Co-Variation of Bacterial and Fungal Communities in Different Sorghum Cultivars and Growth Stages is Soil Dependent

Schlemper, Thiago R.; Veen, Johannes A. van; Kuramae, Eiko E.

doi:10.1007/s00248-017-1108-6

Cited by 57 publications

(38 citation statements)

References 52 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…This process is plant species and genotype specific, but is also influenced by environmental factors such as soil type and temperature (Brader et al 2017;Philippot et al 2013;Schlemper et al 2017). The bacterial rhizobiome is a dynamic microbial network that affects pathogen invasiveness, infection and severity (Chapelle et al 2016;Raaijmakers et al 2009).…”

Section: Indirect Neighbour Effects Via the Root Microbiomementioning

confidence: 99%

Linking ecology and plant pathology to unravel the importance of soil-borne fungal pathogens in species-rich grasslands

et al. 2018

View full text Add to dashboard Cite

Soil-borne fungal diseases are a major problem in agriculture. A century ago, the Dutch plant pathologist Johanna Westerdijk recognized the importance of linking fungal biology with ecology to understand plant disease dynamics. To explore new ways to manage soil-borne fungal disease in agriculture by 'learning from nature', we follow in her footsteps: we link below ground plant-fungal pathogen interactions to ecological settings, i.e. natural grasslands. Ecological research hypothesised that the build-up of 'enemies' is reduced in species-rich vegetation compared to monocultures. To understand how plant diversity can suppress soilborne fungal pathogens, we first need to identify fungal actors in species-rich grasslands. Next-generation sequencing revealed a first glimpse of the potential fungal actors, but their ecological functions often remain elusive. Databases are becoming available to predict the ecological fungal guild, but classic phytopathology studies that isolate and characterize -taxonomically and functionally -, remain essential. Secondly, we need to set-up experiments that reveal ecological mechanisms underlying the complex below ground interactions between plant diversity and fungal pathogens. Several studies suggested that disease incidence of (hostspecific) pathogens is related to abundance of the host plant species. However, recent studies suggest that next to host species density, presence of heterospecific species additionally affects disease dynamics. We explore the direct and indirect ways of these neighboring plants diluting pathogen pressure. We argue that combining the expertise of plant pathologists and ecologists will improve our understanding of belowground plant-fungal pathogen interactions in natural grasslands and contribute to the design of sustainable and productive intercropping strategies in agriculture.

show abstract

Section: Indirect Neighbour Effects Via the Root Microbiomementioning

confidence: 99%

Linking ecology and plant pathology to unravel the importance of soil-borne fungal pathogens in species-rich grasslands

et al. 2018

View full text Add to dashboard Cite

show abstract

“…Particularly, the knowledge of cultivar effects (different plant genotypes) on soil microbial communities remains very limited. In agricultural ecosystems, growing evidence has emerged that the composition and diversity of the soil microbial communities differed among cultivars of crops, including wheat (Germida & Siciliano, 2001;Siciliano, Theoret, Freitas, Hucl, & Germida, 1998), potato (Manter, Delgado, Holm, & Stong, 2010;Weinert et al, 2011), sorghum (Schlemper, Veen, & Kuramae, 2018), and rice (Briones et al, 2002;Feng et al, 2015). To date, however, few studies were conducted to evaluate the effects of cultivars in legumes, such as rhizoma peanut (RP, Arachis glabrata Benth.)…”

Section: Introductionmentioning

confidence: 99%

Effects of rhizoma peanut cultivars (Arachis glabrata Benth.) on the soil bacterial diversity and predicted function in nitrogen fixation

