酸铝胁迫土壤中耐铝大豆根际不同部位细菌群落结构、功能及其对促生菌富集作用的研究

doi:10.16288/j.yczz.20-409

遗传 ›› 2021, Vol. 43 ›› Issue (5): 487-500.doi: 10.16288/j.yczz.20-409

酸铝胁迫土壤中耐铝大豆根际不同部位细菌群落结构、功能及其对促生菌富集作用的研究

文钟灵, 杨旻恺, 陈星雨, 郝晨宇, 任然, 储淑娟, 韩洪苇, 林红燕, 陆桂华, 戚金亮, 杨永华()

南京大学植物分子生物学研究所,医药生物技术国家重点实验室,生命科学学院,南京 210023

收稿日期:2020-11-30 修回日期:2020-12-29 出版日期:2021-05-20 发布日期:2021-01-27
通讯作者: 杨永华 E-mail:yangyh@nju.edu.cn
作者简介:文钟灵,博士研究生,研究方向：土壤分子微生物学。E-mail: DG1730028@smail.nju.edu.cn|杨旻恺,博士研究生,研究方向：土壤分子微生物学。E-mail: minkaiyang@163.com;

文钟灵和杨旻恺并列第一作者
基金资助:
国家重点研发计划项目编号(2016YFD0101005);国家自然科学基金项目编号(31870495, 31372140);教育部创新团队项目(编号)资助(IRT_14R27)

Bacterial composition, function and the enrichment of plant growth promoting rhizobacteria (PGPR) in differential rhizosphere compartments of Al-tolerant soybean in acidic soil

Zhongling Wen, Minkai Yang, Xingyu Chen, Chenyu Hao, Ran Ren, Shujuan Chu, Hongwei Han, Hongyan Lin, Guihua Lu, Jinliang Qi, Yonghua Yang()

Institute for Plant Molecular Biology, State Key Laboratory of Pharmaceutical Biotechnology, School of Life Sciences, Nanjing University, Nanjing 210023, China

Received:2020-11-30 Revised:2020-12-29 Online:2021-05-20 Published:2021-01-27
Contact: Yang Yonghua E-mail:yangyh@nju.edu.cn
Supported by:
Supported by the National Key Research and Development Program of China No(2016YFD0101005);the National Natural Science Foundation of China Nos(31870495, 31372140);the Program for Changjiang Scholars and Innovative Research Team in University from the Ministry of Education of China No(IRT_14R27)

摘要/Abstract

摘要：

针对酸性土壤中影响作物生产的主要限制因子(pH及其铝毒),选用耐酸铝且具有固氮能力的豆科作物是改良该类土壤、促进农业生产的有效措施之一,至于其所关联的根际微生物是否起到相应的促进作用,一直为国内外学者所关注和探究。为此,本研究以铝耐受型大豆品种基因型(BX10)和铝敏感型大豆品种基因型(BD2)为材料,以酸性红壤为生长介质,采样部位按照土层到根系的距离由远到近的顺序划分为：根外对照土(bulk soil, BS)、两侧根际土(rhizospheric soil at two sides, SRH)、刷后根际土(rhizospheric soil after brush, BRH)和冲洗后的根际土(rhizospheric soil after wash, WRH)。利用Illumina MiSeq对16S rRNA基因扩增产物的高变区V4进行高通量测序,研究了不同耐铝基因型大豆根际细菌群落的结构、功能与分子遗传多样性的差异性作用。结果表明,各处理间大豆根际细菌群落的alpha多样性无显著性差异,beta多样性差异也均不显著。PCA和PCoA分析可见BRH和WRH部位的物种组成较为一致,而BS和SRH部位具有相似的物种组成,说明植物生长主要影响根际的BRH及WRH部位的微生物,对SRH影响较小。对各分类水平物种组成和丰度进行比较,门分类水平三元图表明两个基因型大豆均在WRH部位富集蓝细菌门(Cyanobacteria)细菌;统计分析表明铝耐受型大豆(BX10)根部对于增强植物抗逆性的植物根际促生菌(plant growth promoting rhizobacteria, PGPR)有富集作用,这些富集的细菌包括蓝细菌门、拟杆菌门(Bacteroidetes)和变形菌门(Proteobacteria)等,以及部分与固氮和耐铝的功能相关的属种。另对同一个基因型大豆不同采样部位间进行比较分析,结果显示土壤不同采样部位可以选择性富集不同的PGPR物种。此外,16S rDNA的同源蛋白簇(clusters of orthologous groups of proteins, COG)功能预测分析的结果表明,多个COG包括COG0347、COG1348、COG1433、COG2710、COG3870、COG4656、COG5420、COG5456和COG5554均可能与固氮直接相关;BD2相比于BX10,结果显示在BRH和WRH部位似乎均更易富集固氮直接相关的COG,其可能的原因尚待进一步研究。

关键词: 酸性土壤, 耐铝大豆, 根际, 细菌群落, 植物根际促生菌

Abstract:

Low pH with aluminum (Al) toxicity are the main limiting factors affecting crop production in acidic soil. Selection of legume crops with acid tolerance and nitrogen-fixation ability should be one of the effective measures to improve soil quality and promote agricultural production. The role of the rhizosphere microorganisms in this process has raised concerns among the research community. In this study, BX10 (Al-tolerant soybean) and BD2 (Al-sensitive soybean) were selected as plant materials. Acidic soil was used as growth medium. The soil layers from the outside to the inside of the root are bulk soil (BS), rhizosphere soil at two sides (SRH), rhizosphere soil after brushing (BRH) and rhizosphere soil after washing (WRH), respectively. High-throughput sequencing of 16S rDNA amplicons of the V4 region using the Illumina MiSeq platform was performed to compare the differences of structure, function and molecular genetic diversity of rhizosphere bacterial community of different genotypes of soybean. The results showed that there was no significant difference in alpha diversity and beta diversity in rhizosphere bacterial community among the treatments. PCA and PCoA analysis showed that BRH and WRH had similar species composition, while BS and SRH also had similar species composition, which indicated that plant mainly affected the rhizosphere bacterial community on sampling compartments BRH and WRH. The composition and abundance of rhizosphere bacterial community among the treatments were then compared at different taxonomic levels. The ternary diagram of phylum level showed that Cyanobacteria were enriched in WRH. Statistical analysis showed that the roots of Al-tolerant soybean BX10 had an enrichment effect on plant growth promoting rhizobacteria (PGPR), which included Cyanobacteria, Bacteroides, Proteobacteria and some genera and species related to the function of nitrogen fixation and aluminum tolerance. The rhizosphere bacterial community from different sampling compartments of the same genotype soybean also were selectively enriched in different PGPR. In addition, the functional prediction analysis showed that there was no significant difference in the classification and abundance of COG (clusters of orthologous groups of proteins) function among different treatments. Several COGs might be directly related to nitrogen fixation, including COG0347, COG1348, COG1433, COG2710, COG3870, COG4656, COG5420, COG5456 and COG5554. Al-sensitive soybean BD2 was more likely to be enriched in these COGs than BX10 in BRH and WRH, and the possible reason remains to be further investigated in the future.

Key words: acidic soil, aluminum-tolerant soybean, rhizosphere, bacterial community, PGPR

文钟灵, 杨旻恺, 陈星雨, 郝晨宇, 任然, 储淑娟, 韩洪苇, 林红燕, 陆桂华, 戚金亮, 杨永华. 酸铝胁迫土壤中耐铝大豆根际不同部位细菌群落结构、功能及其对促生菌富集作用的研究[J]. 遗传, 2021, 43(5): 487-500.

Zhongling Wen, Minkai Yang, Xingyu Chen, Chenyu Hao, Ran Ren, Shujuan Chu, Hongwei Han, Hongyan Lin, Guihua Lu, Jinliang Qi, Yonghua Yang. Bacterial composition, function and the enrichment of plant growth promoting rhizobacteria (PGPR) in differential rhizosphere compartments of Al-tolerant soybean in acidic soil[J]. Hereditas(Beijing), 2021, 43(5): 487-500.

图/表 13

图1

图2

表1

图3

图4

表2

表3

附图1

附图2

附图3

附图4

附图5

附表1

属分类水平物种在各样本中丰度"

