Spatial and Species Variations of Bacterial Community Structure and Putative Function in Seagrass Rhizosphere Sediment

Ling, Juan; Zhou, Wan; Yang, Qingsong; Yin, Jingdong; Zhang, Jian; Peng, Qiuying; Huang, Xiaofang; Zhang, Yuhang; Dong, Junde

doi:10.3390/life11080852

Cited by 8 publications

(4 citation statements)

References 67 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…RDA indicated that the manganese cycle was positively correlated with EC and negatively correlated with TN, AP, and AK. Aerobic chemoheterotrophy and chemoheterotrophy, which involve organic carbon metabolism and are closely related to the circulation of organic matter and flow of energy in the system [52,53], were significantly enriched in the rhizosphere of wild rice grown in STSI compared with the other in situ wild rice populations, whereas these functions did not differ significantly among the ex situ populations. Aerobic chemoheterotrophy was also positively correlated with rhizosphere soil pH.…”

Section: Discussionmentioning

confidence: 93%

Nitrogen, manganese, iron, and carbon resource acquisition are potential functions of the wild rice Oryza rufipogon core rhizomicrobiome

et al. 2022

View full text Add to dashboard Cite

Background The assembly of the rhizomicrobiome, i.e., the microbiome in the soil adhering to the root, is influenced by soil conditions. Here, we investigated the core rhizomicrobiome of a wild plant species transplanted to an identical soil type with small differences in chemical factors and the impact of these soil chemistry differences on the core microbiome after long-term cultivation. We sampled three natural reserve populations of wild rice (i.e., in situ) and three populations of transplanted in situ wild rice grown ex situ for more than 40 years to determine the core wild rice rhizomicrobiome. Results Generalized joint attribute modeling (GJAM) identified a total of 44 amplicon sequence variants (ASVs) composing the core wild rice rhizomicrobiome, including 35 bacterial ASVs belonging to the phyla Actinobacteria, Chloroflexi, Firmicutes, and Nitrospirae and 9 fungal ASVs belonging to the phyla Ascomycota, Basidiomycota, and Rozellomycota. Nine core bacterial ASVs belonging to the genera Haliangium, Anaeromyxobacter, Bradyrhizobium, and Bacillus were more abundant in the rhizosphere of ex situ wild rice than in the rhizosphere of in situ wild rice. The main ecological functions of the core microbiome were nitrogen fixation, manganese oxidation, aerobic chemoheterotrophy, chemoheterotrophy, and iron respiration, suggesting roles of the core rhizomicrobiome in improving nutrient resource acquisition for rice growth. The function of the core rhizosphere bacterial community was significantly (p < 0.05) shaped by electrical conductivity, total nitrogen, and available phosphorus present in the soil adhering to the roots. Conclusion We discovered that nitrogen, manganese, iron, and carbon resource acquisition are potential functions of the core rhizomicrobiome of the wild rice Oryza rufipogon. Our findings suggest that further potential utilization of the core rhizomicrobiome should consider the effects of soil properties on the abundances of different genera.

show abstract

Section: Discussionmentioning

confidence: 93%

Nitrogen, manganese, iron, and carbon resource acquisition are potential functions of the wild rice Oryza rufipogon core rhizomicrobiome

et al. 2022

View full text Add to dashboard Cite

show abstract

“…For example, promoting an endophytic bacteriome with higher nitrate processing potential within the plant body may help reduce the exogenous application of nitrogen fertilizers, which is often costly and detrimental for the environment due to its accumulation in the ground water [36]. In addition to promote N cycling, H. seropedicae inoculation in I roots treatment promoted a higher proportion of putative chemoheterotrophic bacteria, which may be explained by a higher circulation of organic matter and ow of energy within the I root system [37]. Although this function has been shown to be enriched in rhizosphere environment [38], this is the rst report of its potential increased activity in the endosphere, where a higher proportion of bacteria may need to acquire carbon sources and energy by the oxidation of organic compounds, possibly promoting their degradation and increase the nutrient content in the endosphere.…”

Section: Discussionmentioning

confidence: 99%

Root inoculation with Herbaspirillum seropedicae RAM10 reveals structural and functional shifts in the wheat seed-borne microbiota associated with improved plant phenotype