Wang

Hsu

Dubeux

et al. 2019

Ecology and Evolution

View full text Add to dashboard Cite

There is a growing awareness of the importance of soil microorganisms in agricultural management practices. Currently, much less is known about whether different crop cultivar has an effect on the taxonomic structure and diversity, and specific functions of soil bacterial communities. Here, we examined the changes of the diversity and composition and enzyme‐encoding nitrogenase genes in a long‐term field experiment with seven different rhizoma peanut cultivars in southeastern USA, coupling high‐throughput 16S rRNA gene sequencing and the sequence‐based function prediction with Tax4Fun. Of the 32 phyla detected (Proteobacteria class), 13 were dominant: Acidobacteria, Alphaproteobacteria, Actinobacteria, Betaproteobacteria, Bacteroidetes, Verrucomicrobia, Gammaproteobacteria, Deltaproteobacteria, Gemmatimonadetes, Firmicutes, Nitrospirae, Chloroflexi, and Planctomycetes (relative abundance >1%). We found no evidence that the diversity and composition of bacterial communities were significantly different among different cultivars, but the abundance of some dominant bacterial groups that have N‐fixation potentials (at broad or fine taxonomic level) and predicted abundances of some enzyme‐encoding nitrogenase genes showed significant across‐cultivar differences. The nitrogenase genes were notably abundant in Florigraze and Latitude soils while remarkably lower in Arbook and UF_TITO soils when compared with other cultivars, indicating different nitrogen fixation potentials among different cultivars. The findings also suggest that the abundance of certain bacterial taxa and the specific function bacteria perform in ecosystems can have an inherent association. Our study is helpful to understand how microbiological responses and feedback to different plant genotypes through the variation in structure and function of their communities in the rhizosphere.

show abstract

“…It is still a topic of debate whether or not domestication of crops ed from wild ancestor species to cultivated species will have a speci c impact on the microbial communities in the rhizosphere. Although the information revealed by different studies provides a variable picture, most studies do show that crop domestication will lead to directed selection of the rhizosphere microbiome, but such selection will vary depending on the environment [27][28][29]. One of the most interesting observations is that crop domestication seems to have less selective effect on bacteria than on fungi [30,31] which is consistent with the results of our previous study on the comparison of the structure of the rhizomicrobiomes of wild and cultivated rice in natural environments [32].…”

Section: Discussionmentioning

confidence: 99%

Comparison between wild and related cultivated rice species reveals strong impacts of crop domestication on methane metabolism of the rhizomicrobiome

Tian¹,

Chang²,

Shi³

et al. 2020

Preprint

View full text Add to dashboard Cite

Background Rice root-inhabited microbial communities are seriously affected by domestication as evidenced by comparing the rhizomicrobiomes of wild and related cultivated rice species. While earlier studies focused on the structures of the rhizomicrobiomes, here, we compared the functioning of the microbial communities in the rhizosphere of wild versus that of related cultivated rice species, which were originated from Africa and Asia. Results The microbial functions involved in carbon metabolism and nucleotide metabolism were found to be enriched in wild rice species, whereas those involved in nitrogen metabolism, lipid metabolism, metabolism of cofactors and vitamins, and xenobiotic biodegradation were more enriched in cultivated rice species. Among the overall carbon metabolism, specifically, methane metabolism of the rhizomicrobiomes clearly differed between wild and cultivated rice. The key enzymes in methane production and utilization were overrepresented in wild rice species, suggesting that the rhizomicrobiome of wild rice maintained a better ecological balance for methane production and utilization than the related cultivated rice species. Conclusions For the first time, the impacts of rice domestication on the main metabolic pathways of the rhizomicrobiome were assessed, which revealed the strong impacts of rice domestication on methane metabolism that is one of the most critical functions of the microbial community of the rhizosphere of rice. The results provide important guidelines for future breeding and cultivation of rice in the framework of more sustainable rice production.

show abstract

Co-Variation of Bacterial and Fungal Communities in Different Sorghum Cultivars and Growth Stages is Soil Dependent

Cited by 57 publications

References 52 publications

Linking ecology and plant pathology to unravel the importance of soil-borne fungal pathogens in species-rich grasslands

Linking ecology and plant pathology to unravel the importance of soil-borne fungal pathogens in species-rich grasslands

Effects of rhizoma peanut cultivars (Arachis glabrata Benth.) on the soil bacterial diversity and predicted function in nitrogen fixation

Comparison between wild and related cultivated rice species reveals strong impacts of crop domestication on methane metabolism of the rhizomicrobiome

Contact Info

Product

Resources

About