Abstract:
This dataset contains relative abundances (%) of terminal restriction fragments of the ammonia monooxygenase genes (amoA) from ammonia-oxidizing bacteria (AOB) 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 bacteria in Barataria and Terrebonne Bays in 2015 and 2016. Distributed by: GRIIDC, Harte Research Institute, Texas A&M University–Corpus Christi. doi:10.7266/N7Z899FT
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 AOB98: the relative abundance (%) of the 98-basepair terminal restriction fragment of the bacterial ammonia moonoxygenase gene. AOB115: relative abundance (%) of the 115-basepair terminal restriction fragment of the bacterial ammonia moonoxygenase gene. AOB127: relative abundance (%) of the 127-basepair terminal restriction fragment of the bacterial ammonia moonoxygenase gene. AOB130: relative abundance (%) of the 130-basepair terminal restriction fragment of the bacterial ammonia moonoxygenase gene. AOB187: relative abundance (%) of the 187-basepair terminal restriction fragment of the bacterial ammonia moonoxygenase gene. AOB196: relative abundance (%) of the 196-basepair terminal restriction fragment of the bacterial ammonia moonoxygenase gene. AOB278: relative abundance (%) of the 278-basepair terminal restriction fragment of the bacterial ammonia moonoxygenase gene. AOB315: relative abundance (%) of the 315-basepair terminal restriction fragment of the bacterial ammonia moonoxygenase gene. AOB336: relative abundance (%) of the 336-basepair terminal restriction fragment of the bacterial ammonia moonoxygenase gene. AOB343: relative abundance (%) of the 343-basepair terminal restriction fragment of the bacterial ammonia moonoxygenase gene. AOB403: relative abundance (%) of the 403-basepair terminal restriction fragment of the bacterial ammonia moonoxygenase gene. AOB462: relative abundance (%) of the 462-basepair terminal restriction fragment of the bacterial ammonia moonoxygenase gene. AOB472: relative abundance (%) of the 472-basepair terminal restriction fragment of the bacterial ammonia moonoxygenase gene. AOB492: relative abundance (%) of the 492-basepair terminal restriction fragment of the bacterial 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.
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