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Zhou J, Zhang R, Wang P, Gao Y, Zhang J. Responses of soil and rhizosphere microbial communities to Cd-hyperaccumulating willows and Cd contamination. BMC PLANT BIOLOGY 2024; 24:398. [PMID: 38745310 PMCID: PMC11092141 DOI: 10.1186/s12870-024-05118-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/11/2024] [Accepted: 05/08/2024] [Indexed: 05/16/2024]
Abstract
BACKGROUND The pollution of soil by heavy metals, particularly Cd, is constitutes a critical international environmental concern. Willow species are renowned for their efficacy in the phytoremediation of heavy metals owing to their high Cd absorption rate and rapid growth. However, the mechanisms underlying microbial regulation for high- and low-accumulating willow species remain poorly understood. Therefore, we investigated the responses of soil and rhizosphere microbial communities to high- and low-Cd-accumulating willows and Cd contamination. We analyzed soil properties were analyzed in bulk soil (SM) and rhizosphere soil (RM) planted with high-accumulating (H) and low-accumulating (L) willow species. RESULTS Rhizosphere soil for different willow species had more NH4+ than that of bulk soil, and RM-H soil had more than RM-L had. The available phosphorus content was greater in hyper-accumulated species than it was in lower-accumulated species, especially in RM-H. Genome sequencing of bacterial and fungal communities showed that RM-L exhibited the highest bacterial diversity, whereas RM-H displayed the greatest richness than the other groups. SM-L exhibited the highest diversity and richness of fungal communities. Ralstonia emerged as the predominant bacterium in RM-H, whereas Basidiomycota and Cercozoa were the most enriched fungi in SM-H. Annotation of the N and C metabolism pathways revealed differential patterns: expression levels of NRT2, NarB, nirA, nirD, nrfA, and nosZ were highest in RM-H, demonstrating the effects of NO3-and N on the high accumulation of Cd in RM-H. The annotated genes associated with C metabolism indicated a preference for the tricarboxylic pathway in RM-H, whereas the hydroxypropionate-hydroxybutyrate cycle was implicated in C sequestration in SM-L. CONCLUSIONS These contribute to elucidation of the mechanism underlying high Cd accumulation in willows, particularly in respect of the roles of microbes and N and C utilization. This will provide valuable insights for repairing polluted soil using N and employing organic acids to improve heavy metal remediation efficiency.
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Affiliation(s)
- Jie Zhou
- Jiangsu Academy of Forestry, Nanjing, China.
| | - RuiQing Zhang
- Jiangsu Suqian Environmental Monitoring Center, Suqian, China
| | - Pu Wang
- Nanjing Forestry University, Nanjing, China
| | | | - Jue Zhang
- Jiangsu Academy of Forestry, Nanjing, China
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2
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Yuan W, Wang S, Liang J, Shi J, Zhang Y, Ding C. Analysis of Salt Stress on Soil Microbial Community Composition and Its Correlation with Active Components in the Rhizosphere of Acanthopanax senticosus. Curr Microbiol 2024; 81:160. [PMID: 38695903 DOI: 10.1007/s00284-024-03687-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2023] [Accepted: 04/01/2024] [Indexed: 05/16/2024]
Abstract
Salt stress can adversely affect plant seed germination, growth and development, and eventually lead to slow growth and even death of plants. The purpose of this study was to investigate the effects of different concentrations of NaCl and Na2SO4 stress on the physicochemical properties, enzyme activities, rhizosphere microbial community and seven active components (L-phenylalanine, Protocatechuic acid, Eleutheroside B, Chlorogenic acid, Caffeic acid, Eleutheroside E, Isofraxidin) of Acanthopanax senticosus rhizosphere soil. Statistical analysis was used to explore the correlation between the rhizosphere ecological factors of Acanthopanax senticosus and its active components. Compared with Acanthopanax senticosus under NaCl stress, Na2SO4 generally had a greater effect on Acanthopanax senticosus, which reduced the richness of fungi in rhizosphere soil and adversely affected the content of multiple active components. Pearson analysis showed that pH, organic matter, ammonium nitrogen, available phosphorus, available potassium, catalase and urease were significantly correlated with active components such as Caffeic acid and Isofraxidin. There were 11 known bacterial genera, 12 unknown bacterial genera, 9 known fungal genera and 1 unknown fungal genus significantly associated with the active ingredient. Salt stress had great changes in the physicochemical properties, enzyme activities and microorganisms of the rhizosphere soil of Acanthopanax senticosus. In conclusion, different types and concentrations of salts had different effects on Acanthopanax senticosus, and the active components of Acanthopanax senticosus were regulated by rhizosphere soil ecological factors.
