Multivariate Analyses of
            <i>Burkholderia</i>
            Species in Soil: Effect of Crop and Land Use History

Salles, Joana Falcão; Veen, J.A. van; Elsas, Jan Dirk van

doi:10.1128/aem.70.7.4012-4020.2004

Cited by 156 publications

(111 citation statements)

References 40 publications

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“…Proteobacteria, and the order Burkholderiales in particular, have been shown previously to be enriched in the maize rhizosphere (8,30,31). Recent studies in Oak (32) and A. thaliana (10,11) have also noted a rhizosphere (and endophyte in Arabidopsis) enrichment of Proteobacteria.…”

Section: Discussionmentioning

confidence: 93%

Diversity and heritability of the maize rhizosphere microbiome under field conditions

Peiffer

Spor

Koren

et al. 2013

Proc. Natl. Acad. Sci. U.S.A.

1,565

124

1,072

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The rhizosphere is a critical interface supporting the exchange of resources between plants and their associated soil environment. Rhizosphere microbial diversity is influenced by the physical and chemical properties of the rhizosphere, some of which are determined by the genetics of the host plant. However, within a plant species, the impact of genetic variation on the composition of the microbiota is poorly understood. Here, we characterized the rhizosphere bacterial diversity of 27 modern maize inbreds possessing exceptional genetic diversity grown under field conditions. Randomized and replicated plots of the inbreds were planted in five field environments in three states, each with unique soils and management conditions. Using pyrosequencing of bacterial 16S rRNA genes, we observed substantial variation in bacterial richness, diversity, and relative abundances of taxa between bulk soil and the maize rhizosphere, as well as between fields. The rhizospheres from maize inbreds exhibited both a small but significant proportion of heritable variation in total bacterial diversity across fields, and substantially more heritable variation between replicates of the inbreds within each field. The results of this study should facilitate expanded studies to identify robust heritable plant-microbe interactions at the level of individual polymorphisms by genome wide association, so that plant-microbiome interactions can ultimately be incorporated into plant breeding.

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Section: Discussionmentioning

confidence: 93%

Diversity and heritability of the maize rhizosphere microbiome under field conditions

Peiffer

Spor

Koren

et al. 2013

Proc. Natl. Acad. Sci. U.S.A.

1,565

124

1,072

View full text Add to dashboard Cite

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“…These include members of Burkholderia and Pseudomonas, two genera known to degrade a wide variety of organic compounds and previously implicated in lignocellulose degradation (Harazono et al, 2003;Mohana et al, 2008;Cheng and Chang, 2011). Both genera occupy diverse ecological niches, as soil and aquatic heterotrophs, plant mutualists as well as plant and animal opportunistic pathogens (Coenye and Vandamme, 2003;Salles et al, 2004). Abbreviations: Ec., ecozone; ns, not significant.…”

Section: Discussionmentioning

confidence: 99%

Long-term effects of timber harvesting on hemicellulolytic microbial populations in coniferous forest soils

et al. 2015

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Forest ecosystems need to be sustainably managed, as they are major reservoirs of biodiversity, provide important economic resources and modulate global climate. We have a poor knowledge of populations responsible for key biomass degradation processes in forest soils and the effects of forest harvesting on these populations. Here, we investigated the effects of three timber-harvesting methods, varying in the degree of organic matter removal, on putatively hemicellulolytic bacterial and fungal populations 10 or more years after harvesting and replanting. We used stable-isotope probing to identify populations that incorporated 13C from labeled hemicellulose, analyzing 13C-enriched phospholipid fatty acids, bacterial 16 S rRNA genes and fungal ITS regions. In soil microcosms, we identified 104 bacterial and 52 fungal hemicellulolytic operational taxonomic units (OTUs). Several of these OTUs are affiliated with taxa not previously reported to degrade hemicellulose, including the bacterial genera Methylibium, Pelomonas and Rhodoferax, and the fungal genera Cladosporium, Pseudeurotiaceae, Capronia, Xenopolyscytalum and Venturia. The effect of harvesting on hemicellulolytic populations was evaluated based on in situ bacterial and fungal OTUs. Harvesting treatments had significant but modest long-term effects on relative abundances of hemicellulolytic populations, which differed in strength between two ecozones and between soil layers. For soils incubated in microcosms, prior harvesting treatments did not affect the rate of incorporation of hemicellulose carbon into microbial biomass. In six ecozones across North America, distributions of the bacterial hemicellulolytic OTUs were similar, whereas distributions of fungal ones differed. Our work demonstrates that diverse taxa in soil are hemicellulolytic, many of which are differentially affected by the impact of harvesting on environmental conditions. However, the hemicellulolytic capacity of soil communities appears resilient.

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“…The composition of plant root exudates can vary by plant species, and even cultivars within a species [119][120][121], resulting in concomitant changes in the composition of the soil microbial community [122][123][124].…”

Section: Specific Approach: Plant Selection and Microbial Amendmentsmentioning

confidence: 99%

Understanding and Enhancing Soil Biological Health: The Solution for Reversing Soil Degradation

et al. 2015

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Our objective is to provide an optimistic strategy for reversing soil degradation by increasing public and private research efforts to understand the role of soil biology, particularly microbiology, on the health of our world's soils. We begin by defining soil quality/soil health (which we consider to be interchangeable terms), characterizing healthy soil resources, and relating the significance of soil health to agroecosystems and their functions. We examine how soil biology influences soil health and how biological properties and processes contribute to sustainability of agriculture and ecosystem services. We continue by examining what can be done to manipulate soil biology to: (i) increase nutrient availability for production of high yielding, high quality crops; (ii) protect crops from pests, pathogens, weeds; and (iii) manage other factors limiting production, provision of ecosystem services, and resilience to stresses like droughts. Next we look to the future by asking what needs to be known about soil biology that is not currently recognized or fully understood and how these needs could be addressed using emerging research tools. We conclude, based on our perceptions of how new knowledge regarding soil biology will help make agriculture more sustainable and productive, by recommending research emphases that should receive first priority through enhanced public and private research in order to reverse the trajectory toward global soil degradation.

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Multivariate Analyses of Burkholderia Species in Soil: Effect of Crop and Land Use History

Cited by 156 publications

References 40 publications

Diversity and heritability of the maize rhizosphere microbiome under field conditions

Diversity and heritability of the maize rhizosphere microbiome under field conditions

Long-term effects of timber harvesting on hemicellulolytic microbial populations in coniferous forest soils

Understanding and Enhancing Soil Biological Health: The Solution for Reversing Soil Degradation

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