Abstract:

This dataset contains bacterial amplicon sequencing data from rhizosphere soil associated with Spartina alterniflora plants using 16S rDNA markers, respectively. The dataset was in support of the study assessing the influence of S. alterniflora plant traits on associated soil microbial communities, which was conducted along Bay Jimmy, Louisiana in 2013. The table is the raw (non-rarified) bacterial OTU abundances table generated from the soil surrounding each plant. Bacterial response variables are abundance, diversity and composition in rhizosphere soil using culture-independent sequencing of 16S rDNA region for taxonomy; and high throughput sequencing for community analyses. Environmental parameters including location, residual oil, individual GPS points etc. measured from the individual plant as well as biotic parameters such as plant provenance are also included.

Suggested Citation:

Michael J. Blum, Candice Lumibao, Steve Formel. 2020. Bacterial amplicon sequencing data from rhizosphere soil associated with Spartina alterniflora collected in Bay Jimmy, Louisiana from 2013-01-19 to 2013-06-26. Distributed by: GRIIDC, Harte Research Institute, Texas A&M University–Corpus Christi. doi:10.7266/BQVFTBFY

Purpose:

The dataset was in support of the study assessing the influence of S. alterniflora plant traits on associated microbial communities, which was conducted along Bay Jimmy, Louisiana in 2013.

Data Parameters and Units:

SampleID (sample identification), report_folder_name (additional info on sample identification), field_sample_number (additional info on sample identification), date_collected (date of collection), site (site of each plant provenance collected), plant_community (type of ecosystem - saltmarsh), month (month of collection), season (season during sample collection), provenance (plant provenance where rhizosphere soil was collected and profiled), zone (zone or plot where plant provenance were planted and collected), Plot (zone or plot where plant provenance were planted and collected), Total.C1.C3.Chrysenes (sum of all C1 and C3-chrysenes, u/ug), Total.C1.C4.naphthalenes (sum of all C1 and C3-naphthalenes, u/ug), Total.C1.C4.phenanthrenes (sum of all C1 and C3-phenanthrenes, u/ug), Total.C1.C3.dibenzothiophenes (sum of all C1 and C3-dibenzothiophenes, u/ug), Total.relevant.PAHs (the sum of C compounds, u/ug), naphthalene.weathering.ratio (weathering ratios of alkylated 3-ring naphthalene (PWR) relative to recalcitrant 4-ring chrysenes, u/ug), phenanthrene.weathering.ratio (weathering ratios of alkylated 3-ring phenanthrenes (PWR) relative to recalcitrant 4-ring chrysenes u/ug), dibenzothiophene.weathering.ratio (weathering ratios of alkylated 3-ring dibenzothiophenes (DWR) relative to recalcitrant 4-ring chrysenes, u/ug), Latitude (UTM coordinates of each plant provenance), Longitude (UTM coordinates of each plant provenance), Position (arbitrary location of each plant provenance), Description (type of microbiome - rhizosphere soil) and X114788 and (henceforth, specific bacteria OTUs and corresponding abundance).

Methods:

Rhizospheric porewater was sampled using a clean syringe from the soil below each plant and analyzed for conductivity, total dissolved solids (parts per thousand) and pH using a multimeter (Myron L, Carlsbad, USA). Approximately 10 g of soil were used for extraction and measurement of crude oil components. Polycyclic aromatic hydrocarbon (PAH) analysis was performed using 6890N gas chromatograph (Agilent Technologies, Santa Clara, USA) equipped with 5973N mass selective detector.

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