Genus	BX_16FWRH3	BX_16FWRH2	BX_16FWRH1	BD_16FBS1	BD_16FBS2	BD_16FBS3
Sphingomonas	0.040996	0.057843	0.041616	0.0483	0.043339	0.042133
Bryobacter	0.021704	0.02384	0.023668	0.01981	0.021049	0.022634
Mucilaginibacter	0.026389	0.026699	0.017329	0.02784	0.030248	0.007028
Burkholderia-Paraburkholderia	0.024563	0.055776	0.024839	0.01247	0.004961	0.007441
Massilia	0.004272	0.006373	0.00348	0.01316	0.033038	0.014917
Phenylobacterium	0.020843	0.024529	0.019051	0.00617	0.004547	0.003583
Acidibacter	0.015675	0.017088	0.020912	0.01612	0.00472	0.005857
Candidatus_Solibacter	0.010301	0.011128	0.009474	0.01027	0.009439	0.009887
Flavisolibacter	0.009302	0.008303	0.005994	0.00985	0.01602	0.006373
Gemmatimonas	0.00534	0.005064	0.004444	0.01495	0.014194	0.009577
Bradyrhizobium	0.009198	0.005788	0.009439	0.0052	0.004582	0.004926
Ralstonia	0.010749	0.010921	0.004823	0.00617	0.004237	0.002033
Granulicella	0.008061	0.00658	0.006132	0.00537	0.005684	0.006959
Dyella	0.008475	0.024081	0.010507	0.00348	0.001826	0.001585
Acinetobacter	0	3.45E-05	0	0.00896	0.043752	0.103559
Thermosporothrix	0.010439	0.012161	0.017811	0.00382	0.001344	0.001654
Niastella	0.009474	0.012196	0.010886	0.00555	0.001034	0.00062
Bacillus	0.000655	0.001964	0.003101	0.00513	0.011024	0.027767
Sorangium	0.005615	0.003824	0.004651	0.00961	0.005615	0.004858
Rhodanobacter	0.006718	0.006132	0.008165	0.00382	0.002377	0.00124
Terracidiphilus	0.01006	0.009646	0.006856	0.00365	0.004065	0.00248
Rhizobium	0.010818	0.007545	0.003893	0.00496	0.012678	0.030007
Acidothermus	0.003135	0.002894	0.003342	0.01977	0.007372	0.009784
Nitrospira	0.002274	0.003445	0.002825	0.003	0.001998	0.00155
Haliangium	0.005374	0.004479	0.004789	0.00431	0.002859	0.002239
Actinospica	0.00503	0.001068	0.005926	0.00872	0.000965	0.000861
Brevundimonas	0	0	0	0.00382	0.019844	0.051021
Lactococcus	0	0	0	0	0	0
Asticcacaulis	0.003617	0.008234	0.002687	0.00282	0.000379	0.000655
Pseudarthrobacter	0.000103	0.000103	6.89E-05	0.00744	0.004547	0.004134
Achromobacter	0	6.89E-05	3.45E-05	0.0032	0.015882	0.030868
Methylotenera	0.000827	0.000517	0.000103	0.00014	0.005684	6.89E-05
Aerococcus	0	0	0	0.00282	0.010783	0.027492
Heliimonas	0.00124	0.000241	0.003445	0.0000689	3.45E-05	0
Arthrobacter	6.89E-05	0	3.45E-05	0.00045	0.000517	0.000103
Pseudomonas	3.45E-05	0	0	0.00034	0.000551	0
Sphingomonas	0.037379	0.041926	0.054535	0.04499	0.030902	0.035725
Bryobacter	0.042684	0.050401	0.037517	0.02673	0.04706	0.050505
Mucilaginibacter	0.007751	0.010301	0.008647	0.00768	0.002584	0.004926
Burkholderia-Paraburkholderia	0.011644	0.009061	0.01223	0.01392	0.004823	0.00596
Massilia	0.000586	0.002446	0.00441	0.02205	0.000448	0.001171
Phenylobacterium	0.004031	0.007166	0.006615	0.01037	0.002239	0.004754
Acidibacter	0.023254	0.01192	0.011403	0.00985	0.009474	0.009991
Candidatus_Solibacter	0.018259	0.022014	0.01571	0.01223	0.024322	0.020291
Flavisolibacter	0.004031	0.005857	0.014745	0.01071	0.005478	0.006718
Gemmatimonas	0.008337	0.00975	0.016088	0.01192	0.006959	0.007924
Bradyrhizobium	0.004444	0.003583	0.004685	0.00565	0.003583	0.003032
Ralstonia	0.002067	0.001344	0.002584	0.00427	0.000792	0.001275
Granulicella	0.007476	0.007717	0.007614	0.0073	0.003514	0.004754
Dyella	0.001998	0.000861	0.003755	0.00541	0.001688	0.002653
Acinetobacter	0	0	0	0.00565	0	3.45E-05
Thermosporothrix	0.008406	0.001068	0.007235	0.00231	0.003307	0.003066
Niastella	0.00379	0.001447	0.009233	0.00551	0.003238	0.00565
Bacillus	0.012333	0.000965	0.001137	0.00462	0.001585	0.001791
Sorangium	0.004754	0.003548	0.004272	0.00758	0.003858	0.00472
Rhodanobacter	0.00155	0.002722	0.003101	0.00262	0.001137	0.001723
Terracidiphilus	0.0041	0.003101	0.004789	0.00372	0.002136	0.002859
Rhizobium	0.000207	0.000723	0.000896	0.0032	0.000207	0.000172
Acidothermus	0.004203	0.002928	0.003824	0.01051	0.00472	0.005926
Nitrospira	0.007545	0.006511	0.004513	0.00293	0.012264	0.010163
Haliangium	0.002963	0.002963	0.002687	0.00451	0.002859	0.003376
Actinospica	0.003066	0.000413	0.004926	0.00269	0.004444	0.003617
Brevundimonas	0	0	0	0.00303	0	0
Lactococcus	0	0	0	0	0	0
Asticcacaulis	0.000172	0.001412	0.000965	0.00072	0.000276	0.000345
Pseudarthrobacter	0.000172	0.000103	0.000138	0.00338	0.000138	6.89E-05
Achromobacter	0	0	0	0.00272	0	0
Methylotenera	0.000207	0.000345	0.002412	0.0000689	0	3.45E-05
Aerococcus	0	0	0	0.00231	0	0
Heliimonas	0	0.000138	0	0.0000345	3.45E-05	6.89E-05
Arthrobacter	3.45E-05	0.000103	0	0.00052	0	3.45E-05
