| Literature DB >> 22866052 |
Misha Miazga-Rodriguez1, Sukkyun Han, Brian Yakiwchuk, Kai Wei, Colleen English, Steven Bourn, Seth Bohnert, Lisa Y Stein.
Abstract
Ammonium nitrate explosives are used in mining operations at Diavik Diamond Mines Inc. in the Northwest Territories, Canada. Residual nitrogen is washed into the mine pit and piped to a nearby retention pond where its removal is accomplished by microbial activity prior to a final water treatment step and release into the sub-Arctic lake, Lac de Gras. Microbial removal of ammonium in the retention pond is rapid during the brief ice-free summer, but often slows under ice cover that persists up to 9 months of the year. The aluminosilicate mineral zeolite was tested as an additive to retention pond water to increase rates of ammonium removal at 4°C. Water samples were collected across the length of the retention pond monthly over a year. The structure of the microbial community (bacteria, archaea, and eukarya), as determined by denaturing gradient gel electrophoresis of PCR-amplified small subunit ribosomal RNA genes, was more stable during cold months than during July-September, when there was a marked phytoplankton bloom. Of the ammonia-oxidizing community, only bacterial amoA genes were consistently detected. Zeolite (10 g) was added to retention pond water (100 mL) amended with 5 mM ammonium and incubated at 12°C to encourage development of a nitrifying biofilm. The biofilm community was composed of different amoA phylotypes from those identified in gene clone libraries of native water samples. Zeolite biofilm was added to fresh water samples collected at different times of the year, resulting in a significant increase in laboratory measurements of potential nitrification activity at 4°C. A significant positive correlation between the amount of zeolite biofilm and potential nitrification activity was observed; rates were unaffected in incubations containing 1-20 mM ammonium. Addition of zeolite to retention ponds in cold environments could effectively increase nitrification rates year-round by concentrating active nitrifying biomass.Entities:
Keywords: ammonia-oxidizing bacteria; biofilm; cold environments; mining; nitrification; zeolite
Year: 2012 PMID: 22866052 PMCID: PMC3407968 DOI: 10.3389/fmicb.2012.00271
Source DB: PubMed Journal: Front Microbiol ISSN: 1664-302X Impact factor: 5.640
Figure 1Map of retention pond and location of Diavik Diamond Mines Inc. (courtesy of DDMI) in the Northwest Territories, Canada. Water sampling sites 1–4 are indicated by balloons. Only sites 1 and 3 were accessible during ice cover (September 2009–May 2010).
Relative abundances of bacterial .
| Sample date | # Bacterial | # Bacterial 16S rRNA gene copies (×107) | Potential nitrification activity at 12°C |
|---|---|---|---|
| July 2009 | 0.75 (0.02) | 3.89 (0.08) | 1.09 (0.09) |
| August 2009 | 0.49 (0.006) | 6.44 (0.20) | ND |
| September 2009 | 0.12 (0.01) | 7.82 (1.29) | 3.11 (0.10) |
| December 2009 | 0.41 (0.002) | 4.90 (0.39) | 0.80 (0.03) |
| January 2010 | 0.41 (0.002) | 5.90 (0.02) | 0.85 (0.03) |
| February 2010 | 0.10 (0.02) | 2.27 (0.16) | 1.67 (0.06) |
| March 2010 | 0.02 (0.002) | 2.82 (0.19) | ND |
| May 2010 | 0.03 (0.004) | 4.02 (0.19) | 1.62 (0.68) |
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PCR primers used in this study.
| Primer set | Target | Sequence (5′–3′) | Amplicon length (bp) | Reference |
|---|---|---|---|---|
| 341F | Bact 16S | CCTACGGGAGGCAGCAG | 177 | Muyzer et al. ( |
| 518R | rRNA | ATTACCGCGGCTGCTGG | ||
| pArch340F | Arch 16S | TACGGGGYGCASCAG | 175 | Øvreås et al. ( |
| pArch519R | rRNA | TTACCGCGGCKGCTG | ||
| Euk1A | Euk 18S | CTGGTTGATCCTGCCAG | 559 | Díez et al. ( |
| Euk516R | rRNA | ACCAGACTTGCCCTCC | ||
| amoAf-i | Bact | GGGGITTITACTGGTGGT | 491 | Hornek et al. ( |
| amoAr-i | CCCCTCIGIAAAICCTTCTTC | |||
| Arch-amoAf | Arch | STAATGGTCTGGCTTAGACG | 635 | Francis et al. ( |
| Arch-amoAr | GCGGCCATCCATCTGTATGT |
*GC clamp (40 bp) added for DGGE-PR.
