濒危植物大别山五针松根际细菌群落特征与功能分析

doi:10.11983/CBB22040

植物学报 ›› 2022, Vol. 57 ›› Issue (4): 457-467.DOI: 10.11983/CBB22040

濒危植物大别山五针松根际细菌群落特征与功能分析

石水琴¹, 秦华光¹, 张静静¹, 韩钰¹, 余淏¹, 彭怡宁², 杨邵¹, 汪嘉怡¹, 何光宇¹, 岂泽华¹, 吴文杰², 朱星雨¹, 饶玉春²^,^*(), 穆丹¹^,^*()

¹安庆师范大学生命科学学院, 皖西南生物多样性研究与生态保护安徽省重点实验室, 安庆 246133
²浙江师范大学化学与生命科学学院, 金华 321004

收稿日期:2022-03-07 修回日期:2022-05-30 出版日期:2022-07-01 发布日期:2022-07-14
通讯作者: 饶玉春,穆丹
作者简介:mudansmile@126.com
* E-mail: ryc@zjnu.cn;
第一联系人：^† 共同第一作者
基金资助:
安徽省自然科学青年基金(2108085QC138);安徽省重点研究与开发计划(202104f06020024);国家自然科学基金(31800316);安徽省重点实验室开放基金(Wy2021001);安徽省重点实验室开放基金(Wz2021002);安徽省重点实验室开放基金(Wsz202204);安徽省重点实验室开放基金(Wsz202207);安徽省重点实验室开放基金(Wy202206);安徽高校自然科学研究项目(KJ2021A0647);国家级创新创业项目(202110732044X);安徽省大学生创新创业训练计划(S202110372104X);安徽省大学生创新创业训练计划(S202110372107);2021年度安庆师范大学研究生线上课程项目(2021aqnuxskc02);研究生教育教学改革项目(2021aqnujyxm64);“敬敷育英”创新创业引领计划和安庆师范大学教研项目(2019aqnujyzc127)

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

Shi Shuiqin¹, Qin Huaguang¹, Zhang Jingjing¹, Han Yu¹, Yu Hao¹, Peng Yining², Yang Shao¹, Wang Jiayi¹, He Guangyu¹, Qi Zehua¹, Wu Wenjie², Zhu Xingyu¹, Rao Yuchun²^,^*(), Mu Dan¹^,^*()

¹The Province Key Laboratory of the Biodiversity Study and Ecology Conservation in Southwest Anhui, School of Life Sciences, Anqing Normal University, Anqing 246133, China
²School of Chemistry and Life Sciences, Zhejiang Normal University, Jinhua 321004, China

Received:2022-03-07 Revised:2022-05-30 Online:2022-07-01 Published:2022-07-14
Contact: Rao Yuchun,Mu Dan
About author:First author contact:^† These authors contributed equally to this paper

摘要/Abstract

摘要： 植物根际微生物群落对植物健康生长有重要影响, 每种植物根际都有其特定的微生物群落。大别山五针松(Pinus dabeshanensis)被国际自然保护联盟列为濒危物种, 具有重要研究价值。该研究采用16S rRNA高通量测序技术与生物信息学方法, 对濒危植物大别山五针松根际细菌群落特征与功能进行分析。结果表明, 大别山五针松根际微生物的主要种类为变形菌门、放线菌门、酸杆菌门和疣微菌门。网络分析表明, 大别山五针松根际细菌类群存在显著相关性, 其中Bryobacter属、Bradyrhizobium属和未定义的TK10属是互作网络中的重要节点。PICRUSt1功能预测表明其微生物组功能主要为氨基酸运输和代谢、细胞壁/膜/膜生物发生以及能量产生和转换。FAPROTAX功能预测表明, 大别山五针松根际富含的优势菌群具有丰富的化学异养、纤维素水解、需氧化学异养和固氮功能, 其对植物生长发育具有重要作用。研究结果可为培育健康的大别山五针松根际微生物菌群及微生物资源的开发利用提供重要依据。

关键词: 濒危物种, 大别山五针松, 根际细菌, 高通量测序, 菌群特征

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

石水琴, 秦华光, 张静静, 韩钰, 余淏, 彭怡宁, 杨邵, 汪嘉怡, 何光宇, 岂泽华, 吴文杰, 朱星雨, 饶玉春, 穆丹. 濒危植物大别山五针松根际细菌群落特征与功能分析. 植物学报, 2022, 57(4): 457-467.

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. Chinese Bulletin of Botany, 2022, 57(4): 457-467.

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链接本文: https://www.chinbullbotany.com/CN/10.11983/CBB22040

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图/表 7

图1 大别山五针松根际微生物在门级水平上的物种组成横坐标为样本编号, 纵坐标为该样本不同物种在门级水平上所占的比例。不同颜色的柱子代表样本中不同物种, 柱子的长短代表该物种所占比例的大小。

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.

图2 大别山五针松根际微生物在属级水平上的物种组成横坐标为样本编号, 纵坐标为该样本不同物种在属级水平上所占比例, 不同颜色柱子代表样本中不同的物种, 柱子长短代表该物种所占比例的大小。

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.

图3 大别山五针松根际微生物网络分析节点的大小与注释到的物种丰度比例呈正相关。红色线表示正相关, 绿色线表示负相关。连接线越粗, 表示物种间相关性越高。物种间连接线越多, 表示物种间关系越密切。

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.

图4 大别山五针松根际微生物进化分析系统发生进化树中每条分支代表一类物种, 根据物种所属的高级分类学水平对分支进行着色, 分支长度为2个物种间的进化距离, 即物种的差异程度。柱状图展示物种在不同分组中的reads占比。

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.

图5 大别山五针松根际微生物组蛋白相邻类的聚簇(COG)功能分类及统计分析横坐标代表COG二级功能编号, 纵坐标代表功能丰度。

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.

图6 大别山五针松根际微生物组物种-表型贡献度 (A) 革兰氏阳性表型; (B) 革兰氏阴性表型; (C) 生物膜形成表型; (D) 厌氧表型; (E) 需氧表型; (F) 兼性厌氧表型; (G) 致病性表型; (H) 耐压力表型; (I) 移动元件表型。物种-表型贡献度表示特定表型的主要物种组成, 即反映物种与表型的对应关系。横坐标为所有样品, 不同颜色图例代表不同的物种, 纵坐标为该样本中不同物种对此表型的贡献度。

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.

图7 大别山五针松根际微生物主要物种功能热图横坐标为样本编号, 纵坐标为功能名称, 色块颜色梯度展示样本中不同功能的丰度变化情况。右侧为颜色梯度代表的数值。

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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濒危植物大别山五针松根际细菌群落特征与功能分析

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

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