Pseudomonas	0	0	0	0.00017	0	0
Sphingomonas	0.039825	0.045957	0.070452	0.06177	0.063079	0.049437
Bryobacter	0.026183	0.019396	0.01254	0.04572	0.033796	0.034864
Mucilaginibacter	0.039067	0.042202	0.020016	0.00469	0.021256	0.038275
Burkholderia-Paraburkholderia	0.04706	0.033796	0.013505	0.01003	0.009474	0.031591
Massilia	0.007855	0.010852	0.002205	0.00279	0.005133	0.002722
Phenylobacterium	0.029765	0.028904	0.052882	0.00217	0.005374	0.009991
Acidibacter	0.011679	0.016364	0.021291	0.01034	0.005857	0.025218
Candidatus_Solibacter	0.007269	0.007993	0.005857	0.01936	0.011644	0.011403
Flavisolibacter	0.010232	0.020843	0.005753	0.00641	0.018672	0.006925
Gemmatimonas	0.004547	0.0041	0.005891	0.01034	0.007958	0.006856
Bradyrhizobium	0.016984	0.015985	0.020912	0.00448	0.002549	0.006925
Ralstonia	0.009233	0.009198	0.004651	0.00227	0.001895	0.007097
Granulicella	0.009887	0.006993	0.008061	0.00637	0.004789	0.010266
Dyella	0.023151	0.010301	0.008854	0.00055	0.002067	0.002549
Acinetobacter	0	6.89E-05	0.00472	0	0	0
Thermosporothrix	0.007235	0.005168	0.003032	0.00152	0.001068	0.039343
Niastella	0.008199	0.017673	0.007028	0.00072	0.000758	0.007924
Bacillus	0.004203	0.009198	0.012264	0.00158	0.00124	0.002446
Sorangium	0.006304	0.009371	0.010163	0.00396	0.005237	0.003583
Rhodanobacter	0.00472	0.011472	0.012264	0.00251	0.005099	0.010266
Terracidiphilus	0.011782	0.008578	0.001998	0.00296	0.004306	0.005822
Rhizobium	0.008785	0.008957	0.004823	0.0000689	0.000103	0.000482
Acidothermus	0.003411	0.002825	0.00248	0.00338	0.002997	0.003617
Nitrospira	0.002722	0.003514	0.002308	0.00882	0.0041	0.004892
Haliangium	0.006546	0.007269	0.012919	0.00286	0.004203	0.00217
Actinospica	0.00503	0.007304	0.003652	0.00055	0.000551	0.012781
Brevundimonas	0	0	3.45E-05	0	0	0
Lactococcus	0	0	0.074999	0	0	0
Asticcacaulis	0.004789	0.005512	0.004961	0.00024	0.00031	0.014504
Pseudarthrobacter	0.000103	0.000103	0.000551	0.0001	0.000138	0.000276
Achromobacter	3.45E-05	0.001378	0.000138	0.0000345	0	3.45E-05
Methylotenera	3.45E-05	0.000965	0.000379	0.00303	0.000586	0.000345
Aerococcus	0	0	6.89E-05	0	0	0
Heliimonas	0.000689	0.002343	0.000758	0	0.000103	0
Arthrobacter	3.45E-05	0	0	0.0001	0	3.45E-05
Pseudomonas	0	0.000103	0.017122	0	0	6.89E-05
Sphingomonas	0.027871	0.045544	0.036483	0.07166	0.043029	0.068178
Bryobacter	0.014917	0.018776	0.017191	0.02746	0.033899	0.035553
Mucilaginibacter	0.046681	0.067179	0.038516	0.02849	0.014538	0.029834
Burkholderia-Paraburkholderia	0.040996	0.058738	0.032728	0.03745	0.01378	0.03135
Massilia	0.133462	0.02949	0.042684	0.00593	0.007304	0.006167
Phenylobacterium	0.011748	0.01974	0.015365	0.01619	0.016502	0.020257
Acidibacter	0.01068	0.01347	0.012161	0.01433	0.016054	0.009439
Candidatus_Solibacter	0.005684	0.006615	0.005512	0.01233	0.017914	0.011024
Flavisolibacter	0.004479	0.009405	0.010301	0.0165	0.012161	0.010645
Gemmatimonas	0.004031	0.005512	0.007751	0.00444	0.004995	0.007235
Bradyrhizobium	0.005994	0.009508	0.012988	0.00847	0.00627	0.012919
Ralstonia	0.05047	0.01726	0.018879	0.00682	0.002825	0.003376
Granulicella	0.00565	0.007614	0.007062	0.00906	0.008303	0.009646
Dyella	0.007441	0.021566	0.008061	0.00706	0.001929	0.008854
Acinetobacter	3.45E-05	0	0	0	0	0
Thermosporothrix	0.006787	0.004961	0.006167	0.00768	0.004582	0.004651
Niastella	0.004272	0.007889	0.005684	0.01003	0.010542	0.007372
Bacillus	0.002205	0.002894	0.006511	0.00975	0.001447	0.003583
Sorangium	0.003514	0.003927	0.005719	0.0051	0.005478	0.003342
Rhodanobacter	0.007614	0.007062	0.008268	0.00634	0.004616	0.006201
Terracidiphilus	0.002377	0.008888	0.005133	0.0072	0.004306	0.00472
Rhizobium	0.003204	0.006098	0.008475	0.00183	0.001585	0.0041
Acidothermus	0.002997	0.002343	0.003927	0.00537	0.003238	0.00472
Nitrospira	0.001654	0.002067	0.002067	0.00668	0.006546	0.006959
Haliangium	0.003893	0.003652	0.00596	0.00479	0.006787	0.002584
Actinospica	0.001412	0.000861	0.003342	0.00641	0.003652	0.005684
Brevundimonas	0	0	0	0	0	0
Lactococcus	0	0	0	0	0	0
Asticcacaulis	0.001688	0.002653	0.003686	0.00296	0.001344	0.003927
Pseudarthrobacter	0.017294	0.005409	0.011128	0.00045	0.000207	0.000172
Achromobacter	6.89E-05	0.000207	0.000138	0.0000689	0	0.000138
Methylotenera	0.004892	0.004341	0.019396	0.0000689	6.89E-05	3.45E-05
Aerococcus	0	0	0	0	0	0
Heliimonas	0.016433	0.005374	0.00093	0.00034	0.000172	0.000379
Arthrobacter	0.016709	0.002859	0.004375	0.0000689	6.89E-05	0
Pseudomonas	0	0	0.000103	0.0001	0	0