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Affiliation(s)
- Wenhui Yuan
- College of Pharmacy, Heilongjiang University of Traditional Chinese Medicine, Harbin, China
| | - Shouyu Wang
- College of Pharmacy, Heilongjiang University of Traditional Chinese Medicine, Harbin, China
| | - Jingru Liang
- College of Pharmacy, Heilongjiang University of Traditional Chinese Medicine, Harbin, China
| | - Jiajie Shi
- College of Pharmacy, Heilongjiang University of Traditional Chinese Medicine, Harbin, China
| | - Yang Zhang
- College of Pharmacy, Heilongjiang University of Traditional Chinese Medicine, Harbin, China
| | - Changhong Ding
- College of Pharmacy, Heilongjiang University of Traditional Chinese Medicine, Harbin, China.
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Chen L, Wei Y, Li C, Zhao Y, Wei Y, Xue Y, Feng Q. Afforestation changed the fungal functional community of paddy fields and dry farmlands differently. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 904:166758. [PMID: 37673251 DOI: 10.1016/j.scitotenv.2023.166758] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/26/2023] [Revised: 08/30/2023] [Accepted: 08/30/2023] [Indexed: 09/08/2023]
Abstract
Afforestation currently makes a great contribution to carbon uptake in terrestrial ecosystems, while dramatically affects soil ecosystem functions too. Little is known, however, about the changes in soil fungal functional groups and their interactions following afforestation. Here, based on high-throughput sequencing and FUNGuild annotation, we investigated the functional characteristics of soil fungi as well as environmental factors in a watershed where paddy field and dry farmland were changed to eucalyptus plantation. The results showed that afforestation on paddy field resulted in greater changes in diversity, community structure and taxon interactions of fungal functional groups than afforestation on dry farmland. The most complex and distinctive community structure was found in eucalyptus plantation, as well as the greatest taxon interactions, and the lowest alpha-diversity of functional guilds of symbiotrophic fungi because of the dominant ectomycorrhizal fungi. Paddy field exhibited the highest proportion of saprotrophic fungi, but the lowest taxonomic diversity of saprotrophic and pathotrophic fungi. The taxonomic diversity of undefined saprotrophic fungi shaped the differences in community structure and network complexity between eucalyptus plantation and cropland. Limited cooperation within dominant fungi was the main reason for the establishment of a loose co-occurrence network in paddy field. From croplands to artificial forests, reduced soil pH boosted the taxonomic diversity of fungal functional groups. All of these findings suggested that afforestation may lead to an increase in the taxonomic diversity of soil fungal functional groups, which would further intensify the taxon interactions.
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Affiliation(s)
- Lijuan Chen
- Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou 730000, China
| | - Yuxi Wei
- Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou 730000, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Changsheng Li
- Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou 730000, China; Plant Protection and Quarantine Station of Gansu Province, Lanzhou 730020, China
| | - Yinjun Zhao
- Key Laboratory of Environment Change and Resources Use in Beibu Gulf, Ministry of Education, School of Geography and Planning, Nanning Normal University, Nanning 530001, China
| | - Yongping Wei
- School of Earth and Environmental Sciences, The University of Queensland, Brisbane 4072, Australia
| | - Yuanyuan Xue
- Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou 730000, China; University of Chinese Academy of Sciences, Beijing 100049, China
| | - Qi Feng
- Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Northwest Institute of Eco-Environment and Resources, Chinese Academy of Sciences, Lanzhou 730000, China.
