Abstract:

This dataset contains relative abundances (%) of terminal restriction fragments of the ammonia monooxygenase genes (amoA) from ammonia-oxidizing archaea (AOA) collected from 12 marshes in Terrebonne Bay (TB), western Barataria Bay (WB), and eastern Barataria Bay (EB), LA. In each region, we sampled two oiled marshes and two unoiled marshes. At each marsh, we collected 5-cm deep soil cores along a 20-m transect from the marsh edge and collecting soil samples every 5 m. Each sample was analyzed by Terminal Restriction Fragment Length Polymorphism (TRFLP) of the amoA genes. Samples were collected in July 2015 and July 2016.

Suggested Citation:

Bernhard, Anne E.. 2017. Community composition of ammonia oxidizing archaea in Barataria and Terrebonne Bays in 2015 and 2016. Distributed by: GRIIDC, Harte Research Institute, Texas A&M University–Corpus Christi. doi:10.7266/N7TH8JQ3

Publications:

Bernhard, A. E., Chelsky, A., Giblin, A. E., & Roberts, B. J. (2019). Influence of Local and Regional Drivers on Spatial and Temporal Variation of Ammonia‐Oxidizing Communities in Gulf of Mexico Salt Marshes. Environmental Microbiology Reports. doi:10.1111/1758-2229.12802

Purpose:

This dataset is to complete a 5-year longitudinal study (started in 2012) on the microbial communities involved in nitrogen-cycling in the marshes, and to continue to monitor these marshes for impacts from the oil spill.

Data Parameters and Units:

Site name: identifies each site (there are 4 sites within each region) Year: the year the samples were collected Month: the month the samples were collected Region: identifies the region (TB for Terrebonne Bay, WB for western Barataria Bay, PS for eastern Barataria Bay/Port Sulphur) Position/Plot: each site has four plots at increasing distance from marsh edge (5m, 10m, 15m, 20m) oil status: oiled indicates sites that received Macondo oil AOA73: relative abundance (%) of the 73-basepair terminal restriction fragment of the archaeal ammonia moonoxygenase gene. AOA83: relative abundance (%)of the 83-basepair terminal restriction fragment of the archaeal ammonia moonoxygenase gene. AOA119: relative abundance (%) of the 119-basepair terminal restriction fragment of the archaeal ammonia moonoxygenase gene. AOA170: relative abundance (%) of the 170-basepair terminal restriction fragment of the archaeal ammonia moonoxygenase gene. AOA208: relative abundance (%) of the 208-basepair terminal restriction fragment of the archaeal ammonia moonoxygenase gene. AOA283: relative abundance (%) of the 283-basepair terminal restriction fragment of the archaeal ammonia moonoxygenase gene. AOA296: relative abundance (%) of the 296-basepair terminal restriction fragment of the archaeal ammonia moonoxygenase gene. AOA316: relative abundance (%) of the 316-basepair terminal restriction fragment of the archaeal ammonia moonoxygenase gene. AOA414: relative abundance (%) of the 414-basepair terminal restriction fragment of the archaeal ammonia moonoxygenase gene. Site: Latitude (decimal degrees), Longitude (decimal degrees) TB1: 29.29297, -90.604939 TB2: 29.2915, -90.602824 TB3: 29.304486, -90.565818 TB4: 29.2964, -90.549793 WB1: 29.288949, -90.042667 WB2: 29.265837, -90.024864 WB3: 29.2801, -89.975833 WB4: 29.276533, -89.97535 PS3A: 29.4608, -89.8750 PS5: 29.4508, -89.7500 PS6: 29.4458, -89.8761 PS7: 29.4742, -89.8564

Methods:

Bacterial ammonia monooxygenase genes (amoA) were amplified by PCR using primers amoA1f/amoA2r and digested with AciI. Terminal restriction fragments were analyzed by capillary electrophoresis. Relative abundances of each fragment were calculated from peak heights, using only fragments identified by a known amoA sequence.

Instruments:

Samples were analyzed on an ABI 3730 capillary electrophoresis instrument at the Biotechnology Resource Center at Cornell University.

Individual Files: