Effects of management regime and plant species on the enzyme activity and genetic structure of N-fixing, denitrifying and nitrifying bacterial communities in grassland soils

A. K. Patra, L. Abbadie, A. Clays-Josserand, V. Degrange, S. J. Grayston, N. Guillaumaud, P. Loiseau, F. Louault, Shahid Mahmood, S. Nazaret, L. Philipott, F. Poly, James Ivor Prosser, I. Le Roux

Research output: Contribution to journalArticle

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Abstract

Management by combined grazing and mowing events is commonly used in grasslands, which influences the activity and composition of soil bacterial communities. Whether observed effects are mediated by management-induced disturbances, or indirectly by changes in the identity of major plant species, is still unknown. To address this issue, we quantified substrate-induced respiration (SIR), and the nitrification, denitrification and free-living N-2-fixation enzyme activities below grass tufts of three major plant species (Holcus lanatus, Arrhenatherum elatius and Dactylis glomerata) in extensively or intensively managed grasslands. The genetic structures of eubacterial, ammonia oxidizing, nitrate reducing, and free-living N-2-fixing communities were also characterized by ribosomal intergenic spacer analysis, and denaturing gradient gel electrophoresis (DGGE) or restriction fragment length polymorphism (RFLP) targeting group-specific genes. SIR was not influenced by management and plant species, whereas denitrification enzyme activity was influenced only by plant species, and management-plant species interactions were observed for fixation and nitrification enzyme activities. Changes in nitrification enzyme activity were likely largely explained by the observed changes in ammonium concentration, whereas N availability was not a major factor explaining changes in denitrification and fixation enzyme activities. The structures of eubacterial and free-living N2-fixing communities were essentially controlled by management, whereas the diversity of nitrate reducers and ammonia oxidizers depended on both management and plant species. For each functional group, changes in enzyme activity were not correlated or were weakly correlated to overall changes in genetic structure, but around 60% of activity variance was correlated to changes in five RFLP or DGGE bands. Although our conclusions should be tested for other ecosystems and seasons, these results show that predicting microbial changes induced by management in grasslands requires consideration of management-plant species interactions.

Original languageEnglish
Pages (from-to)1005-1016
Number of pages11
JournalEnvironmental Microbiology
Volume8
DOIs
Publication statusPublished - 2006

Keywords

  • AMMONIA-OXIDIZING BACTERIA
  • GRADIENT GEL-ELECTROPHORESIS
  • MICROBIAL BIOMASS
  • TALLGRASS PRAIRIE
  • MOLECULAR ANALYSIS
  • NITROGEN
  • DENITRIFICATION
  • DIVERSITY
  • NUTRIENT
  • POPULATIONS

Cite this

Effects of management regime and plant species on the enzyme activity and genetic structure of N-fixing, denitrifying and nitrifying bacterial communities in grassland soils. / Patra, A. K.; Abbadie, L.; Clays-Josserand, A.; Degrange, V.; Grayston, S. J.; Guillaumaud, N.; Loiseau, P.; Louault, F.; Mahmood, Shahid; Nazaret, S.; Philipott, L.; Poly, F.; Prosser, James Ivor; Le Roux, I.

In: Environmental Microbiology, Vol. 8, 2006, p. 1005-1016.

Research output: Contribution to journalArticle

Patra, AK, Abbadie, L, Clays-Josserand, A, Degrange, V, Grayston, SJ, Guillaumaud, N, Loiseau, P, Louault, F, Mahmood, S, Nazaret, S, Philipott, L, Poly, F, Prosser, JI & Le Roux, I 2006, 'Effects of management regime and plant species on the enzyme activity and genetic structure of N-fixing, denitrifying and nitrifying bacterial communities in grassland soils', Environmental Microbiology, vol. 8, pp. 1005-1016. https://doi.org/10.1111/j.1462-2920.2006.00992.x
Patra, A. K. ; Abbadie, L. ; Clays-Josserand, A. ; Degrange, V. ; Grayston, S. J. ; Guillaumaud, N. ; Loiseau, P. ; Louault, F. ; Mahmood, Shahid ; Nazaret, S. ; Philipott, L. ; Poly, F. ; Prosser, James Ivor ; Le Roux, I. / Effects of management regime and plant species on the enzyme activity and genetic structure of N-fixing, denitrifying and nitrifying bacterial communities in grassland soils. In: Environmental Microbiology. 2006 ; Vol. 8. pp. 1005-1016.
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abstract = "Management by combined grazing and mowing events is commonly used in grasslands, which influences the activity and composition of soil bacterial communities. Whether observed effects are mediated by management-induced disturbances, or indirectly by changes in the identity of major plant species, is still unknown. To address this issue, we quantified substrate-induced respiration (SIR), and the nitrification, denitrification and free-living N-2-fixation enzyme activities below grass tufts of three major plant species (Holcus lanatus, Arrhenatherum elatius and Dactylis glomerata) in extensively or intensively managed grasslands. The genetic structures of eubacterial, ammonia oxidizing, nitrate reducing, and free-living N-2-fixing communities were also characterized by ribosomal intergenic spacer analysis, and denaturing gradient gel electrophoresis (DGGE) or restriction fragment length polymorphism (RFLP) targeting group-specific genes. SIR was not influenced by management and plant species, whereas denitrification enzyme activity was influenced only by plant species, and management-plant species interactions were observed for fixation and nitrification enzyme activities. Changes in nitrification enzyme activity were likely largely explained by the observed changes in ammonium concentration, whereas N availability was not a major factor explaining changes in denitrification and fixation enzyme activities. The structures of eubacterial and free-living N2-fixing communities were essentially controlled by management, whereas the diversity of nitrate reducers and ammonia oxidizers depended on both management and plant species. For each functional group, changes in enzyme activity were not correlated or were weakly correlated to overall changes in genetic structure, but around 60{\%} of activity variance was correlated to changes in five RFLP or DGGE bands. Although our conclusions should be tested for other ecosystems and seasons, these results show that predicting microbial changes induced by management in grasslands requires consideration of management-plant species interactions.",
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T1 - Effects of management regime and plant species on the enzyme activity and genetic structure of N-fixing, denitrifying and nitrifying bacterial communities in grassland soils