Carril,

Ngendahimana,

Tenreiro

et al. 2023

Preprint

View full text Add to dashboard Cite

Exploiting the beneficial features of the plant microbiota is a promising approach to improve cereal growth and health in a more sustainable manner. Seed-borne endophytic microbiota can intimately colonize the plant’s endosphere and influence plant responses efficiently. Understanding their structure and functions is a critical step towards the formulation of microbial inoculants that can promote plant-beneficial microbiota functions. In this study, both 16S and ITS metabarcoding analyses were employed to explore the structure of the endophytic seed-borne microbiota in wheat seeds as well as in roots either non-inoculated or inoculated with the endophytic bacterium Herbaspirillum seropedicae RAM10. Furthermore, machine learning tools were employed to predict the ecological functions associated to these structural shifts. Inoculation with H. seropedicae markedly changed the composition of the seed-borne endophytic community. This compositional shift mirrored a predicted functional diversification, which was manifested by the differential enrichment of OTUs involved in bacterial nitrogen fixation, nitrate metabolism and aerobic chemoheterotrophy as well as by changes in fungal life strategies. These results suggest that endophytic inoculants could represent suitable vehicles to effectively promote desired plant traits through the modulation of the wheat seed-borne microbiota in the root endosphere.

show abstract

“…Therefore, it is speculated that although the impact of microplastics on B. calyciflorus may be deepened due to bioaccumulation [ 78 ], the associated bacterial community has improved the tolerance of B. calyciflorus to plastic pollution through a specific composition. Chemoheterotrophy and aerobic chemoheterotrophy can use organic matter to meet all or major carbon requirements under different oxygen conditions [ 79 ], which are the most dominant putative functions predicted by various biologically associated bacterial communities [ 71 , 80 , 81 ]. Nitrogen is the other most important element in a lake ecosystem.…”

Section: Discussionmentioning

confidence: 99%

The Relationship between Brachionus calyciflorus-Associated Bacterial and Bacterioplankton Communities in a Subtropical Freshwater Lake

Zhang

Feng

Gao

et al. 2022

Animals

View full text Add to dashboard Cite

Zooplankton bodies are organic-rich micro-environments that support fast bacterial growth. Therefore, the abundance of zooplankton-associated bacteria is much higher than that of free-living bacteria, which has profound effects on the nutrient cycling of freshwater ecosystems. However, a detailed analysis of associated bacteria is still less known, especially the relationship between those bacteria and bacterioplankton. In this study, we analyzed the relationships between Brachionus calyciflorus-associated bacterial and bacterioplankton communities in freshwater using high-throughput sequencing. The results indicated that there were significant differences between the two bacterial communities, with only 29.47% sharing OTUs. The alpha diversity of the bacterioplankton community was significantly higher than that of B. calyciflorus-associated bacteria. PCoA analysis showed that the bacterioplankton community gathered deeply, while the B. calyciflorus-associated bacterial community was far away from the whole bacterioplankton community, and the distribution was relatively discrete. CCA analysis suggested that many environmental factors (T, DO, pH, TP, PO43-, NH4+, and NO3-) regulated the community composition of B. calyciflorus-associated bacteria, but the explanatory degree of variability was only 37.80%. High-throughput sequencing revealed that Raoultella and Delftia in Proteobacteria were the dominant genus in the B. calyciflorus-associated bacterial community, and closely related to the biodegradation function. Moreover, several abundant bacterial members participating in carbon and nitrogen cycles were found in the associated bacterial community by network analysis. Predictive results from FAPROTAX showed that the predominant biogeochemical cycle functions of the B. calyciflorus-associated bacterial community were plastic degradation, chemoheterotrophy, and aerobic chemoheterotrophy. Overall, our study expands the current understanding of zooplankton–bacteria interaction and promotes the combination of two different research fields.

show abstract

Spatial and Species Variations of Bacterial Community Structure and Putative Function in Seagrass Rhizosphere Sediment

Cited by 8 publications

References 67 publications

Nitrogen, manganese, iron, and carbon resource acquisition are potential functions of the wild rice Oryza rufipogon core rhizomicrobiome

Nitrogen, manganese, iron, and carbon resource acquisition are potential functions of the wild rice Oryza rufipogon core rhizomicrobiome

Root inoculation with Herbaspirillum seropedicae RAM10 reveals structural and functional shifts in the wheat seed-borne microbiota associated with improved plant phenotype

The Relationship between Brachionus calyciflorus-Associated Bacterial and Bacterioplankton Communities in a Subtropical Freshwater Lake

Contact Info

Product

Resources

About