Analysis of bacterial community strucure in rhizosphere soil of wild and cultivated Fritillaria thunbergii Miq. and exploration of the associated flora

doi:10.16178/j.issn.0528-9017.20250185

Abstract

Abstract:

In order to explore the changes of flora during the domestication and cultivation of Fritillaria thunbergii Miq., and screen the dominant associated flora, the rhizosphere soil samples of Fritillaria thunbergii Miq. from different growing environments were collected, 16S rDNA sequencing technology was used to statistical analysis and functional prediction of bacterial communities in the rhizosphere soil, and the dominant associated flora of Fritillaria thunbergii Miq. were screened. The results showed that the bacteria in rhizosphere soil of wild and cultivated Fritillaria thunbergii Miq. consisted of 51 phyla, 131 classes, 296 orders, 506 families, 1 105 genera, 1 929 species. The α diversity analysis of Shannon and Chao1 index showed that the diversity of colonies of wild Fritillaria thunbergii Miq. was higher than that of cultivated Fritillaria thunbergii Miq.. At the phylum classification level, the abundance of Firmicutes, Acidobacteriota and Myxococcota in the rhizosphere soil of wild Fritillaria thunbergii Miq. was higher than that of the cultivated group, which was 3.0 times higher than the average of the cultivated group. The abundance of Chloroflexi and Bacteroidota decreased, and was less than 30% of the average value of the cultivated group. At the genus level, the abundance of 11 genera including Ensifer in the rhizosphere soil of wild Fritillaria thunbergii Miq. was higher than the mean value of the cultivated group. The common associated bacteria genera of wild and cultivated Fritillaria thunbergii Miq. were Pseudomonas, Alphaproteobacteria, Bradyrhizobium, Burkholderia and Sphingomonas. This study laid a foundation for developing microbiological agent of Fritillaria thunbergii Miq., optimizing the cultivation mode and alleviating the disease of Fritillaria thunbergii Miq.

Key words: Fritillaria thunbergii Miq., bacteria in the rhizosphere soil, 16S rDNA

CLC Number:

S567.231

CAI Long, SUN Jian, WANG Pan, SHEN Yanghui, JIANG Jianming, WANG Zhian. Analysis of bacterial community strucure in rhizosphere soil of wild and cultivated Fritillaria thunbergii Miq. and exploration of the associated flora[J]. Journal of Zhejiang Agricultural Sciences, 2025, 66(9): 2137-2146.

Figures/Tables 8

Fig.1 Venn and α diversity analysis of bacteria in rhizosphere soil of wild and cultivated Fritillaria thunbergii Miq.

Fig.2 β diversity analysis of bacteria in rhizosphere soil of wild and cultivated Fritillaria thunbergii Miq.

Table 1 Taxonomy of bacteria in rhizosphere soil of wild and cultivated Fritillaria thunbergii Miq.

根际土壤样本	样品号	门	纲	目	科	属	种
Wft	Wft-1	32	72	150	238	365	451
	Wft-2	31	66	158	252	405	499
	Wft-3	31	53	115	190	297	370
	Wft-4	33	65	151	247	427	539
	Wft-5	33	59	138	218	354	434
	Wft-6	35	73	158	254	405	515
	平均	33	65	145	233	376	468
Zft	Zft-1	28	52	130	215	391	445
	Zft-2	30	54	115	185	316	332
	Zft-3	21	44	111	169	340	422
	Zft-4	27	47	110	176	305	326
	Zft-5	29	49	119	192	333	379
	Zft-6	34	68	152	236	434	504
	平均	28	52	123	196	353	401
Pft	Pft-1	25	40	100	166	263	315
	Pft-2	22	34	80	128	195	227
	Pft-3	19	40	95	139	229	286
	Pft-4	26	49	103	174	276	352
	Pft-5	28	46	94	151	221	253
	Pft-6	27	45	103	167	251	301
	平均	25	42	96	154	239	289
合计		51	131	296	506	1 105	1 929

Fig.3 Composition analysis of bacteria in rhizosphere soil of wild and cultivated Fritillaria thunbergii Miq.

Fig.4 Phylum difference of bacteria in rhizosphere soil between wild and cultivated Fritillaria thunbergii Miq.

Fig.5 Genus difference of bacteria in rhizosphere soil between some wild and cultivated Fritillaria thunbergii Miq.

Fig.6 Evolutionary branch and LDA value distribution of bacteria species in rhizosphere soil of wild and cultivated Fritillaria thunbergii Miq.

Fig.7 Prediction of PICRUSt function of bacterial communities in rhizosphere soil of wild and cultivated Fritillaria thunbergii Miq.

