Research Support, Non-U.S. Gov't
- Diversity of the Bacterial Community in the Rice Rhizosphere Managed Under Conventional and No-tillage Practices
-
Zubair Aslam , Muhammad Yasir , Hwan Sik Yoon , Che Ok Jeon , Young Ryun Chung
-
J. Microbiol. 2013;51(6):747-756. Published online December 19, 2013
-
DOI: https://doi.org/10.1007/s12275-013-2528-8
-
-
47
View
-
0
Download
-
24
Crossref
-
Abstract
-
Bacterial diversity in the rice rhizosphere at different rice
growth stages, managed under conventional and no-tillage
practices, was explored using a culture-based approach.
Actinobacteria are among the bacterial phyla abundant in
the rice rhizosphere. Their diversity was further examined by
constructing metagenomic libraries based on the 16S rRNA
gene, using actinobacterial- and streptomycete-specific polymerase
chain reaction (PCR) primers. The study included
132 culturable strains and 125 clones from the 16S rRNA gene
libraries. In conventional tillage, there were 38% Proteobacteria,
22% Actinobacteria, 33% Firmicutes, 5% Bacteroidetes,
and 2% Acidobacteria, whereas with no-tillage management
there were 63% Proteobacteria, 24% Actinobacteria, 6% Firmicutes,
and 8% Bacteroidetes as estimated using the culturedependent
method
during the four stages of rice cultivation.
Principal coordinates analysis was used to cluster the bacterial
communities along axes of maximal variance. The different
growth stages of rice appeared to influence the rhizosphere
bacterial profile for both cultivation practices. Novel
clones with low similarities (89–97%) to Actinobacteria and
Streptomyces were retrieved from both rice fields by screening
the 16S rRNA gene libraries using actinobacterial- and
streptomycete-specific primers. By comparing the actinobacterial
community retrieved by culture-dependent and
molecular methods, it was clear that a more comprehensive
assessment of microbial diversity in the rice rhizosphere can
be obtained using a combination of both techniques than
by using either method alone. We also succeeded in culturing
a number of bacteria that were previously described as
unculturable. These were in a phylogenetically deep lineage when compared with related cultivable genera.
-
Citations
Citations to this article as recorded by

- Impact of Rhizospheric Microbiome on Rice Cultivation
Md Majharul Islam, Santosh Kumar Jana, Subhadipa Sengupta, Sukhendu Mandal
Current Microbiology.2024;[Epub] CrossRef - Profiling of rhizosphere bacterial community associated with sugarcane and banana rotation system
Ziting Yao, Abdullah Khan, Yuzhi Xu, Kaiyuan Pan, Muqing Zhang
Chemical and Biological Technologies in Agriculture.2024;[Epub] CrossRef - Soil and Phytomicrobiome for Plant Disease Suppression and Management under Climate Change: A Review
Wen Chen, Dixi Modi, Adeline Picot
Plants.2023; 12(14): 2736. CrossRef - Microbial Community Shifts with Soil Properties and Enzyme Activities in Inter-/Mono-Cropping Systems in Response to Tillage
Peina Lu, Cai Zhao, Wen Yin, Falong Hu, Zhilong Fan, Aizhong Yu, Hong Fan
Agronomy.2023; 13(11): 2707. CrossRef - Long-term agro-management strategies shape soil bacterial community structure in dryland wheat systems
Shikha Singh, Surendra Singh, Scott B. Lukas, Stephen Machado, Amin Nouri, Francisco Calderon, Elizabeth R. Rieke, Shannon B. Cappellazzi
Scientific Reports.2023;[Epub] CrossRef - Microbial Inoculations Promoted the Rice Plant Growth by Regulating the Root-Zone Bacterial Community Composition and Potential Function
Yifeng Gui, Caihong Gu, Xian Xiao, Yuexiang Gao, Yuan Zhao
Journal of Soil Science and Plant Nutrition.2023; 23(4): 5222. CrossRef - Study of Rhizosphere Microbial Community Structures of Asian Wild and Cultivated Rice Showed That Cultivated Rice Had Decreased and Enriched Some Functional Microorganisms in the Process of Domestication
Jianfeng Zhang, Zongmu Yao, Yalin Chen, Jiafan Zhang, Shouyang Luo, Chunjie Tian, Lei Tian
Diversity.2022; 14(2): 67. CrossRef - Diversity of rice rhizosphere microorganisms under different fertilization modes of slow-release fertilizer