附表1

参考文献 55

[1]	Cheng FX, Cao GQ, Wang XR, Zhao J, Yan XL, Liao H . Isolation and application of effective nitrogen fixation rhizobial strains on low-phosphorus acid soils in South China. Chin Sci Bull, 2009,54(3):412-420.
[2]	Kochian LV . Cellular mechanisms of aluminum toxicity and resistance in plants. Annu Rev Plant Physiol Plant Mol Biol, 1995,46, 237-260.
[3]	Kochian LV, Hoekenga OA, Pineros MA . How do crop plants tolerate acid soils? Mechanisms of aluminum tolerance and phosphorous efficiency. Annu Rev Plant Biol, 2004,55:459-493.
[4]	Li SX . The current state and prospect of plant nutrition and fertilizer science. Plant Nutr Fert Sci, 1999,5(3):193-205.
	李生秀 . 植物营养与肥料学科的现状与展望. 植物营养与肥料学报, 1999,5(3):193-205.
[5]	Xu QP . Nitrogen cycle and nitrogen fixation. Middle School Biol, 2005,21(3):11-13.
	徐清平 . 氮循环与固氮. 中学生物学, 2005,21(3):11-13.
[6]	Foy CD . Plant adaptation to acid, aluminum-toxic soils. Commun Soil Sci Plan, 1988,19(7-12):959-987.
[7]	Zhang X, Liu P, Yang Y, Xu G . Effect of Al in soil on photosynthesis and related morphological and physiological characteristics of two soybean genotypes. Bot Stud, 2007,48(4):435-444.
[8]	Delhaize E, Craig S, Beaton CD, Bennet RJ, Jagadish VC, Randall PJ . Aluminum tolerance in wheat (Triticum aestivum L.)(I. Uptake and distribution of aluminum in root apices). Plant Physiol, 1993,103(3):685-693.
[9]	Vitorello VA, Capaldi FR, Stefanuto VA . Recent advances in aluminum toxicity and resistance in higher plants. Brazilian J Plant Physiol, 2005,17:129-143.
[10]	Ryan PR, Delhaize E, Jones DL . Function and mechanism of organic anion exudation from plant roots. Annu Rev Plant Physiol Plant Mol Biol, 2001,52:527-560.
[11]	Yang ZM, Sivaguru M, Horst WJ, Matsumoto H . Aluminium tolerance is achieved by exudation of citric acid from roots of soybean ( Glycine max). Physiol Plant, 2000,110(1):72-77.
[12]	Avis TJ, Gravel V, Antoun H, Tweddell RJ . Multifaceted beneficial effects of rhizosphere microorganisms on plant health and productivity. Soil Biol Biochem, 2008,40(7):1733-1740.
[13]	Dong DF, Peng XX, Yan XL . Organic acid exudation induced by phosphorus deficiency and/or aluminium toxicity in two contrasting soybean genotypes. Physiol Plant, 2004,122(2):190-199.
[14]	Zhen Y, Miao L, Su J, Liu SH, Yin YL, Wang SS, Pang YJ, Shen HG, Tian DC, Qi JL, Yang YH . Differential responses of anti-oxidative enzymes to aluminum stress in tolerant and sensitive soybean genotypes. J Plant Nutr, 2009,32(8):1255-1270.
[15]	Yang T, Ding Y, Zhu Y, Li Y, Wang X, Yang R, Lu G, Qi J, Yang Y . Rhizosphere bacteria induced by aluminum- tolerant and aluminum-sensitive soybeans in acid soil. Plant Soil Environ, 2012,58(6):262-267.
[16]	Yang TY, Liu GL, Li YC, Zhu SM, Zou AL, Qi JL, Yang YH . Rhizosphere microbial communities and organic acids secreted by aluminum-tolerant and aluminum- sensitive soybean in acid soil. Biol Fert Soils, 2012,48(1):97-108.
[17]	Li YC, Yang TY, Zhang PP, Zou AL, Peng X, Wang LL, Yang RW, Qi JL, Yang YH . Differential responses of the diazotrophic community to aluminum-tolerant and aluminum-sensitive soybean genotypes in acidic soil. Eur J Soil Biol, 2012,53:76-85.
[18]	Li YL, Fan XR, Shen QR . The relationship between rhizosphere nitrification and nitrogen-use efficiency in rice plants. Plant Cell Environ, 2008,31(1):73-85.
[19]	Inceoğlu O, Salles JF, van Overbeek L, van Elsas JD. Effects of plant genotype and growth stage on the betaproteobacterial communities associated with different potato cultivars in two fields. Appl Environ Microbiol, 2010,76(11):3675-3684.
[20]	Lu GH, Tang CY, Hua XM, Cheng J, Wang GH, Zhu YL, Zhang LY, Shou HX, Qi JL, Yang YH . Effects of an EPSPS-transgenic soybean line ZUTS31 on root-associated bacterial communities during field growth. PLoS One, 2018,13(2):e0192008.
[21]	Lu GH, Zhu YL, Kong LR, Cheng J, Tang CY, Hua XM, Meng FF, Pang YJ, Yang RW, Qi JL, Yang YH . Impact of a glyphosate-tolerant soybean line on the rhizobacteria, revealed by Illumina MiSeq. J Microbiol Biotechnol, 2017,27(3):561-572.
[22]	Wen ZL, Yang MK, Du MH, Zhong ZZ, Lu YT, Wang GH, Hua XM, Fazal A, Mu CH, Yan SF, Zhen Y, Yang RW, Qi JL, Hong Z, Lu GH, Yang YH . Enrichments/derichments of root-associated bacteria related to plant growth and nutrition caused by the growth of an EPSPS-transgenic maize line in the field. Front Microbiol, 2019,10:1335.
[23]	Kennedy K, Hall MW, Lynch MDJ, Moreno-Hagelsieb G, Neufeld JD . Evaluating bias of illumina-based bacterial 16S rRNA gene profiles. Appl Environ Microbiol, 2014,80(18):5717-5722.
[24]	Caporaso JG, Lauber CL, Walters WA, Berg-Lyons D, Huntley J, Fierer N, Owens SM, Betley J, Fraser L, Bauer M, Gormley N, Gilbert JA, Smith G, Knight R . Ultra- high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms. ISME J, 2012,6(8):1621-1624.
[25]	Kozich JJ, Westcott S L, Baxter NT, Highlander SK, Schloss PD . Development of a dual-Index sequencing strategy and curation pipeline for analyzing amplicon sequence data on the MiSeq Illumina sequencing platform. Appl Environ Microbiol, 2013,79(17):5112-5120.
[26]	Lu GH, Hua XM, Liang L, Wen ZL, Du MH, Meng FF, Pang YJ, Qi JL, Tang CY, Yang YH . Identification of major rhizobacterial taxa affected by a glyphosate-tolerant soybean line via shotgun metagenomic approach. Genes, 2018,9(4):214.
[27]	Caporaso JG, Kuczynski J, Stombaugh J, Bittinger K, Bushman FD, Costello EK, Fierer N, Peña AG, Goodrich JK, Gordon JI, Huttley GA, Kelley ST, Knights D, Koenig JE, Ley RE, Lozupone CA, McDonald D, Muegge BD, Pirrung M, Reeder J, Sevinsky J R, Turnbaugh PJ, Walters WA, Widmann J, Yatsunenko T, Zaneveld J, Knight R. QIIME allows analysis of high-throughput community sequencing data. Nat Methods, 2010,7(5):335-336.
[28]	Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, Hollister EB, Lesniewski RA, Oakley BB, Parks DH, Robinson CJ, Sahl JW, Stres B, Thallinger GG, Van Horn DJ, Weber CF . Introducing mothur: open-source, platform- independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009,75(23):7537-7541.
