Biological invasion in soil: complex network analysis

Francisco J. Perez-Reche, Sergei N. Taraskin, F. M. Neri, Christopher A. Gilligan, Luciano da F. Costa, M. P. Viana, Wilfred Otten, Dmitri V. Grinev

Research output: Chapter in Book/Report/Conference proceedingConference contribution

  • 2 Citations

Abstract

A network model for soil pore space is developed and applied to the analysis of biological invasion of microorganisms in soil. The model was parameterized for two soil samples with different compaction (loosely and densely packed) from images derived from an X-ray micro-tomography system. The data were then processed using 3-D imaging techniques, to construct the networks of pore structures with in the soil samples. The network structure is characterized by the measurement of features that are relevant for biological colonization through soil. These include the distribution of channel lengths, node coordination numbers, location and size of channel bottlenecks, and the topology of the largest connected cluster. The pore-space networks are then used to investigate the spread of a microorganism through soil, in which the transmissibility between pores is defined as a function of the channel characteristics. The same spreading process is investigated in artificially constructed homogeneous networks with the same average properties as the original ones. The comparison shows that the extent of invasion is lower in the original networks than in the homogeneous ones: this proves that inherent heterogeneity and correlations contribute to the resilience of the system to biological invasion.
Original languageEnglish
Title of host publication16th International Conference on Digital Signal Processing
Subtitle of host publicationproceedings
Place of PublicationPiscataway, NJ
PublisherIEEE
Pages1-8
Number of pages8
ISBN (Electronic)9781424432981
ISBN (Print)9781424432974
DOIs
StatePublished - Jul 2009
Event16th International Conference on Digital Signal Processing - , Greece

Conference

Conference16th International Conference on Digital Signal Processing
Abbreviated titleDSP 2009
CountryGreece
Period5/07/097/07/09

Fingerprint

soil
biological invasion
pore space
microorganism
network analysis
resilience
topology
tomography
compaction
colonization

Cite this

Perez-Reche, F. J., Taraskin, S. N., Neri, F. M., Gilligan, C. A., Costa, L. D. F., Viana, M. P., ... Grinev, D. V. (2009). Biological invasion in soil: complex network analysis. In 16th International Conference on Digital Signal Processing: proceedings (pp. 1-8). Piscataway, NJ: IEEE . DOI: 10.1109/ICDSP.2009.5201098

Perez-Reche, Francisco J.; Taraskin, Sergei N.; Neri, F. M.; Gilligan, Christopher A.; Costa, Luciano da F.; Viana, M. P.; Otten, Wilfred; Grinev, Dmitri V. / Biological invasion in soil : complex network analysis.

16th International Conference on Digital Signal Processing: proceedings. Piscataway, NJ : IEEE , 2009. p. 1-8.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

@inbook{b852aa3d76524e60ad7fad8ff230afc7,
title = "Biological invasion in soil: complex network analysis",
abstract = "A network model for soil pore space is developed and applied to the analysis of biological invasion of microorganisms in soil. The model was parameterized for two soil samples with different compaction (loosely and densely packed) from images derived from an X-ray micro-tomography system. The data were then processed using 3-D imaging techniques, to construct the networks of pore structures with in the soil samples. The network structure is characterized by the measurement of features that are relevant for biological colonization through soil. These include the distribution of channel lengths, node coordination numbers, location and size of channel bottlenecks, and the topology of the largest connected cluster. The pore-space networks are then used to investigate the spread of a microorganism through soil, in which the transmissibility between pores is defined as a function of the channel characteristics. The same spreading process is investigated in artificially constructed homogeneous networks with the same average properties as the original ones. The comparison shows that the extent of invasion is lower in the original networks than in the homogeneous ones: this proves that inherent heterogeneity and correlations contribute to the resilience of the system to biological invasion.",
author = "Perez-Reche, {Francisco J.} and Taraskin, {Sergei N.} and Neri, {F. M.} and Gilligan, {Christopher A.} and Costa, {Luciano da F.} and Viana, {M. P.} and Wilfred Otten and Grinev, {Dmitri V.}",
year = "2009",
month = "7",
doi = "10.1109/ICDSP.2009.5201098",
isbn = "9781424432974",
pages = "1--8",
booktitle = "16th International Conference on Digital Signal Processing",
publisher = "IEEE",

