A novel method for sampling bacteria on plant root and soil surfaces at the microhabitat scale

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A novel method for sampling bacteria on plant root and soil surfaces at the microhabitat scale. / Dennis, PG; Miller, Alexander; Clark, IM; Taylor, RG; Valsami-Jones, Eugenia; Hirsch, PR.

In: Journal of Microbiological Methods, Vol. 75, No. 1, 01.09.2008, p. 12-18.

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@article{6a999c0aff244aacb36a4e322191ff49,
title = "A novel method for sampling bacteria on plant root and soil surfaces at the microhabitat scale",
abstract = "This study reports the first method for sampling bacteria at a spatial scale approximating a microhabitat. At the core of this method is the use of tungsten rods with laser-cut tips of known surface area (0.013 mm(2)). Exposed plant root or soil surfaces were viewed with a dissecting microscope and micro-sampling rods were guided to sample sites using a micro-manipulator. Bacteria that adhered to the sampling tips were then recovered for microbiological analyses. The efficiency of this method for removing bacteria from root surfaces was similar to that with which bacteria are recovered from dissected root segments using the conventional technique of washing. However, as the surface area of the micro-sampling tips was known, the new method has the advantage of eliminating inaccuracy in estimates of bacterial densities due to inaccurate estimation of the root or soil surface sampled. When used to investigate spatial distributions of rhizoplane bacteria, the new technique revealed trends that were consistent with those reported with existing methods, while providing access to additional information about community structure at a much smaller spatial scale. The spatial scale of this new method is ca. 1000-times smaller than other sampling methods involving swabbing. This novel technique represents an important methodological step facilitating microbial ecological investigations at a microhabitat scale.",
author = "PG Dennis and Alexander Miller and IM Clark and RG Taylor and Eugenia Valsami-Jones and PR Hirsch",
year = "2008",
month = sep,
day = "1",
doi = "10.1016/j.mimet.2008.04.013",
language = "English",
volume = "75",
pages = "12--18",
journal = "Journal of Microbiological Methods",
issn = "0167-7012",
publisher = "Elsevier",
number = "1",

}

RIS

TY - JOUR

T1 - A novel method for sampling bacteria on plant root and soil surfaces at the microhabitat scale

AU - Dennis, PG

AU - Miller, Alexander

AU - Clark, IM

AU - Taylor, RG

AU - Valsami-Jones, Eugenia

AU - Hirsch, PR

PY - 2008/9/1

Y1 - 2008/9/1

N2 - This study reports the first method for sampling bacteria at a spatial scale approximating a microhabitat. At the core of this method is the use of tungsten rods with laser-cut tips of known surface area (0.013 mm(2)). Exposed plant root or soil surfaces were viewed with a dissecting microscope and micro-sampling rods were guided to sample sites using a micro-manipulator. Bacteria that adhered to the sampling tips were then recovered for microbiological analyses. The efficiency of this method for removing bacteria from root surfaces was similar to that with which bacteria are recovered from dissected root segments using the conventional technique of washing. However, as the surface area of the micro-sampling tips was known, the new method has the advantage of eliminating inaccuracy in estimates of bacterial densities due to inaccurate estimation of the root or soil surface sampled. When used to investigate spatial distributions of rhizoplane bacteria, the new technique revealed trends that were consistent with those reported with existing methods, while providing access to additional information about community structure at a much smaller spatial scale. The spatial scale of this new method is ca. 1000-times smaller than other sampling methods involving swabbing. This novel technique represents an important methodological step facilitating microbial ecological investigations at a microhabitat scale.

AB - This study reports the first method for sampling bacteria at a spatial scale approximating a microhabitat. At the core of this method is the use of tungsten rods with laser-cut tips of known surface area (0.013 mm(2)). Exposed plant root or soil surfaces were viewed with a dissecting microscope and micro-sampling rods were guided to sample sites using a micro-manipulator. Bacteria that adhered to the sampling tips were then recovered for microbiological analyses. The efficiency of this method for removing bacteria from root surfaces was similar to that with which bacteria are recovered from dissected root segments using the conventional technique of washing. However, as the surface area of the micro-sampling tips was known, the new method has the advantage of eliminating inaccuracy in estimates of bacterial densities due to inaccurate estimation of the root or soil surface sampled. When used to investigate spatial distributions of rhizoplane bacteria, the new technique revealed trends that were consistent with those reported with existing methods, while providing access to additional information about community structure at a much smaller spatial scale. The spatial scale of this new method is ca. 1000-times smaller than other sampling methods involving swabbing. This novel technique represents an important methodological step facilitating microbial ecological investigations at a microhabitat scale.

U2 - 10.1016/j.mimet.2008.04.013

DO - 10.1016/j.mimet.2008.04.013

M3 - Article

C2 - 18558444

VL - 75

SP - 12

EP - 18

JO - Journal of Microbiological Methods

JF - Journal of Microbiological Methods

SN - 0167-7012

IS - 1

ER -