Pyrosequencing and mid-infrared spectroscopy reveal distinct aggregate stratification of soil bacterial communities and organic matter composition

This study integrated physical, chemical, and molecular techniques to assess relationships between soil bacterial community structures and the quantity and quality of soil organic carbon (SOC) at the soil microenvironment scale (e.g., within different aggregate size-fractions). To accomplish this go...

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Bibliographic Details
Published in:Soil biology & biochemistry 2012-03, Vol.46, p.63-72
Main Authors: Davinic, Marko, Fultz, Lisa M., Acosta-Martinez, Veronica, Calderón, Francisco J., Cox, Stephen B., Dowd, Scot E., Allen, Vivien G., Zak, John C., Moore-Kucera, Jennifer
Format: Article
Language:English
Subjects:
Actinobacteria
Aggregate-size fractions
Agronomy. Soil science and plant productions
Biochemistry and biology
Biological and medical sciences
Chemical, physicochemical, biochemical and biological properties
Fundamental and applied biological sciences. Psychology
Mid-IR spectroscopy
Organic matter
Physics, chemistry, biochemistry and biology of agricultural and forest soils
Pyrosequencing
Soil bacterial communities
Soil science
UniFrac
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Summary:This study integrated physical, chemical, and molecular techniques to assess relationships between soil bacterial community structures and the quantity and quality of soil organic carbon (SOC) at the soil microenvironment scale (e.g., within different aggregate size-fractions). To accomplish this goal, soil samples (0–5 cm) were collected from the Texas High Plains region under a variety of dryland and irrigated cropping systems. The soil was separated into macroaggregates, microaggregates, and silt + clay fractions that were analyzed for (1) bacterial diversity via pyrosequencing of the 16s rRNA gene and (2) SOC quantity and quality using a combustion method and mid-infrared diffuse reflectance spectroscopy (mid-IR), respectively. Results from pyrosequencing showed that each soil microenvironment supported a distinct bacterial community. Similarly, mid-IR data revealed distinct spectral features indicating that these fractions were also distinguished by organic and mineral composition. Macroaggregates showed relatively high abundance of Actinobacteria (excluding order Rubrobacteriales) and α- Proteobacteria and contained the most SOC. Microaggregates showed high relative abundance of Rubrobacteriales and the least amount of SOC. Predominance within the soil microenvironment and correlations along the mid-IR spectra were different between members of the order Rubrobacteriales compared with all other members of the Actinobacteria phyla, suggesting they have different ecological niches. Mid-IR results revealed microaggregates had greater absorbance in the 1370–1450 cm −1 region for phenolic and alkyl groups (possibly recalcitrant C). Silt + clay fractions were distinguished by Gemmatimonadetes and OP10 phyla, which positively correlated with spectral absorption in the1250–1150 cm −1 range (indicating both degradable and recalcitrant C forms). In contrast to general diversity index measurements, distributions of the more rare bacterial phyla (phyla representing
ISSN:0038-0717
1879-3428
DOI:10.1016/j.soilbio.2011.11.012