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Song P, Liu J, Huang P, Han Z, Wang D, Sun N. Diversity and structural analysis of rhizosphere soil microbial communities in wild and cultivated Rhizoma Atractylodis Macrocephalae and their effects on the accumulation of active components. PeerJ 2023; 11:e14841. [PMID: 36811005 PMCID: PMC9939024 DOI: 10.7717/peerj.14841] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2022] [Accepted: 01/11/2023] [Indexed: 02/18/2023] Open
Abstract
Rhizosphere microorganisms are the main factors affecting the formation of high quality medicinal materials and promoting the accumulation of secondary metabolites. However, the composition, diversity, and function of rhizosphere microbial communities in endangered wild and cultivated Rhizoma Atractylodis Macrocephalae (RAM) and their relationships with active component accumulation have remained unclear. In this study, high-throughput sequencing and correlation analysis were used to study the rhizosphere microbial community diversity (bacteria and fungi) of three RAM species and its correlation with the accumulation of polysaccharides, atractylone, and lactones (I, II, and III). A total of 24 phyla, 46 classes, and 110 genera were detected. The dominant taxa were Proteobacteria, Ascomycota, and Basidiomycota. The microbial communities in both wild and artificially cultivated soil samples were extremely species-rich, but there were some differences in their structure and the relative abundances of microorganism taxa. Meanwhile, the contents of effective components in wild RAM were significantly higher than those in cultivated RAM. Correlation analysis showed that 16 bacterial and 10 fungal genera were positively or negatively correlated with active ingredient accumulation. These results showed that rhizosphere microorganisms could play an important role in component accumulation and might lay a foundation for future research on endangered materials.
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Affiliation(s)
- Pingping Song
- School of Pharmacy, Anhui University of Chinese Medicine, Hefei, China
| | - Junling Liu
- Key Laboratory of Quality Research and Evaluation of Traditional Chinese Medicine, State Medical Products Administration, Hefei, China
| | - Peng Huang
- School of Pharmacy, Anhui University of Chinese Medicine, Hefei, China,Anhui Province Key Laboratory of Research and Development of Chinese Medicine, Hefei, China
| | - Zhili Han
- School of Pharmacy, Anhui University of Chinese Medicine, Hefei, China,Anhui Province Key Laboratory of Research and Development of Chinese Medicine, Hefei, China
| | - Dianlei Wang
- School of Pharmacy, Anhui University of Chinese Medicine, Hefei, China,Anhui Province Key Laboratory of Research and Development of Chinese Medicine, Hefei, China
| | - Nianxia Sun
- School of Pharmacy, Anhui University of Chinese Medicine, Hefei, China,Anhui Province Key Laboratory of Research and Development of Chinese Medicine, Hefei, China
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Sritongon N, Sarin P, Theerakulpisut P, Riddech N. The effect of salinity on soil chemical characteristics, enzyme activity and bacterial community composition in rice rhizospheres in Northeastern Thailand. Sci Rep 2022; 12:20360. [PMID: 36437295 PMCID: PMC9701763 DOI: 10.1038/s41598-022-24902-2] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2022] [Accepted: 11/22/2022] [Indexed: 11/28/2022] Open
Abstract
Saline soil is one of the major problems limiting rice productivity in the Northeastern area of Thailand. Thus, the aims of this study were to determine soil physicochemical analysis and soil enzyme activities, and bacterial communities in the rhizosphere of 'RD 6' rice grown in salt-affected rice fields. The Ban Thum sample showed the highest electrical conductivity (EC; greater than 6 dS m-1) and total Na, while the EC in other fields were at non- or slightly saline levels. The principal component analysis revealed that soil chemical characteristics and soil enzymes activities explained 73.4% of total variation. Soil enzyme activities including dehydrogenase and fluorescein diacetate (FDA) hydrolysis, and soil characteristics including organic matter (OM) and organic carbon (OC) were significantly negatively correlated to EC. This indicated that these soil properties were adversely impacted by salts. Interestingly, activities of all hydrolytic enzymes were not affected by soil salinity. Bacteria that were able to colonize the rhizosphere soils were Achromobacter cholinophagum, Rhizobium tarimense, and unculturable bacteria. In this regard, study on the relationship of soil chemical characteristics and soil enzyme activities together with bacterial communities provided promising data for assessing rice field soil quality in the future.