}

Perez-Reche, FJ, Taraskin, SN, Neri, FM, Gilligan, CA, Costa, LDF, Viana, MP, Otten, W & Grinev, DV 2009, Biological invasion in soil: complex network analysis. in 16th International Conference on Digital Signal Processing: proceedings. IEEE , Piscataway, NJ, pp. 1-8, 16th International Conference on Digital Signal Processing, Greece, 5-7 July. DOI: 10.1109/ICDSP.2009.5201098

Biological invasion in soil : complex network analysis. / Perez-Reche, Francisco J.; Taraskin, Sergei N.; Neri, F. M.; Gilligan, Christopher A.; Costa, Luciano da F.; Viana, M. P.; Otten, Wilfred; Grinev, Dmitri V.

16th International Conference on Digital Signal Processing: proceedings. Piscataway, NJ : IEEE , 2009. p. 1-8.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

TY - CHAP

T1 - Biological invasion in soil

T2 - complex network analysis

AU - Perez-Reche,Francisco J.

AU - Taraskin,Sergei N.

AU - Neri,F. M.

AU - Gilligan,Christopher A.

AU - Costa,Luciano da F.

AU - Viana,M. P.

AU - Otten,Wilfred

AU - Grinev,Dmitri V.

PY - 2009/7

Y1 - 2009/7

N2 - A network model for soil pore space is developed and applied to the analysis of biological invasion of microorganisms in soil. The model was parameterized for two soil samples with different compaction (loosely and densely packed) from images derived from an X-ray micro-tomography system. The data were then processed using 3-D imaging techniques, to construct the networks of pore structures with in the soil samples. The network structure is characterized by the measurement of features that are relevant for biological colonization through soil. These include the distribution of channel lengths, node coordination numbers, location and size of channel bottlenecks, and the topology of the largest connected cluster. The pore-space networks are then used to investigate the spread of a microorganism through soil, in which the transmissibility between pores is defined as a function of the channel characteristics. The same spreading process is investigated in artificially constructed homogeneous networks with the same average properties as the original ones. The comparison shows that the extent of invasion is lower in the original networks than in the homogeneous ones: this proves that inherent heterogeneity and correlations contribute to the resilience of the system to biological invasion.

AB - A network model for soil pore space is developed and applied to the analysis of biological invasion of microorganisms in soil. The model was parameterized for two soil samples with different compaction (loosely and densely packed) from images derived from an X-ray micro-tomography system. The data were then processed using 3-D imaging techniques, to construct the networks of pore structures with in the soil samples. The network structure is characterized by the measurement of features that are relevant for biological colonization through soil. These include the distribution of channel lengths, node coordination numbers, location and size of channel bottlenecks, and the topology of the largest connected cluster. The pore-space networks are then used to investigate the spread of a microorganism through soil, in which the transmissibility between pores is defined as a function of the channel characteristics. The same spreading process is investigated in artificially constructed homogeneous networks with the same average properties as the original ones. The comparison shows that the extent of invasion is lower in the original networks than in the homogeneous ones: this proves that inherent heterogeneity and correlations contribute to the resilience of the system to biological invasion.

U2 - 10.1109/ICDSP.2009.5201098

DO - 10.1109/ICDSP.2009.5201098

M3 - Conference contribution

SN - 9781424432974

SP - 1

EP - 8

BT - 16th International Conference on Digital Signal Processing

PB - IEEE

ER -

Perez-Reche FJ, Taraskin SN, Neri FM, Gilligan CA, Costa LDF, Viana MP et al. Biological invasion in soil: complex network analysis. In 16th International Conference on Digital Signal Processing: proceedings. Piscataway, NJ: IEEE . 2009. p. 1-8. Available from, DOI: 10.1109/ICDSP.2009.5201098