Enrichments of n-damo bacteria, members of NC10 phylum, were started from freshwater sediments (Raghoebarsing et al., 2006; Ettwig et al., 2009) and wastewater treatment sludge (Luesken et al., 2011a,c). In 2010, the genome of Methylomirabilis oxyfera, the bacterium responsible for n-damo, was assembled and analyzed (Ettwig et al., 2010). The remarkable presence of genes encoding for particulate methane monooxygenase (pmoCAB) in this anaerobe was explained by its unusual intra aerobic metabolism. Recently published primers specifically targeting the pmoA subunit of n-damo bacteria were used to screen environmental samples, and n-damo bacteria were detected in a wide range of freshwater habitats (Deutzmann & Schink,

2011; Luesken et al., 2011b; Kojima et al., 2012). Paddy fields are characteristized by cultivation patterns Silmitasertib in vivo including water logging, which causes anoxic soil conditions. Plant-derived organic substances additionally serve as an important carbon source for CH4 (Lu & Conrad, 2005). In addition, application of nitrogen-rich fertilizers makes the paddy field a favorable habitat for both anammox and n-damo bacteria. In the present study, we aimed to explore the co-occurrence and vertical distributions of

anammox and n-damo bacteria in a paddy soil core with our newly developed anammox primers targeting the β subunit of the http://www.selleckchem.com/products/PLX-4032.html hydrazine synthase (hzsB gene) and the primers targeting the pmoA and 16S rRNA genes of n-damo bacteria. Both quantitative and biodiversity analyses are reported. A paddy field with long-term manure fertilization practice in subtropical China (E120°41′50″ N30°45′50″) was selected for this study. Five soil cores Bay 11-7085 (1 m distance) were collected by a stainless steel ring sampler (5 cm diameter and 100 cm depth) from the field in October 2009 at the growth season. The soil cores were placed in sterile plastic bags, sealed, and transported to the laboratory on ice. Later they were sliced at 10-cm intervals, and slices of the same depth were mixed to form one composite sample. One part was sieved through 2.0-mm sieve for the chemical analysis, and subsamples were used for DNA extraction. To evaluate the

designed primers, biomass from several anammox enrichment cultures in bioreactors from our laboratory (Nijmegen, The Netherlands) were sampled including ‘Candidatus Kuenenia stuttgartiensis’, ‘Candidatus Brocadia fulgida’, ‘Candidatus Brocadia anammoxidans’, ‘Candidatus Scalindua sp.’, and ‘Candidatus Jettenia asiatica’. The cultures were each dominated at 70–95% by single anammox species. The enrichment and cultivation profiles see the previous works (Kartal et al., 2007; Quan et al., 2008; Schmid et al., 2008). Environmental samples from wastewater treatment plants (WWTPs) and sediment were investigated from the Rotterdam and Lichtenvoorde full-scale anammox reactors (Van der Star et al., 2007) and ditches in the Ooijpolder, Olburgen, and Propionaat (The Netherlands), respectively (Hu et al.