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Affiliation(s)
- Natthawat Sritongon
- grid.9786.00000 0004 0470 0856Department of Microbiology, Faculty of Science, Khon Kaen University, Khon Kaen, 40002 Thailand
| | - Pornrapee Sarin
- grid.9786.00000 0004 0470 0856Department of Microbiology, Faculty of Science, Khon Kaen University, Khon Kaen, 40002 Thailand
| | - Piyada Theerakulpisut
- grid.9786.00000 0004 0470 0856Department of Biology, Faculty of Science, Khon Kaen University, Khon Kaen, 40002 Thailand ,grid.9786.00000 0004 0470 0856Salt-Tolerant Rice Research Group, Faculty of Science, Khon Kaen University, Khon Kaen, 40002 Thailand
| | - Nuntavun Riddech
- grid.9786.00000 0004 0470 0856Department of Microbiology, Faculty of Science, Khon Kaen University, Khon Kaen, 40002 Thailand ,grid.9786.00000 0004 0470 0856Salt-Tolerant Rice Research Group, Faculty of Science, Khon Kaen University, Khon Kaen, 40002 Thailand
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Mansour A, Mannaa M, Hewedy O, Ali MG, Jung H, Seo YS. Versatile Roles of Microbes and Small RNAs in Rice and Planthopper Interactions. THE PLANT PATHOLOGY JOURNAL 2022; 38:432-448. [PMID: 36221916 PMCID: PMC9561162 DOI: 10.5423/ppj.rw.07.2022.0090] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/07/2022] [Revised: 07/21/2022] [Accepted: 07/22/2022] [Indexed: 06/16/2023]
Abstract
Planthopper infestation in rice causes direct and indirect damage through feeding and viral transmission. Host microbes and small RNAs (sRNAs) play essential roles in regulating biological processes, such as metabolism, development, immunity, and stress responses in eukaryotic organisms, including plants and insects. Recently, advanced metagenomic approaches have facilitated investigations on microbial diversity and its function in insects and plants, highlighting the significance of microbiota in sustaining host life and regulating their interactions with the environment. Recent research has also suggested significant roles for sRNA-regulated genes during rice-planthopper interactions. The response and behavior of the rice plant to planthopper feeding are determined by changes in the host transcriptome, which might be regulated by sRNAs. In addition, the roles of microbial symbionts and sRNAs in the host response to viral infection are complex and involve defense-related changes in the host transcriptomic profile. This review reviews the structure and potential functions of microbes and sRNAs in rice and the associated planthopper species. In addition, the involvement of the microbiota and sRNAs in the rice-planthopper-virus interactions during planthopper infestation and viral infection are discussed.
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Affiliation(s)
- Abdelaziz Mansour
- Department of Integrated Biological Science, Pusan National University, Busan 46241,
Korea
- Department of Economic Entomology and Pesticides, Faculty of Agriculture, Cairo University, Giza 12613,
Egypt
| | - Mohamed Mannaa
- Department of Integrated Biological Science, Pusan National University, Busan 46241,
Korea
- Department of Plant Pathology, Cairo University, Giza 12613,
Egypt
| | - Omar Hewedy
- Department of Plant Agriculture, University of Guelph, 50 Stone Road East, Guelph, ON N1G 2W1,
Canada
- Department of Genetics, Faculty of Agriculture, Menoufia University, Shibin El-Kom 32514,
Egypt
| | - Mostafa G. Ali
- Department of Botany and Microbiology, Faculty of Science, Benha University, Benha 13518,
Egypt
| | - Hyejung Jung
- Department of Integrated Biological Science, Pusan National University, Busan 46241,
Korea
| | - Young-Su Seo
- Department of Integrated Biological Science, Pusan National University, Busan 46241,
Korea
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Doni F, Suhaimi NSM, Mispan MS, Fathurrahman F, Marzuki BM, Kusmoro J, Uphoff N. Microbial Contributions for Rice Production: From Conventional Crop Management to the Use of 'Omics' Technologies. Int J Mol Sci 2022; 23:737. [PMID: 35054923 PMCID: PMC8775878 DOI: 10.3390/ijms23020737] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2021] [Revised: 01/03/2022] [Accepted: 01/08/2022] [Indexed: 12/26/2022] Open
Abstract
Rice, the main staple food for about half of the world's population, has had the growth of its production stagnate in the last two decades. One of the ways to further improve rice production is to enhance the associations between rice plants and the microbiome that exists around, on, and inside the plant. This article reviews recent developments in understanding how microorganisms exert positive influences on plant growth, production, and health, focusing particularly on rice. A variety of microbial species and taxa reside in the rhizosphere and the phyllosphere of plants and also have multiple roles as symbiotic endophytes while living within plant tissues and even cells. They alter the morphology of host plants, enhance their growth, health, and yield, and reduce their vulnerability to biotic and abiotic stresses. The findings of both agronomic and molecular analysis show ways in which microorganisms regulate the growth, physiological traits, and molecular signaling within rice plants. However, many significant scientific questions remain to be resolved. Advancements in high-throughput multi-omics technologies can be used to elucidate mechanisms involved in microbial-rice plant associations. Prospectively, the use of microbial inoculants and associated approaches offers some new, cost-effective, and more eco-friendly practices for increasing rice production.
