Characteristics and Function Analysis of Rhizosphere Bacterial Community of Endangered Plant Pinus dabeshanensis

doi:10.11983/CBB22040

Abstract

Abstract: Plant rhizosphere microbial community markedly impact on the healthy growth of plants, and each plant rhizosphere has its own specific microbial community. Pinus dabeshanensis was listed as an endangered species by the International Union for Conservation of Nature, and it is very important for scientific research. In order to explore the characteristics and functions of rhizosphere bacterial community of this endangered species, high-throughput sequencing and bioinformatics analysis on bacterial 16S rRNA were used. The results showed that the major species of rhizosphere microorganisms of P. dabeshanensis were Proteobacteria, Actinobacteriota, Acidobacteriota and Verrucomicrobiota. Network analysis showed that there were significant correlations among rhizosphere bacterial groups of P. dabeshanensis, Bryobacter, Bradyrhizobium and an unidentified genus TK10 were important nodes in the network. PICRUSt1 function prediction indicated that the microbiome functions mainly involved with amino acid transport and metabolism, cell wall/membrane/membrane biogenesis, energy production and conversion. The functional prediction of FAPROTAX showed that the dominant flora in the rhizosphere of P. dabeshanensis had functions enriched in such processes as chemical heterotrophic, cellulose hydrolysis, aerobic chemical heterotrophic and nitrogen fixation, which plays an important role in plant growth and development. The results of this study provide a research basis for cultivating healthy rhizosphere microbial flora for P. dabeshanensis, and for the development and utilization of microbial resources for a better growth of plants.

Key words: endangered species, Pinus dabeshanensis, rhizosphere bacteria, high throughput sequencing, flora characteristics

Shi Shuiqin, Qin Huaguang, Zhang Jingjing, Han Yu, Yu Hao, Peng Yining, Yang Shao, Wang Jiayi, He Guangyu, Qi Zehua, Wu Wenjie, Zhu Xingyu, Rao Yuchun, Mu Dan. Characteristics and Function Analysis of Rhizosphere Bacterial Community of Endangered Plant Pinus dabeshanensis[J]. Chinese Bulletin of Botany, 2022, 57(4): 457-467.

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URL: https://www.chinbullbotany.com/EN/10.11983/CBB22040

https://www.chinbullbotany.com/EN/Y2022/V57/I4/457

Figures/Tables 7

Figure 1 Species composition of rhizosphere microorganisms of Pinus dabeshanensis at phylum level The abscissa is the sample number, and the ordinate is the proportion of different species in the sample at phylum level. Columns in different colors represent different species in the sample, and the height of columns represents the proportion of the species.

Figure 2 Species composition of rhizosphere microorganisms of Pinus dabeshanensis at generic level The abscissa is the sample number, and the ordinate is the proportion of different species in the sample at generic level. Columns in different colors represent different species in the sample, and the height of columns represents the proportion of the species.

Figure 3 Network analysis of rhizosphere microorganisms of Pinus dabeshanensis The size of nodes correlated with the proportion of species abundance annotated. The red line indicates positive correlations and the green line indicates negative correlations. The thicker the connecting line, the higher the correlation between species. The more connecting lines between species, the closer the relationship between species.

Figure 4 Phylogenetic analysis of rhizosphere microorganisms of Pinus dabeshanensis Each branch of phylogenetic evolutionary tree represents a species. The branches are colored according to the high taxonomic level of the species. The branch length is the phylogenetic distance between the two species, that is, the degree of species difference. The bar chart shows the proportion of reads of species in different groups.

Figure 5 Classification and statistical analysis of cluster of orthologous groups of proteins (COG) function of rhizosphere microbiome of Pinus dabeshanensis The abscissa represents COG secondary function number, and the ordinate represents function abundance.

Figure 6 Species-phenotype contribution of rhizosphere microbiome of Pinus dabeshanensis (A) Gram positive phenotype; (B) Gram negative phenotype; (C) Biofilm forming phenotype; (D) Anaerobic phenotype; (E) Aerobic phenotype; (F) Facultatively anaerobic phenotype; (G) Pathogenic phenotype; (H) Stress tolerant phenotype; (I) Mobile element containing phenotype. The species-phenotype contribution shows the main species composition of a specific phenotype, it reflects the corresponding relationship between species and phenotype. The abscissa represents all samples, different color represents different species, and the ordinate is the contribution of different species in the sample to this phenotype.

Figure 7 Functional heatmap of main species of rhizosphere microorganisms of Pinus dabeshanensis The abscissa is the sample number, the ordinate is the function name, and the color block gradient shows the abundance changes of different functions in the sample. The right side is the value represented by the color gradient.

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