DOI: 10.6084/m9.figshare.3298180.v3
title: Soil nutrient depletion is associated with the presence of Burkholderia pseudomallei

description: The associated factors of environmental <i>B.
pseudomallei</i> data set was comprised of bacterial culture results for <i>B. pseudomallei</i>
(positive/negative), soil physicochemical properties and location information
(GPS coordinates, province, region and country).

Sixty one rice field located in 61 villages from the
East (19), Central (21) and Northeast (21) Thailand were randomly selected. Soil was
sampled in the dry season (April-June) in 2013, 2014, 2015. We used the
consensus guidelines for environmental sampling described by the Detection of
Environmental <i>Burkholderia pseudomallei</i> Working Party (DEBWorP)
(http://www.ncbi.nlm.nih.gov/pubmed/23556010). We recorded the location of
sampled fields using the EpiCollect application (www.epicollect.net, Imperial
College, London). In each rice field, gird of 10x10 grid (2.5m apart) was
plotted to generate 100 sampling points. We collected 20 grams of soil, 10g for
culture for <i>B. pseudomallei</i> and another 10g was for soil physiochemical
properties tests. Then we pooled and mixed soil from all 100 sampling points
together to get 1kg of soil and sent for soil properties analysis to iLab Asia
(Kanchanaburi, Thailand) and Central Laboratory (Bangkok, Thailand).

All 100 soil samples from each rice field were cultured
for <i>B. pseudomallei</i>. The simplified culture method for isolation of <i>B.
pseudomallei</i> from soil was used (http://www.ncbi.nlm.nih.gov/pubmed/22101048). The positive rice field
is the field that at least one sample was positive for the <i>B. pseudomallei</i>.


The study protocol was approved by the Ethics
Committee of the Faculty of Tropical Medicine, Mahidol University
(MUTM2013-021-01) and the Oxford Tropical Research Ethics Committee, University
of Oxford (OXTREC 1013-13).

Each row represents presence of <i>B. pseudomallei</i>
and soil characteristics per sampled site.  The database contains the following fields:

SITE_ID:
Unique identifier for sampling siteCULTURE_BPS:
Bacterial culture result for <i>B. pseudomallei</i> from soil in rice fieldsPOS_POINTS_BPS:
Number of sampling points per field which were positive for <i>B. pseudomallei</i>.T_TEX_CLASS:
Topsoil USDA texture classification as accordingT_SAND:
Topsoil sand fraction (%)T_SILT:
Topsoil silt fraction (%)T_CLAY:
Topsoil clay fraction (%)T_PH:
Topsoil pH levelT_LR:
Topsoil lime requirement (kg per 100 sqm)T_OM:
Topsoil organic matter (%w/w)T_EC:
Topsoil electrical conductivity (dS/m)T_NITROGEN:  Topsoil total nitrogen (mg/kg)T_PHOSPRORUS:
Topsoil available phosphorous (mg/kg)T_POTASSIUM:
Topsoil exchangeable potassium (mg/kg)T_CALCIUM:
Topsoil exchangeable calcium (mg/kg)T_MAGNESIUM:
Topsoil available magnesium (mg/kg)T_SULFUR:
Topsoil extractable  sulphur (mg/kg)T_SODIUM:
Topsoil exchangeable sodium (mg/kg)T_CEC:
Topsoil cation exchange capacity (cmol/mg)T_MOISTURE:
Topsoil moisture (%w/w)T_CNRATIO:
Topsoil carbon to nitrogen ratioT_CADMIUM:
Topsoil cadmium (mg/kg)T_IRON:
Topsoil iron (g/kg)YEAR:
The year of soil samplingPROV:
The province of sampling siteREGION:
The region of sampling site – values are East, Central and Northeast, ThailandCOUNTRY:
The country of sampling site which is ThailandLAT:
The latitude coordinate of the point indicating site location. To compliance
with ethical requirement and to protect confidentiality of site location, part
of coordinates are disclosed in this data set. LONG:
The longtitude coordinate of the point indicating site location. To compliance
with ethical requirement and to protect confidentiality of site location, part
of coordinates are disclosed in this data set.