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Affiliation(s)
- Febri Doni
- Department of Biology, Faculty of Mathematics and Natural Sciences, Universitas Padjadjaran, Jatinangor 45363, West Java, Indonesia; (B.M.M.); (J.K.)
| | - Nurul Shamsinah Mohd Suhaimi
- Institute of Biological Sciences, Faculty of Science, University of Malaya, Kuala Lumpur 50603, Malaysia; (N.S.M.S.); (M.S.M.)
| | - Muhamad Shakirin Mispan
- Institute of Biological Sciences, Faculty of Science, University of Malaya, Kuala Lumpur 50603, Malaysia; (N.S.M.S.); (M.S.M.)
- Centre for Research in Biotechnology for Agriculture (CEBAR), University of Malaya, Kuala Lumpur 50603, Malaysia
| | - F Fathurrahman
- Department of Agrotechnology, Faculty of Agriculture, Universitas Islam Riau, Pekanbaru 28284, Indonesia;
| | - Betty Mayawatie Marzuki
- Department of Biology, Faculty of Mathematics and Natural Sciences, Universitas Padjadjaran, Jatinangor 45363, West Java, Indonesia; (B.M.M.); (J.K.)
| | - Joko Kusmoro
- Department of Biology, Faculty of Mathematics and Natural Sciences, Universitas Padjadjaran, Jatinangor 45363, West Java, Indonesia; (B.M.M.); (J.K.)
| | - Norman Uphoff
- SRI International Network and Resources Center, Cornell University, Ithaca, NY 14853, USA;
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Tian D, Chen Z, Lin Y, Liang T, Chen Z, Guo X, Wang F, Wang Z. The Interaction between Rice Genotype and Magnaporthe oryzae Regulates the Assembly of Rice Root-Associated Microbiota. RICE (NEW YORK, N.Y.) 2021; 14:40. [PMID: 33974154 PMCID: PMC8113375 DOI: 10.1186/s12284-021-00486-9] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/07/2020] [Accepted: 04/26/2021] [Indexed: 06/12/2023]
Abstract
BACKGROUND Utilizating the plant microbiome to enhance pathogen resistance in crop production is an emerging alternative to the use of chemical pesticides. However, the diversity and structure of the microbiota, and the assembly mechanisms of root-associated microbial communities of plants are still poorly understood. RESULTS We invstigated the microbiota of the root endosphere and rhizosphere soils of the rice cultivar Nipponbare (NPB) and its Piz-t-transgenic line (NPB-Piz-t) when infected with the filamentous fungus Magnaporthe oryzae (M. oryzae) isolate KJ201, using 16S rRNA and internal transcribed spacer 1 (ITS1) amplicon sequencing. The rhizosphere soils showed higher bacterial and fungal richness and diversity than the endosphere except for fungal richness in the rhizosphere soils of the mock treatment. Bacteria richness and diversity increased in the endospheric communities of NPB and Piz-t under inoculation with KJ201 (referred to as 'NPB-KJ201' and 'Piz-t-KJ201', respectively) compared with the corresponding mock treatments, with the NPB-KJ201 showing the highest diversity in the four bacterial endocompartments. In contrast, fungal richness and diversity decreased in the endospheric communities of NPB-KJ201 and Piz-t-KJ201, relative to the corresponding mock treatments, with NPB-KJ201 and Piz-t-KJ201 having the lowest richness and diversity, respectively, across the four fungal endocompartments. Principal component analysis (PCA) indicated that the microbiota of Piz-t-KJ201 of root endophytes were mostly remarkablely distinct from that of NPB-KJ201. Co-occurrence network analysis revealed that the phyla Proteobacteria and Ascomycota were the key contributors to the bacterial and fungal communities, respectively. Furthermore, a comparative metabolic analysis showed that the contents of tryptophan metabolism and indole alkaloid biosynthesis were significantly lower in the Piz-t-KJ201 plants. CONCLUSIONS In this study, we compared the diversity, composition, and assembly of microbial communities associated with the rhizosphere soils and endosphere of Piz-t-KJ201 and NPB-KJ201. On the basis of the different compositions, diversities, and assemblies of the microbial communities among different compartments, we propose that the host genotype and inoculation pattern of M. oryzae played dominant roles in determining the microbial community assemblage. Further metabolomics analysis revealed that some metabolites may influence changes in bacterial communities. This study improves our understanding of the complex interactions between rice and M. oryzae, which could be useful in developing new strategies to improve rice resistance through the manipulation of soil microorganisms.