[29]	Bulgarelli D, Garrido-Oter R, Münch PC, Weiman A, Dröge J, Pan Y, McHardy AC, Schulze-Lefert P. Structure and function of the bacterial root microbiota in wild and domesticated barley. Cell Host Microbe, 2015,17(3):392-403.
[30]	Liu YX, Qin Y, Guo XX, Bai Y . Methods and applications for microbiome data analysis. Hereditas(Beijing), 2019,41(9):845-862.
	刘永鑫, 秦媛, 郭晓璇, 白洋 . 微生物组数据分析方法与应用. 遗传, 2019,41(9):845-862.
[31]	Whittaker RH . Vegetation of the siskiyou mountains, oregon and california. Ecol Monogr, 1960,30(4):280-338.
[32]	Dos Santos PC, Fang Z, Mason SW, Setubal JC, Dixon R . Distribution of nitrogen fixation and nitrogenase-like sequences amongst microbial genomes. BMC genomics, 2012,13:162.
[33]	Franche C, Lindström K, Elmerich C . Nitrogen-fixing bacteria associated with leguminous and non-leguminous plants. Plant Soil, 2008,321(1-2):35-59.
[34]	Masson-Boivin C, Giraud E, Perret X, Batut J . Establishing nitrogen-fixing symbiosis with legumes: how many rhizobium recipes? Trends Microbiol, 2009,17(10):458-466.
[35]	Peix A, Ramírez-Bahena MH, Velázquez E, Bedmar EJ . Bacterial associations with legumes. Crit Rev Plant Sci, 2014,34(1-3):17-42.
[36]	Zaki SS, Belal EEE, Rady MM . Cyanobacteria and glutathione applications improve productivity, nutrient contents, and antioxidant systems of salt-stressed soybean plant. Int Lett Nat Sci, 2019,76:72-85.
[37]	Fierer N, Strickland MS, Liptzin D, Bradford MA, Cleveland CC . Global patterns in belowground communities. Ecol Lett, 2009,12(11):1238-1249.
[38]	Bulgarelli D, Rott M, Schlaeppi K, van Themaat EVL, Ahmadinejad N, Assenza F, Rauf P, Huettel B, Reinhardt R, Schmelzer E, Peplies J, Gloeckner FO, Amann R, Eickhorst T, Schulze-Lefert P. Revealing structure and assembly cues for Arabidopsis root-inhabiting bacterial microbiota. Nature, 2012,488(7409):91-95.
[39]	Lundberg DS, Lebeis SL, Paredes SH, Yourstone S, Gehring J, Malfatti S, Tremblay J, Engelbrektson A, Kunin V, Del Rio TG, Edgar RC, Eickhorst T, Ley RE, Hugenholtz P, Tringe SG, Dangl JL . Defining the core Arabidopsis thaliana root microbiome. Nature, 2012,488(7409):86-90.
[40]	Schlaeppi K, Dombrowski N, Oter RG, van Themaat EVL, Schulze-Lefert P. Quantitative divergence of the bacterial root microbiota in Arabidopsis thaliana relatives. Proc Natl Acad Sci USA, 2014,111(2):585-592.
[41]	Edwards J, Johnson C, Santos-Medellin C, Lurie E, Podishetty NK, Bhatnagar S, Eisen JA, Sundaresan V . Structure, variation, and assembly of the root-associated microbiomes of rice. Proc Natl Acad Sci USA, 2015,112(8):E911-920.
[42]	Hu YL, Dai R, Liu YX, Zhang JY, Hu B, Chu CC, Yuan HB, Bai Y . Analysis of rice root bacterial microbiota of nipponbare and ir24. Hereditas(Beijing), 2020,42(5):506-518.
	胡雅丽, 戴睿, 刘永鑫, 张婧赢, 胡斌, 储成才, 袁怀波, 白洋 . 水稻典型品种日本晴和IR24根系微生物组的解析. 遗传, 2020,42(5):506-518.
[43]	Minerdi D, Fani R, Gallo R, Boarino A, Bonfante P . Nitrogen fixation genes in an endosymbiotic Burkholderia strain. Appl Environ Microbiol, 2001,67(2):725-732.
[44]	Huang SC, Wang XD, Liu X, He GH, Wu JC . Isolation, identification, and characterization of an aluminum- tolerant bacterium Burkholderia sp. SB1 from an acidic red soil. Pedosphere, 2018,28(6):905-912.
[45]	De Filippis F, La Storia A, Villani F, Ercolini D . Strain-level diversity analysis of Pseudomonas fragi after in situ pangenome reconstruction shows distinctive spoilage-associated metabolic traits clearly selected by different storage conditions. Appl Environ Microbiol, 2018,85(1):e02212-e02218
[46]	Stanborough T, Fegan N, Powell SM, Tamplin M, Chandry PS . Vibrioferrin production by the food spoilage bacterium Pseudomonas fragi. FEMS Microbiol Lett, 2018,365(6).
[47]	Lodwig EM, Hosie AHF, Bourdès A, Findlay K, Allaway D, Karunakaran R, Downie JA, Poole PS . Amino-acid cycling drives nitrogen fixation in the legume-Rhizobium symbiosis. Nature, 2003,422(6933):722-726.
[48]	Zhang Y, Wang XJ, Wang WQ, Sun ZT, Li J . Investigation of growth kinetics and partial denitrification performance in strain Acinetobacter johnsonii under different environmental conditions. R Soc Open Sci, 2019,6(12):191275.
[49]	Wen G, Wang T, Li K, Wang HY, Wang JY, Huang TL . Aerobic denitrification performance of strain Acinetobacter johnsonii WGX-9 using different natural organic matter as carbon source: Effect of molecular weight. Water Res, 2019,164:114956.
[50]	Menuet M, Bittar F, Stremler N, Dubus JC, Sarles J, Raoult D, Rolain JM . First isolation of two colistin- resistant emerging pathogens, Brevundimonas diminuta and Ochrobactrum anthropi, in a woman with cystic fibrosis: a case report. J Med Case Rep, 2008,2:373.
[51]	Singh N, Marwa N, Mishra SK, Mishra J, Verma PC, Rathaur S, Singh N . Brevundimonas diminuta mediated alleviation of arsenic toxicity and plant growth promotion in Oryza sativa L. Ecotoxicol Environ Saf, 2016,125:25-34.
[52]	Liu G, Liu YX, Ali T, Ferreri M, Gao J, Chen W, Yin JH, Su JL, Fanning S, Han B . Molecular and phenotypic characterization of Aerococcus viridans associated with subclinical bovine mastitis. PLoS One, 2015,10(4):e0125001.
[53]	Busse HJ . Review of the taxonomy of the genus Arthrobacter, emendation of the genus Arthrobacter sensu lato, proposal to reclassify selected species of the genus Arthrobacter in the novel genera Glutamicibacter gen. nov., Paeniglutamicibacter gen. nov., Pseudoglutamicibacter gen. nov., Paenarthrobacter gen. nov. and Pseudarthrobacter gen. nov., and emended description of Arthrobacter roseus. Int J Syst Evol Microbiol, 2016,66(1):9-37.
[54]	Borodina E, Kelly DP, Schumann P, Rainey FA, Ward-Rainey NL, Wood AP . Enzymes of dimethylsulfone metabolism and the phylogenetic characterization of the facultative methylotrophs Arthrobacter sulfonivorans sp. nov., Arthrobacter methylotrophus sp. nov., and Hyphomicrobium sulfonivorans sp. nov. Arch Microbiol, 2002,177(2):173-183.
[55]	Li ZF, Feng ZL, Zhao LH, Shi YQ, Feng HJ, Zhu HQ . Effects of transgenic cotton expressing chitinase and glucanase genes on the diversity of soil bacterial community. Hereditas (Beijing), 2015,37(8):821-827.
	李志芳, 冯自力, 赵丽红, 师勇强, 冯鸿杰, 朱荷琴 . 转几丁质酶和葡聚糖酶双价基因棉花对土壤细菌种群多样性的影响. 遗传, 2015,37(8):821-827.