Figure 2Similarity comparison of denaturing gradient gel electrophoresis profiles of PCR-amplified small subunit ribosomal RNA genes for (A) bacteria, (B) archaea, and (C) eukarya. Because DGGE profiles were identical from at each site across the retention pond and from each replication (data not shown), only representative samples from site 3 from each month are shown. Water samples were collected from April 2009 to May 2010 with month (number) and year indicated on the right axis. Samples in green font indicate summer months with phytoplankton bloom.
Physicochemical parameters of retention pond water.
| Sample date | Temp. (°C) | pH | DO (mg/L) | Conductivity (μS/cm) | Turbidity (NTU) | Ammonia (mg/L)a |
|---|---|---|---|---|---|---|
| April 09 | 1.86 (0.15) | 8.55 (0.07) | 10.15 (0.22) | 569 (9) | 26.2 (19.1) | 1.67 (0.05) |
| May 09 | 1.93 (0.18) | 8.68 (0.15) | 10.21 (0.26) | 582 (8) | 2.62 (1.12) | 1.68 (0.16) |
| July 09 | 7.02 (1.71) | 9.60 (0.42) | 16.26 (3.07) | 397 (16) | 4.22 (2.79) | ND |
| August 09 | 10.45 (1.77) | 9.62 (0.60) | 11.92 (3.62) | 550 (35) | 1.38 (2.03) | 0.45 (0.78) |
| September 09 | 5.45 (0.15) | 9.51 (0.06) | 12.51 (0.19) | 571 (10) | 0.21 (0.19) | BDL |
| December 09 | 1.47 (0.044) | 8.24 (0.03) | 10.42 (0.69) | 614 (125) | 12.86 (8.09) | 0.22 (SM) |
| January 10 | 2.13 (0.71) | 7.83 (0.25) | 9.22 (2.05) | 506 (134) | 9.03 (8.79) | 0.62 (0.26) |
| February 10 | 2.17 (0.50) | 7.85 (0.28) | 9.04 (3.08) | 513 (157) | 15.83 (7.12) | 0.50 (0.04) |
| March 10 | 3.40 (SM) | 7.86 (0.22) | 11.95 (0.35) | 403 (11) | 7.96 (5.58) | ND |
| April 10 | 5.70 (2.76) | 7.79 (0.05) | 11.80 (SM) | 396 (SM) | 4.12 (4.00) | ND |
| May 10 | 5.00 (0.49) | 8.28 (0.23) | 11.40 (SM) | 384 (57) | 8.92 (3.94) | ND |
Averages and standard deviations (in parentheses) represent three measurements. .
Dominant AOB groups in native water samples and attached to zeolite particles as determined by clone libraries and sequencing of PCR-amplified .
| Sequence affiliation | Identity | Representation in clone libraries | |||
|---|---|---|---|---|---|
| April 09 (water) | September 09 (water) | January 10 (zeolite) | May 10 (zeolite) | ||
| Uncultivated freshwater cluster | 482/492 | 19/50 | 36/50 | 28/43 | 11/32 |
| Uncultivated freshwater cluster (GU121148) | 483/489 | ND | ND | 8/43 | 18/32 |
| Uncultivated freshwater cluster | 479/491 | 6/50 | ND | ND | ND |
| 483/489 | 19/50 | 12/50 | ND | ND | |
| 474/489 | 6/50 | 2/50 | ND | ND | |
| Uncultivated biofilm cluster (FR773951) | 480/483 | ND | ND | 7/43 | 3/32 |
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ND, not detected.
Figure 3Effect of zeolite biofilm on PNA measured as mM . Incubation conditions were 12°C with no zeolite addition (dark bars), 4°C with developed zeolite biofilm (1 g·5 L−1; white bars), and 4°C with no zeolite addition (gray bars). Error bars represent standard deviation of duplicate measurements for each sample. Samples were collected from sites 1 and 3 (Figure 1), and rate measurements were combined to calculate final rates and standard deviations.
Figure 4Effect of increasing amounts of developed zeolite biofilm on PNA of retention pond samples collected from sites 1 and 3 (Figure . Samples were incubated at 4°C. Rates and standard deviations were determined from duplicate measurements of the four samples (n = 8) over time.
Figure 5Effect of increasing . Samples were incubated at 4°C. Rates and standard deviations were determined from duplicate measurements of the two samples (n = 4) over time.