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Affiliation(s)
- Dagang Tian
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, China.
- Biotechnology Research Institute, Fujian Provincial Key Laboratory of Genetic Engineering for Agriculture, Fujian Academy of Agricultural Sciences, Fuzhou, 350003, China.
| | - Zaijie Chen
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, China
- Biotechnology Research Institute, Fujian Provincial Key Laboratory of Genetic Engineering for Agriculture, Fujian Academy of Agricultural Sciences, Fuzhou, 350003, China
| | - Yan Lin
- Biotechnology Research Institute, Fujian Provincial Key Laboratory of Genetic Engineering for Agriculture, Fujian Academy of Agricultural Sciences, Fuzhou, 350003, China
| | - Tingmin Liang
- Biotechnology Research Institute, Fujian Provincial Key Laboratory of Genetic Engineering for Agriculture, Fujian Academy of Agricultural Sciences, Fuzhou, 350003, China
| | - Ziqiang Chen
- Biotechnology Research Institute, Fujian Provincial Key Laboratory of Genetic Engineering for Agriculture, Fujian Academy of Agricultural Sciences, Fuzhou, 350003, China
| | - Xinrui Guo
- Biotechnology Research Institute, Fujian Provincial Key Laboratory of Genetic Engineering for Agriculture, Fujian Academy of Agricultural Sciences, Fuzhou, 350003, China
| | - Feng Wang
- Biotechnology Research Institute, Fujian Provincial Key Laboratory of Genetic Engineering for Agriculture, Fujian Academy of Agricultural Sciences, Fuzhou, 350003, China
| | - Zonghua Wang
- State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, College of Life Science, Fujian Agriculture and Forestry University, Fuzhou, China.
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Wu B, Wang P, Devlin AT, Xiao S, Shu W, Zhang H, Ding M. Influence of Soil and Water Conservation Measures on Soil Microbial Communities in a Citrus Orchard of Southeast China. Microorganisms 2021; 9:microorganisms9020319. [PMID: 33557135 PMCID: PMC7913868 DOI: 10.3390/microorganisms9020319] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/09/2021] [Revised: 01/30/2021] [Accepted: 02/01/2021] [Indexed: 12/26/2022] Open
Abstract
Soil microbes play a crucial role in ecosystem function. Here, the effects of soil and water conservation measures on soil microbial community structures, biodiversity, and co-occurrence networks are investigated and compared. We sampled soils at three different depths (0–10 cm, 10–20 cm and 20–40 cm) in a citrus orchard that uses long-term soil and water conservation measures, which includes Bermuda grass strip intercropping (BS), Bermuda grass full coverage (BF), Radish–soybean crop rotation strip intercropping (RS) and clear tillage orchards (CT). Results demonstrated that BS and BF yields a significant increase in bacterial richness and diversity of fungal in soils, while BF contains more beneficial microbial taxa, especially those with degrading and nutrient cycling capabilities. Microbial community structures differed significantly among the applied measures. In addition, co-occurrence networks under BS, BF and RS were more complex and robust than that of CT, and the stability of the network in BF was the highest. Microbial interactive stability and potential interactions in bacterial networks were stronger than those of fungi. The distribution of dominant phyla showed that Chloroflexi and Ascomycota dominated the different soil and water conservation measures. Proteobacteria and Ascomycota are revealed to be keystone species in bacterial networks and fungal networks, respectively, while Proteobacteria was the keystone species in microbial networks. Though the relative abundance of Chloroflexi turned out to have increased among the four measures, the relative abundance for Proteobacteria, Acidobacteria and Actinobacteria all decreased along the soil profile, with Acidobacteria under BS to be an exception. Soils under BS and BF had higher total nitrogen, microbial biomass carbon and organic carbon than CT and RS. Organic carbon(C) and total nitrogen(N) in soil were the major drivers of these bacterial community patterns, while there was no significant correlation between them and fungi. Overall, BF increases soil nutrients and microbial diversity, and also promotes ecological stability and interrelations among microbial taxa that collectively improve soil quality in the citrus orchard studied. Therefore, we recommended BF to be an ideal application for citrus orchards of southeast China.