Yulin Chen, Panfeng Tu, Yibin Yang, Xinhai Xue, Zihui Feng, Chenxin Dan, Fengxian Cheng, Yifan Yang, Lansheng Deng
Scientific Reports.2022;[Epub] CrossRef - Dynamic change in bacterial communities in the integrated rice–fish farming system in Sleman, Yogyakarta, Indonesia
Afri Herlambang, Murwantoko Murwantoko, Indah Istiqomah
Aquaculture Research.2021; 52(11): 5566. CrossRef - No tillage and residue mulching method on bacterial community diversity regulation in a black soil region of Northeastern China
Lijun Cai, Zhenhua Guo, Jingtao Zhang, Zhijia Gai, Jingqi Liu, Qingying Meng, Xiaohu Liu, Dafeng Hui
PLOS ONE.2021; 16(9): e0256970. CrossRef - Soil Bacterial Diversity and Potential Functions Are Regulated by Long-Term Conservation Tillage and Straw Mulching
Chang Liu, Lingling Li, Junhong Xie, Jeffrey A. Coulter, Renzhi Zhang, Zhuzhu Luo, Liqun Cai, Linlin Wang, Subramaniam Gopalakrishnan
Microorganisms.2020; 8(6): 836. CrossRef - Conservation tillage increased soil bacterial diversity and improved soil nutrient status on the Loess Plateau in China
Hao Wang, Shulan Wang, Rui Wang, Xiaoli Wang, Jun Li
Archives of Agronomy and Soil Science.2020; 66(11): 1509. CrossRef - Changes in soil organic carbon fractions and bacterial community composition under different tillage and organic fertiliser application in a maize−wheat rotation system
Daijing Zhang, Xueqian Yang, Yanjie Wang, Jiejing Zong, Jianhui Ma, Chunxi Li
Acta Agriculturae Scandinavica, Section B — Soil & Plant Science.2020; 70(6): 457. CrossRef - Effects of tillage practices on soil microbiome and agricultural parameters
Judith Kraut-Cohen, Avihai Zolti, Liora Shaltiel-Harpaz, Eli Argaman, Rachel Rabinovich, Stefan J. Green, Dror Minz
Science of The Total Environment.2020; 705: 135791. CrossRef - Cultivated rice rhizomicrobiome is more sensitive to environmental shifts than that of wild rice in natural environments
Shangqi Xu, Lei Tian, Chunling Chang, Xiujun Li, Chunjie Tian
Applied Soil Ecology.2019; 140: 68. CrossRef - Differences in rice rhizosphere bacterial community structure by application of lignocellulolytic plant-probiotic bacteria with rapid composting traits
Thounaojam Nevita, G.D. Sharma, Piyush Pandey
Ecological Engineering.2018; 120: 209. CrossRef - Bacterial diversity of the rhizosphere and nearby surface soil of rice (Oryza sativa) growing in the Camargue (France)
Jorge R. Osman, Gustavo Fernandes, Michael S. DuBow
Rhizosphere.2017; 3: 112. CrossRef - Seasonal and Interannual Fluctuation of the Microbial Soil Community in a Maize Field under Long-Term Conservation Agriculture Management
Manuel Ramírez, Antonio López-Piñeiro, David Peña, José Rato Nunes, Ángel Albarrán, Ana Muñoz, José Gama, Luis Loures
Sustainability.2017; 9(5): 778. CrossRef - Microbiotes et métagénomique
Jean Weissenbach, Abdelghani Sghir
médecine/sciences.2016; 32(11): 937. CrossRef - Distribution and activity of the anaerobic methanotrophic community in a nitrogen-fertilized Italian paddy soil
A. Vaksmaa, C. Lüke, T. van Alen, G. Valè, E. Lupotto, M. S. M Jetten, K. F. Ettwig, Gary King
FEMS Microbiology Ecology.2016; 92(12): fiw181. CrossRef - Biological Control of Rice Bakanae by an Endophytic Bacillus oryzicola YC7007
Mohammad Tofajjal Hossain, Ajmal Khan, Eu Jin Chung, Md. Harun-Or Rashid, Young Ryun Chung
The Plant Pathology Journal.2016; 32(3): 228. CrossRef - Roseomonas oryzicola sp. nov., isolated from the rhizosphere of rice (Oryza sativa L.)
Eu Jin Chung, Hwan Sik Yoon, Kyung Hyun Kim, Che Ok Jeon, Young Ryun Chung
International Journal of Systematic and Evolutionary Microbiology.2015; 65(Pt_12): 4839. CrossRef - Role of root microbiota in plant productivity
A. Tkacz, P. Poole
Journal of Experimental Botany.2015; 66(8): 2167. CrossRef - Impact of plant development on the rhizobacterial population of Arachis hypogaea: a multifactorial analysis
Shyamalina Haldar, Sanghamitra Sengupta
Journal of Basic Microbiology.2015; 55(7): 922. CrossRef