the future perspectives of n-damo bacteria based on current information and methods available for a better acquisition of new knowledge about this group of bacteria.

AB - Nitrite-dependent anaerobic methane oxidation (n-damo) process uniquely links microbial nitrogen and carbon cycles. Research on n-damo bacteria progresses quickly with experimental evidences through enrichment cultures. Polymerase chain reaction (PCR)-based methods for detecting them in various natural ecosystems and engineered systems play a very important role in the discovery of their distribution, abundance, and biodiversity in the ecosystems. Important characteristics of n-damo enrichments were obtained and their key significance in microbial nitrogen and carbon cycles was investigated. The molecular methods currently used in detecting n-damo bacteria were comprehensively reviewed and discussed for their strengths and limitations in applications with a wide range of samples. The pmoA gene-based PCR primers for n-damo bacterial detection were evaluated and, in particular, several incorrectly stated PCR primer nucleotide sequences in the published papers were also pointed out to allow correct applications of the PCR primers in current and future investigations. Furthermore, this review also offers the future perspectives of n-damo bacteria based on current information and methods available for a better acquisition of new knowledge about this group of bacteria.

KW - Anaerobic methane oxidation

KW - Denitrification

KW - Methylomirabilis oxyfera-like bacteria

KW - Molecular detection

KW - N-damo

KW - PCR primer

KW - pmoA gene

UR - http://www.scopus.com/inward/record.url?scp=84991744762&partnerID=8YFLogxK

U2 - 10.1007/s00253-016-7853-5

DO - 10.1007/s00253-016-7853-5

M3 - 文献综述

C2 - 27761639

AN - SCOPUS:84991744762

SN - 0175-7598

VL - 100

SP - 9845

EP - 9860

JO - Applied Microbiology and Biotechnology

JF - Applied Microbiology and Biotechnology

IS - 23

ER -