Research Progress on Application of Synthetic Microbial Communities in Agriculture: A Bibliometric Analysis Based on VOSviewer and CiteSpace

doi:10.11924/j.issn.1000-6850.casb2024-0805

Abstract

Abstract:

By visually analyzing the research literature in the field of synthetic microbial communities in the past 10 years (2014-2024), this paper explores the research process, research strength, main research contents and deficiencies in this field, and provides a reference for the application research of synthetic microbial communities in the agricultural field. By using bibliometric methods and CiteSpace and VOSviewer software, 1017 literatures related to synthetic microbial communities in the CNKI and WOS databases were visualized, including domestic and international publication trends, cooperation networks, co-occurrence and emergent analysis of high-frequency keywords. The results show that the research on synthetic microbial communities at home and abroad shows a fluctuating upward trend, and the growth rate of foreign language papers is greater than that of Chinese papers. A research pattern has been formed globally, with China and the United States taking the lead and other countries participating together. There is a lack of cooperation between research institutions and researchers, with cooperation rates of 10.12% and 21.70% respectively. However, the quality of research institutions is relatively high, such as Tianjin University, Nanjing Agricultural University, Northwest A&F University, University of California, Chinese Academy of Sciences, United States Department of Energy (DOE), etc. The research on synthetic microbial communities mainly focuses on the construction of bacterial flora, interspecific interactions within the community and their applications, lacking related mechanism studies. In the future, attention should be paid to the construction of cross-border synthetic flora and the mechanism research on the advantages of flora. The research on synthetic microbial communities is in the development stage and has great research potential. Future research should still focus on constructing microbiota, interspecific interactions and enhancing the practical application effects of synthetic microbial communities based on practical applications.

Key words: synthetic microbial community, CiteSpace, VOSviewer, bibliometrics, research dynamics

ZHANGYincui, LIU Xiaoting, YAO Tuo. Research Progress on Application of Synthetic Microbial Communities in Agriculture: A Bibliometric Analysis Based on VOSviewer and CiteSpace[J]. Chinese Agricultural Science Bulletin, 2025, 41(20): 143-156.