编辑推荐

Metrics

www.chinagene.cn
备案号：京ICP备09063187号-4
总访问:,今日访问:,当前在线:

对比样本信息	Adonis分析		ANOSIM分析
对比样本信息	R²	P-value	Statistic	P-value
BX_16FBS vs. BD_16FBS	0.487	0.1	1	0.098
BX_16FSRH vs. BD_16FSRH	0.291	0.2	0.2593	0.186
BX_16FBRH vs. BD_16FBRH	0.512	0.1	1	0.098
BX_16FWRH vs. BD_16FWRH	0.327	0.1	0.4815	0.098
BX_16FBS vs. BX_16FSRH	0.231	0.2	0.037	0.4
BX_16FBS vs. BX_16FBRH	0.580	0.1	1	0.098
BX_16FBS vs. BX_16FWRH	0.584	0.1	1	0.098
BX_16FSRH vs. BX_16FBRH	0.680	0.1	1	0.098
BX_16FSRH vs. BX_16FWRH	0.718	0.1	1	0.098
BX_16FBRH vs. BX_16FWRH	0.488	0.1	0.8148	0.098
BD_16FBS vs. BD_16FSRH	0.479	0.1	0.6296	0.098
BD_16FBS vs. BD_16FBRH	0.556	0.1	1	0.098
BD_16FBS vs. BD_16FWRH	0.603	0.1	1	0.098
BD_16FSRH vs. BD_16FBRH	0.447	0.1	0.9259	0.098
BD_16FSRH vs. BD_16FWRH	0.620	0.1	1	0.098
BD_16FBRH vs. BD_16FWRH	0.373	0.1	0.5926	0.098