References 29

[1]	国家药典委员会. 中华人民共和国药典-三部: 2020年版[M]. 北京: 中国医药科技出版社, 2020.
[2]	PÉREZ-JARAMILLO J E, MENDES R, RAAIJMAKERS J M. Impact of plant domestication on rhizosphere microbiome assembly and functions[J]. Plant Molecular Biology, 2016, 90(6): 635-644.
[3]	BARTOLI C, FRACHON L, BARRET M, et al. In situ relationships between microbiota and potential pathobiota in Arabidopsis thaliana[J]. The ISME Journal, 2018, 12(8): 2024-2038.
[4]	祝蕾, 严辉, 刘培, 等. 药用植物根际微生物对其品质形成的影响及其作用机制的研究进展[J]. 中草药, 2021, 52(13): 4064-4073.
[5]	王秋宇, 王越, 牛福傲, 等. 三种促生细菌对人参及其根际微生态结构和功能的影响[J]. 黑龙江农业科学, 2024(11): 59-71.
[6]	韩琴, 高惠惠, 马香, 等. 枸杞根际根腐病拮抗细菌的筛选及其防效检测[J]. 园艺学报, 2024, 51(5): 1162-1172.
[7]	XIE Z C, CHU Y K, ZHANG W J, et al. Bacillus pumilus alleviates drought stress and increases metabolite accumulation in Glycyrrhiza uralensis Fisch[J]. Environmental and Experimental Botany, 2019, 158: 99-106.
[8]	RAAIJMAKERS J M, KIERS E T. Rewilding plant microbiomes[J]. Science, 2022, 378(6620): 599-600.
[9]	KIM H, LEE K K, JEON J, et al. Domestication of Oryza species eco-evolutionarily shapes bacterial and fungal communities in rice seed[J]. Microbiome, 2020, 8(1): 20.
[10]	HASSANI M A, ÖZKURT E, FRANZENBURG S, et al. Ecological assembly processes of the bacterial and fungal microbiota of wild and domesticated wheat species[J]. Phytobiomes Journal, 2020, 4(3): 217-224.
[11]	EWALD P W. Transmission modes and evolution of the parasitism-mutualism continuum[J]. Annals of the New York Academy of Sciences, 1987, 503(1): 295-306.
[12]	TRUYENS S, WEYENS N, CUYPERS A, et al. Bacterial seed endophytes: Genera, vertical transmission and interaction with plants[J]. Environmental Microbiology Reports, 2015, 7(1): 40-50.
[13]	KHAN A L, ASAF S, AL-RAWAHI A, et al. Rhizospheric microbial communities associated with wild and cultivated frankincense producing Boswellia sacra tree[J]. PLoS One, 2017, 12(10): e0186939.
[14]	MATSUMOTO Haruna, 王蒙岑, 桂文君, 等. 水稻病原菌Burkholderia plantarii群体感应和群体淬灭研究进展[J]. 农药学学报, 2016, 18(3): 273-281.
[15]	姚阳阳. 当归根际变形菌门促生菌的分离、筛选及促生抗逆效应研究[D]. 兰州: 甘肃中医药大学, 2022.
[16]	柳朝阳, 向利, 王红梅, 等. 砷氧化菌株的筛选及Bosea sp. AS-1基因组分析[J]. 微生物学报, 2020, 60(11): 2538-2554.
[17]	MCDONALD I R, DORONINA N V, TROTSENKO Y A, et al. Hyphomicrobium chloromethanicum sp. nov. and Methylobacterium chloromethanicum sp. nov., chloromethane-utilizing bacteria isolated from a polluted environment[J]. International Journal of Systematic and Evolutionary Microbiology, 2001, 51(Pt 1): 119-122.
[18]	MUSTAQ S, MOIN A, PANDIT B, et al. Phyllobacteriaceae: a family of ecologically and metabolically diverse bacteria with the potential for different applications[J]. Folia Microbiologica, 2024, 69(1): 17-32.
[19]	LIU J T, XU H Y, WANG Z C, et al. Core endophytic bacteria and their roles in the coralloid roots of cultivated Cycas revoluta (Cycadaceae)[J]. Microorganisms, 2023, 11(9): 2364.
[20]	TURNER T R, JAMES E K, POOLE P S. The plant microbiome[J]. Genome Biology, 2013, 14(6): 209.
[21]	马福林, 仁增卓玛, 王昌玲, 等. 西藏沙棘根瘤内生假单胞菌的分离鉴定及促生性研究[J]. 福建农业学报, 2023, 38(5): 624-631.
[22]	王补全. 玉米根际促生菌的开发研究[D]. 太原: 山西大学, 2010.
[23]	梁文超, 韩冰, 蒋惠婷, 等. 假单胞菌属S10B9菌株对紫花苜蓿镰刀菌根腐病的生防作用[J]. 草原与草坪, 2023, 43(6): 1-8.
[24]	李艳萍, 张敏, 袁梅, 等. 根瘤菌和复合促生菌对大豆结瘤和生长的影响[J]. 大豆科学, 2017, 36(4): 583-591.
[25]	张星星. 大豆慢生根瘤菌分子进化学分析及土著大豆根瘤菌生物地理分布的高通量研究[D]. 北京: 中国农业大学, 2014.
[26]	吴月, 隋新华, 戴良香, 等. 慢生根瘤菌及其与花生共生机制研究进展[J]. 中国农业科学, 2022, 55(8): 1518-1528.
[27]	鲁子正钢, 朱立新, 季宏兵, 等. 鞘氨醇单胞菌修复土壤重金属污染研究进展[J]. 浙江农业学报, 2024, 36(5): 1208-1216.
[28]	台喜生, 冯佳丽, 李梅, 等. 鞘氨醇单胞菌在生物降解方面的研究进展[J]. 湖南农业科学, 2011(7): 21-25.
[29]	苟敏, 曲媛媛, 杨桦, 等. 鞘氨醇单胞菌: 降解芳香化合物的新型微生物资源[J]. 应用与环境生物学报, 2008, 14(2): 276-282.