Figures/Tables 12

References 49

[1]	邵嘉朱, 吕雯, 廖鑫琳, 等. 大豆根际促生菌的分离、鉴定及其耐盐促生作用[J]. 中国农业科学, 2024, 57(21):4248-4263. doi: 10.3864/j.issn.0578-1752.2024.21.007
[2]	MAZZOLA M, FREILICH S. Prospects for biological soilborne disease control: application of indigenous versus synthetic microbiomes[J]. Phytopathology, 2017, 107(3):256-263. doi: 10.1094/PHYTO-09-16-0330-RVW pmid: 27898265
[3]	JOHNS I N, BLAZEJEWSKI T, GOMES L A, et al. Principles for designing synthetic microbial communities[J]. Current opinion in microbiology, 2016, 31:146-153. doi: S1369-5274(16)30025-X pmid: 27084981
[4]	LI Z F, BAI X L, JIAO S, et al. A simplified synthetic community rescues Astragalus mongholicus from root rot disease by activating plant-induced systemic resistance[J]. Microbiome, 2021, 9(1):217
[5]	韦中, 杨天杰, 任鹏, 等. 合成菌群在根际免疫研究中的现状与未来[J]. 南京农业大学学报, 2021, 44(4):597-603.
[6]	GOERS L, FREEMONT P, POLIZZI K M. Co-culture systems and technologies: taking synthetic biology to the next level[J]. Journal of the royal society, interface, 2014, 11(96):20140065.
[7]	李树瑶. 不同互作关系合成微生物群落构建及应用[D]. 杭州: 浙江大学, 2022.
[8]	高春辉, 杨宁, 王创, 等. 有涌现性功能的合成菌群在作物育种上的应用前景[J]. 合成生物学, 2024, 5(1):144-153. doi: 10.12211/2096-8280.2023-073
[9]	AN DEN BERG V N I, MACHADO D, SANTOS S. Ecological modelling approaches for predicting emergent properties in microbial communities[J]. Nature ecology and evolution, 2022, 6(7):855-865.
[10]	GREENBERG E P. Bacterial communication and group behavior[J]. The journal of clinical investigation, 2003, 112(9):1288-1290.
[11]	BRENNER K, KARIG D K, WEISS R, et al. Engineered bidirectional communication mediates a consensus in a microbial biofilm consortium[J]. Proceedings of the National Academy of Sciences of the United States of America, 2007, 104(44):17300-17304. doi: 10.1073/pnas.0704256104 pmid: 17959781
[12]	张娇, 陈江峰, 陈奕璇, 等. 合成功能菌群的构建及其工程化应用[J]. 生物工程学报, 2023, 39(6):2517-2545.
[13]	陈林, 曹萌豪, 宋乃平, 等. 中国荒漠草原的研究态势与热点分析——基于文献计量研究[J]. 生态学报, 2021, 41(24):9990-10000.
[14]	刘亮, 许姗, 杨艺凝. 基于文献计量的1979-2019年中文期刊冻土研究现状与热点分析[J]. 辽宁师范大学学报(自然科学版), 2023, 46(2): 256-266.
[15]	李豫悦, 李天凯, 陈林. 基于VOSviewer分析中国高寒草甸的研究进展与热点[J]. 生态学报, 2023(18):1-11.
[16]	SHEN Z, TIAN Y, YAO Y X, et al. Ecological restoration research progress and prospects: A bibliometric analysis[J]. Ecological indicators, 2023,155:110968.
[17]	秦晓楠, 卢小丽, 武春友. 国内生态安全研究知识图谱-基于Citespace的计量分析[J]. 生态学报, 2014, 34(13):3693-3703.
[18]	廖胜姣. 科学知识图谱绘制工具VOSviewer与Citespace的比较研究[J]. 科技情报开发与经济, 2011, 21(7):137-139.
[19]	XU Z, LI X, ZHANG L. A bibliometric analysis of research trends and hotspots in alpine grassland degradation on the Qinghai-Tibet Plateau[J]. PeerJ, 2023, 11:e16210.
[20]	串丽敏, 郑怀国, 赵同科, 等. 基于Web of Science数据库的土壤污染修复领域发展态势分析[J]. 农业环境科学学报, 2016, 35(1):12-20.
[21]	杨莹博, 易显凤, 刘学录, 等. 基于文献计量的草地恢复近二十年研究态势分析[J]. 中国草地学报, 2021, 43(7):95-105.
[22]	刘泽华, 李天凯, 何亚莉, 等. 基于文献计量的土壤遗留效应研究现状与热点分析[J]. 中国草地学报, 2024, 46(3):125-138.
[23]	吴俣, 杜剑卿, 刘强, 等. 基于文献计量的青藏高原土壤呼吸研究进展[J]. 生态学报, 2023, 43(7):2968-2977.
[24]	李天凯, 陈林, 庞丹波, 等. 基于文献计量的植物-土壤反馈研究态势与热点分析[J]. 中国草地学报. 2022, 44(12):73-86.
[25]	魏孔涛, 曹铨, 张春平, 等. 草畜平衡研究的文献计量分析(2003—2023年):研究进展与趋势评价[J]. 中国草地学报, 2025, 47(1):105-117.
[26]	曲孝云, 侯东杰, 陆帅志, 等. 基于文献计量分析的青藏高原草地研究[J]. 生态学报, 2023, 43(19):8229-8240.
[27]	HE Y, LAN Y, ZHANG H, et al. Research characteristics and hotspots of the relationship between soil microorganisms and vegetation: a bibliometric analysis[J]. Ecological indicators, 2022, 141:109145
[28]	张增可, 王齐, 吴雅华, 等. 基于CiteSpace植物功能性状的研究进展[J]. 生态学报, 2020, 40(3):1101-1112.
[29]	赵瑞, 吴克宁, 陈甜倩. 面向土地整治的耕地质量评价优化[J]. 生态学杂志, 2019, 38(8):2433-2441.
[30]	ALNAHHAS R N, SADEGHPOUR M, CHEN Y, et al. Majority sensing in synthetic microbial consortia[J]. Nature communications, 2020,11:3659.
[31]	VENTURELLI O S, CARR A V, FISHER G, et al. Deciphering microbial interactions in synthetic human gut microbiome communities[J]. Molecular systems biology, 2018, 14(6):8157. doi: 10.15252/msb.20178157 pmid: 29930200
[32]	DU J F, LI Y, SAIF-UR-REHMAN, et al. Synergistically promoting plant health by harnessing synthetic microbial communities and prebiotics[J]. iScience, 2021, 24(8):1-11.
[33]	刘鹤. 烟草花叶病毒生防菌及其代谢产物抗病毒作用机制研究[D]. 沈阳: 沈阳农业大学, 2023.
[34]	ELOWITZ M B, LEIBLER S. A synthetic oscillatory network of transcriptional regulators[J]. Nature, 2000, 403(6767):335-338.
[35]	ALDULIJAN I, BEAL J, BILLERBECK S, et al. Functional synthetic biology[J]. Synthetic biology, 2023, 8(1):76-83.
[36]	GARDNER T S, CANTOR C R, COLLINS J J. Construction of a genetic toggle switch in Escherichia coli[J]. Nature, 2000, 403(6767):339-342.
[37]	SANKA R, LIPPAI J, SAMARASEKERA D. 3D muF-interactive envirommment for continuous flow microfluidic devices[J]. Scientific reports, 2019, 9(1):9166.
[38]	CHEN Y, KIM J K, HIRNING A J, et al. Emergent genetic oscillations in a synthetic microbial consortium[J]. Science, 2015, 349(6251):986-989.
[39]	SHOU W, RAM S, VILAR J M. Synthetic cooperation in engineered yeast populations[J]. roceedings of the National Academy of Sciences of the United States of America, 2007, 104(6):1877-1882.
[40]	GROSSKOPF T, SOYER O S. Synthetic microbial communities[J]. Current opinion in microbiology, 2014,18:72-77.
[41]	翁凌胤, 栾冬冬, 周大朴, 等. 利用合成菌群促进作物健康:进展与展望[J]. 应用生态学报, 2024, 35(3):847-857. doi: 10.13287/j.1001-9332.202403.028
[42]	RAVELOORTEGA G, RAYAGONZÁLEZ J, LÓPEZBUCIO J. Compounds from rhizosphere microbes that promote plant growth[J]. Current opinion in plant biology, 2023, 73:102336.
[43]	KUMAR V, PRASHER I B. Phosphate solubilization and indole-3-acetic acid (IAA) produced by Colletotrichum gloeosporioides and Aspergillus fumigatus strains isolated from the rhizosphere of Dillenia indica L[J]. Folia microbiologica, 2023, 68(2):219-229.
[44]	SYED A, ELGORBAN A M, BAHKALI A H, et al. Metal-tolerant and siderophore producing Pseudomonas fluorescence and Trichoderma spp. improved the growth, biochemical features and yield attributes of chickpea by lowering Cd uptake[J]. Scientific reports, 2023, 13(1):4471.
[45]	杨应, 蒋长洪, 何跃军, 等. 丛枝菌根网对喀斯特适生植物氮、磷化学计量特征的影响[J]. 植物生理学报, 2017, 53(12):2078-2090.
[46]	祖艳群, 卢鑫, 湛方栋, 等. 丛枝菌根真菌在土壤重金属污染植物修复中的作用及机理研究进展[J]. 植物生理学报, 2015, 51(10):1538-1548.
[47]	XIONG W, JOUSSET A, GUO S, et al. Soil protist communities form a dynamic hub in the soil microbiome[J]. The ISME journal, 2018, 12(2):634-638.
[48]	CAIRNS J, JALASVUORI M, OJALA V, et al. Conjugation is necessary for a bacterial plasmid to survive under protozoan predation[J]. Biology letters, 2016, 12(2):20150953.
[49]	周芳芳, 李晓婷, 汤利. 合成菌群促生抗逆功能的研究进展. 土壤, 2023, 55(6):1170-1175.