COG #	BX_16FBS	BD_16FBS	BX_16FSRH	BD_16FSRH	BX_16FBRH	BD_16FBRH	BX_16FWRH	BD_16FWRH	描述
COG0347	25713	17226	24360	21215	18905	20106	22367	20821	氮调节蛋白P-II
	22495	19480	25742	24097	21382	22359	21680	20935
	21566	15366	24226	23440	19788	21784	21537	20783
COG1348	2601	2259	2034	2311	1925	2744	4363	3265	参与固氮过程中的关键酶反应
	4592	2250	2263	2079	2724	2609	3280	3692
	2323	2362	2828	2047	2841	2845	4484	3643
COG1433	2101	1652	2160	1511	1037	1977	1515	1704	二氮酶铁钼辅因子生物合成蛋白
	2290	1246	2080	2330	1211	2081	1301	1584
	1915	1048	1943	2114	1508	1864	1343	1970
COG2710	7747	6738	6558	6756	6622	8012	15425	10254	固氮酶
	12624	6483	7108	6558	8883	8205	11132	11770
	7342	7092	7938	6503	8734	8086	15733	10877
COG3870	2011	1483	1766	1322	547	1221	717	911	来自氮调节蛋白P-II的蛋白质
	1285	1245	1779	2107	675	1327	769	727
	1488	1421	1553	1967	726	1339	701	776
COG4656	2338	2037	2173	1998	1798	2088	1615	1589	固氮所需
	2161	1974	2105	1788	1831	2003	1919	1697
	2030	1701	2229	1797	1930	1996	1610	2008
COG5420	164	229	140	218	380	340	379	542	固氮
	221	170	159	128	426	273	289	500
	236	155	184	125	609	397	367	653
COG5456	253	534	305	508	738	909	1101	1418	固氮蛋白FixH
	283	658	430	273	934	758	1045	1416
	707	1229	362	280	1175	931	917	2132
COG5554	156	192	135	206	373	364	421	593	固氮蛋白
	211	158	162	129	440	273	340	557
	257	146	175	121	609	411	374	709

酸铝胁迫土壤中耐铝大豆根际不同部位细菌群落结构、功能及其对促生菌富集作用的研究

Bacterial composition, function and the enrichment of plant growth promoting rhizobacteria (PGPR) in differential rhizosphere compartments of Al-tolerant soybean in acidic soil

RichHTML

PDF (PC)

可视化

摘要/Abstract

引用本文

使用本文

图/表 13

参考文献 55

相关文章 1

编辑推荐

Metrics

门	种	BX_ 16FBS	BD_ 16FBS	BX_ 16FSRH	BD_ 16FSRH	BX_ 16FBRH	BD_ 16FBRH	BX_ 16FWRH	BD_ 16FWRH
Proteobacteria	Bradyrhizobium elkanii	0.004479	0.005202	0.004444	0.00565	0.005994	0.00844	0.009164	0.01695
		0.002549	0.004582	0.003583	0.003583	0.009508	0.00627	0.005788	0.015985
		0.006856	0.004926	0.004685	0.003032	0.012988	0.012919	0.009439	0.020912
Proteobacteria	Acinetobacter johnsonii	0	0.008957	0	0.00565	3.45E-05	0	0	0
		0	0.043752	0	0	0	0	0	0
		0	0.10349	0	0	0	0	0	0.002963
Proteobacteria	Brevundimonas diminuta	0	0.003824	0	0.003032	0	0	0	0
		0	0.019844	0	0	0	0	0	0
		0	0.051021	0	0	0	0	0	3.45E-05
Proteobacteria	Pseudomonas fragi	0	0.000276	0	0.000138	0	0	3.45E-05	0
		0	0.000551	0	0	0	0	0	6.89E-05
		0	0	0	0	0.000103	0	0	0.01006
Proteobacteria	Rhizobium radiobacter	0	0.004065	0	0.00248	0.000207	0.000172	0.000517	0.000241
		0	0.012333	0	3.45E-05	6.89E-05	0	6.89E-05	0.000965
		3.45E-05	0.028215	0	0	0.001034	0.000138	0.00062	0.000241
Actinobacteria	Pseudarthrobacter oxydans	0.000103	0.007441	0.000172	0.003376	0.017294	0.000448	0.000103	0.000103
		0.000138	0.004547	0.000103	0.000138	0.005409	0.000207	0.000103	0.000103
		0.000276	0.004134	0.000138	6.89E-05	0.011128	0.000172	6.89E-05	0.000551
Actinobacteria	Arthrobacter methylotrophus	0.000103	0.000448	3.45E-05	0.000517	0.01664	6.89E-05	6.89E-05	3.45E-05
		0	0.000517	0.000103	0	0.002859	6.89E-05	0	0
		3.45E-05	6.89E-05	0	3.45E-05	0.004341	0	3.45E-05	0
Firmicutes	Aerococcus viridans	0	0.002825	0	0.002308	0	0	0	0
		0	0.010783	0	0	0	0	0	0
		0	0.027492	0	0	0	0	0	6.89E-05