AU - Patra, A. K.

AU - Abbadie, L.

AU - Clays-Josserand, A.

AU - Degrange, V.

AU - Grayston, S. J.

AU - Guillaumaud, N.

AU - Loiseau, P.

AU - Louault, F.

AU - Mahmood, Shahid

AU - Nazaret, S.

AU - Philipott, L.

AU - Poly, F.

AU - Prosser, James Ivor

AU - Le Roux, I.

PY - 2006

Y1 - 2006

N2 - Management by combined grazing and mowing events is commonly used in grasslands, which influences the activity and composition of soil bacterial communities. Whether observed effects are mediated by management-induced disturbances, or indirectly by changes in the identity of major plant species, is still unknown. To address this issue, we quantified substrate-induced respiration (SIR), and the nitrification, denitrification and free-living N-2-fixation enzyme activities below grass tufts of three major plant species (Holcus lanatus, Arrhenatherum elatius and Dactylis glomerata) in extensively or intensively managed grasslands. The genetic structures of eubacterial, ammonia oxidizing, nitrate reducing, and free-living N-2-fixing communities were also characterized by ribosomal intergenic spacer analysis, and denaturing gradient gel electrophoresis (DGGE) or restriction fragment length polymorphism (RFLP) targeting group-specific genes. SIR was not influenced by management and plant species, whereas denitrification enzyme activity was influenced only by plant species, and management-plant species interactions were observed for fixation and nitrification enzyme activities. Changes in nitrification enzyme activity were likely largely explained by the observed changes in ammonium concentration, whereas N availability was not a major factor explaining changes in denitrification and fixation enzyme activities. The structures of eubacterial and free-living N2-fixing communities were essentially controlled by management, whereas the diversity of nitrate reducers and ammonia oxidizers depended on both management and plant species. For each functional group, changes in enzyme activity were not correlated or were weakly correlated to overall changes in genetic structure, but around 60% of activity variance was correlated to changes in five RFLP or DGGE bands. Although our conclusions should be tested for other ecosystems and seasons, these results show that predicting microbial changes induced by management in grasslands requires consideration of management-plant species interactions.

AB - Management by combined grazing and mowing events is commonly used in grasslands, which influences the activity and composition of soil bacterial communities. Whether observed effects are mediated by management-induced disturbances, or indirectly by changes in the identity of major plant species, is still unknown. To address this issue, we quantified substrate-induced respiration (SIR), and the nitrification, denitrification and free-living N-2-fixation enzyme activities below grass tufts of three major plant species (Holcus lanatus, Arrhenatherum elatius and Dactylis glomerata) in extensively or intensively managed grasslands. The genetic structures of eubacterial, ammonia oxidizing, nitrate reducing, and free-living N-2-fixing communities were also characterized by ribosomal intergenic spacer analysis, and denaturing gradient gel electrophoresis (DGGE) or restriction fragment length polymorphism (RFLP) targeting group-specific genes. SIR was not influenced by management and plant species, whereas denitrification enzyme activity was influenced only by plant species, and management-plant species interactions were observed for fixation and nitrification enzyme activities. Changes in nitrification enzyme activity were likely largely explained by the observed changes in ammonium concentration, whereas N availability was not a major factor explaining changes in denitrification and fixation enzyme activities. The structures of eubacterial and free-living N2-fixing communities were essentially controlled by management, whereas the diversity of nitrate reducers and ammonia oxidizers depended on both management and plant species. For each functional group, changes in enzyme activity were not correlated or were weakly correlated to overall changes in genetic structure, but around 60% of activity variance was correlated to changes in five RFLP or DGGE bands. Although our conclusions should be tested for other ecosystems and seasons, these results show that predicting microbial changes induced by management in grasslands requires consideration of management-plant species interactions.

KW - AMMONIA-OXIDIZING BACTERIA

KW - GRADIENT GEL-ELECTROPHORESIS

KW - MICROBIAL BIOMASS

KW - TALLGRASS PRAIRIE

KW - MOLECULAR ANALYSIS

KW - NITROGEN

KW - DENITRIFICATION

KW - DIVERSITY

KW - NUTRIENT

KW - POPULATIONS

U2 - 10.1111/j.1462-2920.2006.00992.x

DO - 10.1111/j.1462-2920.2006.00992.x

M3 - Article

VL - 8

SP - 1005

EP - 1016

JO - Environmental Microbiology

JF - Environmental Microbiology

SN - 1462-2912

ER -