Integrated metagenomics and molecular ecological network analysis of bacterial community composition during the phytoremediation of cadmium-contaminated soils by bioenergy crops.

Two energy crops (maize and soybean) were used in the remediation of cadmium-contaminated soils. These crops were used because they are fast growing, have a large biomass and are good sources for bioenergy production. The total accumulation of cadmium in maize and soybean plants was 393.01 and 263.24μg pot-1, respectively. The rhizosphere bacterial community composition was studied by MiSeq sequencing. Phylogenetic analysis was performed using 16S rRNA gene sequences. The rhizosphere bacteria were divided into 33 major phylogenetic groups according to phyla. The dominant phylogenetic groups included Proteobacteria, Acidobacteria, Actinobacteria, Gemmatimonadetes, and Bacteroidetes. Based on principal component analysis (PCA) and unweighted pair group with arithmetic mean (UPGMA) analysis, we found that the bacterial community was influenced by cadmium addition and bioenergy cropping. Three molecular ecological networks were constructed for the unplanted, soybean- and maize-planted bacterial communities grown in 50mgkg-1 cadmium-contaminated soils. The results indicated that bioenergy cropping increased the complexity of the bacterial community network as evidenced by a higher total number of nodes, the average geodesic distance (GD), the modularity and a shorter geodesic distance. Proteobacteria and Acidobacteria were the keystone bacteria connecting different co-expressed operational taxonomic units (OTUs). The results showed that bioenergy cropping altered the topological roles of individual OTUs and keystone populations. This is the first study to reveal the effects of bioenergy cropping on microbial interactions in the phytoremediation of cadmium-contaminated soils by network reconstruction. This method can greatly enhance our understanding of the mechanisms of plant-microbe-metal interactions in metal-polluted ecosystems.

Chen Z ，Zheng Y ，Ding C ，Ren X ，Yuan J ，Sun F ，Li Y ... -  《-》

Dynamic changes of rhizosphere soil bacterial community and nutrients in cadmium polluted soils with soybean-corn intercropping.

Soybean-corn intercropping is widely practised by farmers in Southwest China. Although rhizosphere microorganisms are important in nutrient cycling processes, the differences in rhizosphere microbial communities between intercropped soybean and corn and their monoculture are poorly known. Additionally, the effects of cadmium (Cd) pollution on these differences have not been examined. Therefore, a field experiment was conducted in Cd-polluted soil to determine the effects of monocultures and soybean-corn intercropping systems on Cd concentrations in plants, on rhizosphere bacterial communities, soil nutrients and Cd availability. Plants and soils were examined five times in the growing season, and Illumina sequencing of 16S rRNA genes was used to analyze the rhizosphere bacterial communities. Intercropping did not alter Cd concentrations in corn and soybean, but changed soil available Cd (ACd) concentrations and caused different effects in the rhizosphere soils of the two crop species. However, there was little difference in bacterial community diversity for the same crop species under the two planting modes. Proteobacteria, Chloroflexi, Acidobacteria, Actinobacteria and Firmicutes were the dominant phyla in the soybean and corn rhizospheres. In ecological networks of bacterial communities, intercropping soybean (IS) had more module hubs and connectors, whereas intercropped corn (IC) had fewer module hubs and connectors than those of corresponding monoculture crops. Soil organic matter (SOM) was the key factor affecting soybean rhizosphere bacterial communities, whereas available nutrients (N, P, K) were the key factors affecting those in corn rhizosphere. During the cropping season, the concentration of soil available phosphorus (AP) in the intercropped soybean-corn was significantly higher than that in corresponding monocultures. In addition, the soil available potassium (AK) concentration was higher in intercropped soybean than that in monocropped soybean. Intercropped soybean-corn lead to an increase in the AP concentration during the growing season, and although crop absorption of Cd was not affected in the Cd-contaminated soil, soil ACd concentration was affected. Intercropped soybean-corn also affected the soil physicochemical properties and rhizosphere bacterial community structure. Thus, intercropped soybean-corn was a key factor in determining changes in microbial community composition and networks. These results provide a basic ecological framework for soil microbial function in Cd-contaminated soil.

Li H ，Luo L ，Tang B ，Guo H ，Cao Z ，Zeng Q ，Chen S ，Chen Z ... -  《BMC MICROBIOLOGY》

Assembly patterns and key taxa of bacterial communities in the rhizosphere soil of moso bamboo (Phyllostachys pubescens) under different Cd and Pb pollution.

Wu Y ，He H ，Ren J ，Shen H ，Sahito ZA ，Li B ，Tang X ，Tao Q ，Huang R ，Wang C ... -  《-》

Responses of soil bacterial community and Cd phytoextraction to a Sedum alfredii-oilseed rape (Brassica napus L. and Brassica juncea L.) intercropping system.

Soil pollution with heavy metals has become a common problem in agricultural ecosystems and poses a threat to food safety and human health. Intercropping is now considered a promising alternative to address this issue. However, our understandings about the influences of intercropping systems on rhizosphere microbiota composition and their association with plant performance are still limited. In this study, rhizobox microcosm experiments were conducted to investigate the influence of cropping regimes (i.e. monoculture and intercropping) on the rhizosphere bacterial microbiota and their linkages with the phytoextraction of cadmium (Cd) by Zhongyouza 19 (Brassica napus L.), Xikou Huazi (Brassica juncea L.) and Sedum alfredii using 16S rRNA gene sequencing. Cadmium accumulation in shoots of B. napus and B. juncea grown under intercropping were enhanced by 370% and 27.8% respectively, as compared to monoculture. Soil compartmentation as a major determinant explained 57.6% of the rhizosphere bacterial microbiota variation, whereas plant species and cropping regime accounted for 26.4% of the variation. The overall abundance of the taxa was Proteobacteria, Acidobacteria, Bacteroidetes, Chloroflexi, Verrucomicrobia, and Actinobacteria. Intercropping significantly enriched amplicon sequence variants (ASVs) abundance belonging to Actinobacteria, Bacilli, Deltaproteobacteria while depleting that of Acidobacteria in rhizosphere. Intercropping with S. alfredii influenced more on microbial composition of B. napus rhizosphere. The change in rhizosphere bacterial communities was related to metal availability, soil properties, and plant parameters. The enriched families of Pedosphaeraceae, Ruminococcaceae, Chitinophagaceae, Gemmatimonadaceae, Nitrosomonadaceae, and Parachlamydiaceae were positively correlated with metal concentration in plants. These results indicate that S. alfredii and oilseed rape intercropping could be a promising approach for enhancing the remediation of Cd contaminated soil. Understanding the complex plant-microbe-metal interactions of intercropping system could facilitate the development of remediation strategy for phytoremediation of contaminated soils and sustainable agricultural production.

Cao X ，Luo J ，Wang X ，Chen Z ，Liu G ，Khan MB ，Kang KJ ，Feng Y ，He Z ，Yang X ... -  《-》

[Shifts in Rhizosphere Bacterial Community Structure, Co-occurrence Network, and Function of Miscanthus Following Cadmium Exposure].

Chen ZJ ，Lin LA ，Li YJ ，Chen Y ，Zhang H ，Han H ，Wu NC ，Nicola F ，Li YY ，Ren XM ... -  《-》