| Literature DB >> 26029168 |
Molly T Carolan1, Jason M Smith2, J M Beman2.
Abstract
Microbial communities play central roles in ocean biogeochemical cycles, and are particularly important in in oceanic oxygen minimum zones (OMZs). However, the key carbon, nitrogen, and sulfur (S) cycling processes catalyzed by OMZ microbial communities are poorly constrained spatially, temporally, and with regard to the different microbial groups involved. Here we sample across dissolved oxygen (DO) gradients in the oceans' largest OMZ by volume-the eastern tropical North Pacific ocean, or ETNP-and quantify 16S rRNA and functional gene transcripts to detect and constrain the activity of different S-cycling groups. Based on gene expression profiles, putative dissimilatory sulfite reductase (dsrA) genes are actively expressed within the ETNP OMZ. dsrA expression was limited almost entirely to samples with elevated nitrite concentrations, consistent with previous observations in the Eastern Tropical South Pacific OMZ. dsrA and 'reverse' dissimilatory sulfite reductase (rdsrA) genes are related and the associated enzymes are known to operate in either direction-reducing or oxidizing different S compounds. We found that rdsrA genes and soxB genes were expressed in the same samples, suggestive of active S cycling in the ETNP OMZ. These data provide potential thresholds for S cycling in OMZs that closely mimic recent predictions, and indicate that S cycling may be broadly relevant in OMZs.Entities:
Keywords: oxygen minimum zone; sulfate reduction; sulfur cyling; sulfur oxidation; transcriptomics
Year: 2015 PMID: 26029168 PMCID: PMC4426714 DOI: 10.3389/fmicb.2015.00334
Source DB: PubMed Journal: Front Microbiol ISSN: 1664-302X Impact factor: 5.640
Details of quantitative PCR (qPCR) assays, including the primers used, the reference for the qPCR protocol, and the efficiency and .
| Gene | Forward primer (5′→ 3′) | Reverse primer (5′→ 3′) | qPCR protocol reference | Efficiency | |
|---|---|---|---|---|---|
| CHR986f AGCCCTTGACATCCTCGGAA | 1392R ACGGGCGGTGTGTAC | 125% | 0.997 | ||
| SUP05 16S rRNA | ba519F CAGCMGCCGCGGTAANWC | SUP051048R CCATCTCTGGAAAGTTCCGTCT | 99.2% | 0.947 | |
| dsr1F+ ACSCACTGGAAGCACGGCGG | dsrR GTGGMRCCGTGCAKRTTGG | 95.2% | 0.968 | ||
| rdsr393f ACAGGCGGCATTACGTACC | rdsr810r AGTACGCTTTCCACCCATG | ||||
| soxB432F GAYGGNGGNGAYACNTGG | soxB1446 CATGTCNCCNCCRTGYTG |
Sample information and expression of functional genes involved in sulfur oxidation.
| Station | Depth (m) | DO (μmol kg-1) | NO2- (nmol L-1) | ||
|---|---|---|---|---|---|
| 2 | 200 | 3.8 | 4175 | + | + |
| 2 | 250 | 5.5 | 730 | + | + |
| 2 | 300 | 3.7 | 656 | + | + |
| 3 | 100 | 44 | 69 | + | – |
| 3 | 120 | 6.4 | 299 | + | + |
| 3 | 300 | 3.0 | 2008 | + | + |
| 4 | 160 | 8.8 | 45 | + | – |
| 4 | 180 | 4.8 | 46 | + | – |
| 4 | 200 | 3.6 | 47 | + | – |
| 5 | 200 | 16.3 | 24 | + | – |
| 5 | 250 | 8.5 | 25 | + | – |
| 5 | 375 | 5.4 | 19 | + | – |