Role of root microbiota in plant productivity

Tkacz, Andrzej; Poole, Philip S.

doi:10.1093/jxb/erv157

Cited by 184 publications

(115 citation statements)

References 111 publications

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“…AMF thrive in the form of spores in soil until they attach plant as they are incapable of completing their life cycle independently (Tkacz and Poole, 2015). They germinated and released hyphae in the vicinity of host roots, and then hyphal branching stimulated in response to plant strigolactones.…”

Section: Interactions Between Plants and Mycorrhizal Fungimentioning

confidence: 99%

The Role of Soil Microbes in Promoting Plant Growth

Li¹,

Peng²,

Liu³

et al. 2017

mmr

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More and more food is needed all over the world in order to meet rapidly growing population demands, while the modern agriculture on increasing output has already reached its limit. It is badly in need to cultivate new crop varieties for increase the yield and resistant to environmental stress and insects. However, crops are still need to provide the necessary fertilizer nutrients which is insufficient in soil. Recently, many evidences showed that soil microbes provide an opportunity for reducing agricultural demand in inorganic fertilizer. Microorganisms, due to their huge gene pool, are also used for a potential resource in biochemical reactions, which recycle nutrients for plant growth. Therefore, we need to modify and better use of soil microbiota to promote plant growth. In this review, we mainly summarized the role of soil microbiota by explaining the ecological balance, nitrogen fixation, nutrient elements, interactions and communication medium.

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Section: Interactions Between Plants and Mycorrhizal Fungimentioning

confidence: 99%

The Role of Soil Microbes in Promoting Plant Growth

Li¹,

Peng²,

Liu³

et al. 2017

mmr

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“…While abiotic soil characteristics such as pH, soil types, and trace elements can strongly influence a microbiome composition (Xu et al, 2009; Tkacz and Poole, 2015), biological factors such as plant species or genotypes can also influence a soil microbiome composition, resulting in taxonomic difference between genotypes (Peiffer et al, 2013; Lakshmanan, 2015). Accordingly, a soil microbiome composition could depend on abiotic and biotic factors, and variations in these factors may cause differences in crop productivity (Tkacz and Poole, 2015). Soybean [ Glycine max (L.) Merr.]…”

Section: Introductionmentioning

confidence: 99%

Metagenome-Wide Association Study and Machine Learning Prediction of Bulk Soil Microbiome and Crop Productivity

et al. 2017

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Areas within an agricultural field in the same season often differ in crop productivity despite having the same cropping history, crop genotype, and management practices. One hypothesis is that abiotic or biotic factors in the soils differ between areas resulting in these productivity differences. In this study, bulk soil samples collected from a high and a low productivity area from within six agronomic fields in Illinois were quantified for abiotic and biotic characteristics. Extracted DNA from these bulk soil samples were shotgun sequenced. While logistic regression analyses resulted in no significant association between crop productivity and the 26 soil characteristics, principal coordinate analysis and constrained correspondence analysis showed crop productivity explained a major proportion of the taxa variance in the bulk soil microbiome. Metagenome-wide association studies (MWAS) identified more Bradyrhizodium and Gammaproteobacteria in higher productivity areas and more Actinobacteria, Ascomycota, Planctomycetales, and Streptophyta in lower productivity areas. Machine learning using a random forest method successfully predicted productivity based on the microbiome composition with the best accuracy of 0.79 at the order level. Our study showed that crop productivity differences were associated with bulk soil microbiome composition and highlighted several nitrogen utility-related taxa. We demonstrated the merit of MWAS and machine learning for the first time in a plant-microbiome study.

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“…Other recent studies have focused on rhizospheric soil microbiota of soybean ( Glycine max ) in Amazon field environments and corn ( Zea mays) in production fields in the United States1819. Regardless of these foundational works, we know little about root microbiomes from crops and further research on root and rhizospheric soil microbiomes of commercial crops and non-model plants is currently highly required122021. For instance, no research to-date has explored root-associated microbiomes of wheat ( Triticum aestivum ) and soybean in field conditions using high-throughput sequencing techniques, despite the fact that these are the fourth and ninth most produced crops in the world22.…”

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confidence: 99%

Integrated analysis of root microbiomes of soybean and wheat from agricultural fields

Rascovan

Carbonetto

Perrig³

et al. 2016

Sci Rep

172

112

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Root associated bacteria are critical for plant growth and health. Understanding the composition and role of root microbiota is crucial toward agricultural practices that are less dependent on chemical fertilization, which has known negative effects on the environment and human health. Here we analyzed the root-associated microbiomes of soybean and wheat under agricultural field conditions. We took samples from 11 different production fields across a large geographic area. We used 16S rRNA pyrosequencing to explore root microbial communities and also obtained 2,007 bacterial isolates from rhizospheres, which were tested for the presence of plant growth promoting (PGP) traits in-vitro. We observed that pH and nitrate content correlated with beta diversity variability of rhizospheric bacterial communities despite the variable field conditions. We described the dominant bacterial groups associated to roots from both crops at a large geographic scale and we found that a high proportion of them (60–70%) showed more than 97% similarity to bacteria from the isolated collection. Moreover, we observed that 55% of the screened isolates presented PGP activities in vitro. These results are a significant step forward in understanding crop-associated microbiomes and suggest that new directions can be taken to promote crop growth and health by modulating root microbiomes.

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Role of root microbiota in plant productivity

Cited by 184 publications

References 111 publications

The Role of Soil Microbes in Promoting Plant Growth

The Role of Soil Microbes in Promoting Plant Growth

Metagenome-Wide Association Study and Machine Learning Prediction of Bulk Soil Microbiome and Crop Productivity

Integrated analysis of root microbiomes of soybean and wheat from agricultural fields

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