序号	CNKI机构名称	中文论文数量/篇	百分比%	序号	WOS机构名称	英文论文数量/篇	百分比%
1	西北农林科技大学	11	7.91	1	University of California	52	5.92
2	南京农业大学	9	6.47	2	Chinese Academy of Sciences	45	5.12
3	天津大学	7	5.04	3	United States Department of Energy (DOE)	42	4.78
4	江南大学	7	5.04	4	Swiss Federal Institutes of Technology Domain	30	3.42
5	哈尔滨工业大学	7	5.04	5	ETH Zurich	27	3.08
6	华中农业大学	3	2.16	6	Consejo Superior de Consejo Superior de Investigaciones Cientificas (CSIC)	24	2.73
7	东北林业大学	2	1.44	7	Tianjin University	21	2.39
8	中南林业科技大学	2	1.44	8	University of California Berkeley	18	2.05
9	中国科学院深圳先进技术研究院深圳合成生物学创新研究院中国科学院定量工程生物学重点实验室	2	1.44	9	University of Chinese Academy of Sciences	18	2.05
10	北京化工大学	2	1.44	10	Max Planck Society	17	1.94

序号	CNKI机构名称	中文论文数量/篇	百分比%	序号	WOS机构名称	英文论文数量/篇	百分比%
1	西北农林科技大学	11	7.91	1	University of California	52	5.92
2	南京农业大学	9	6.47	2	Chinese Academy of Sciences	45	5.12
3	天津大学	7	5.04	3	United States Department of Energy (DOE)	42	4.78
4	江南大学	7	5.04	4	Swiss Federal Institutes of Technology Domain	30	3.42
5	哈尔滨工业大学	7	5.04	5	ETH Zurich	27	3.08
6	华中农业大学	3	2.16	6	Consejo Superior de Consejo Superior de Investigaciones Cientificas (CSIC)	24	2.73
7	东北林业大学	2	1.44	7	Tianjin University	21	2.39
8	中南林业科技大学	2	1.44	8	University of California Berkeley	18	2.05
9	中国科学院深圳先进技术研究院深圳合成生物学创新研究院中国科学院定量工程生物学重点实验室	2	1.44	9	University of Chinese Academy of Sciences	18	2.05
10	北京化工大学	2	1.44	10	Max Planck Society	17	1.94

序号	作者	中文发文量/篇	年份	序号	作者	英文发文量/篇	年份
1	戴磊	3	2020	1	Boon Nico	9	2014
2	韦中	2	2021	2	Shen Qirong	6	2022
3	吴波	2	2020	3	Jiang Min	6	2020
4	胡云龙	2	2024	4	Xin Fengxue	5	2020
5	徐程杨	2	2020	5	Alnahhas Razan N	5	2019

序号	作者	中文发文量/篇	年份	序号	作者	英文发文量/篇	年份
1	戴磊	3	2020	1	Boon Nico	9	2014
2	韦中	2	2021	2	Shen Qirong	6	2022
3	吴波	2	2020	3	Jiang Min	6	2020
4	胡云龙	2	2024	4	Xin Fengxue	5	2020
5	徐程杨	2	2020	5	Alnahhas Razan N	5	2019