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Affiliation(s)
- Bobo Wu
- School of Geography and Environment, Jiangxi Normal University, Nanchang 330022, China; (B.W.); (A.T.D.); (W.S.); (H.Z.); (M.D.)
- Key Laboratory of Poyang Lake Wetland and Watershed Research, Ministry of Education, Jiangxi Normal University, Nanchang 330022, China
| | - Peng Wang
- School of Geography and Environment, Jiangxi Normal University, Nanchang 330022, China; (B.W.); (A.T.D.); (W.S.); (H.Z.); (M.D.)
- Key Laboratory of Poyang Lake Wetland and Watershed Research, Ministry of Education, Jiangxi Normal University, Nanchang 330022, China
- Correspondence:
| | - Adam T. Devlin
- School of Geography and Environment, Jiangxi Normal University, Nanchang 330022, China; (B.W.); (A.T.D.); (W.S.); (H.Z.); (M.D.)
| | - Shengsheng Xiao
- Jiangxi Institute of Soil and Water Conservation, Nanchang 330029, China;
| | - Wang Shu
- School of Geography and Environment, Jiangxi Normal University, Nanchang 330022, China; (B.W.); (A.T.D.); (W.S.); (H.Z.); (M.D.)
- Key Laboratory of Poyang Lake Wetland and Watershed Research, Ministry of Education, Jiangxi Normal University, Nanchang 330022, China
| | - Hua Zhang
- School of Geography and Environment, Jiangxi Normal University, Nanchang 330022, China; (B.W.); (A.T.D.); (W.S.); (H.Z.); (M.D.)
- Key Laboratory of Poyang Lake Wetland and Watershed Research, Ministry of Education, Jiangxi Normal University, Nanchang 330022, China
| | - Mingjun Ding
- School of Geography and Environment, Jiangxi Normal University, Nanchang 330022, China; (B.W.); (A.T.D.); (W.S.); (H.Z.); (M.D.)
- Key Laboratory of Poyang Lake Wetland and Watershed Research, Ministry of Education, Jiangxi Normal University, Nanchang 330022, China
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Katsoula A, Vasileiadis S, Sapountzi M, Karpouzas DG. The response of soil and phyllosphere microbial communities to repeated application of the fungicide iprodione: accelerated biodegradation or toxicity? FEMS Microbiol Ecol 2020; 96:5813261. [PMID: 32221586 DOI: 10.1093/femsec/fiaa056] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2019] [Accepted: 03/23/2020] [Indexed: 12/30/2022] Open
Abstract
Pesticides interact with microorganisms in various ways with the outcome being negative or positive for the soil microbiota. Pesticides' effects on soil microorganisms have been studied extensively in soil but not in other pesticides-exposed microbial habitats like the phyllosphere. We tested the hypothesis that soil and phyllosphere support distinct microbial communities, but exhibit a similar response (accelerated biodegradation or toxicity) to repeated exposure to the fungicide iprodione. Pepper plants received four repeated foliage or soil applications of iprodione, which accelerated its degradation in soil (DT50_1st = 1.23 and DT50_4th = 0.48 days) and on plant leaves (DT50_1st > 365 and DT50_4th = 5.95 days). The composition of the epiphytic and soil bacterial and fungal communities, determined by amplicon sequencing, was significantly altered by iprodione. The archaeal epiphytic and soil communities responded differently; the former showed no response to iprodione. Three iprodione-degrading Paenarthrobacter strains were isolated from soil and phyllosphere. They hydrolyzed iprodione to 3,5-dichloraniline via the formation of 3,5-dichlorophenyl-carboxiamide and 3,5-dichlorophenylurea-acetate, a pathway shared by other soil-derived arthrobacters implying a phylogenetic specialization in iprodione biotransformation. Our results suggest that iprodione-repeated application could affect soil and epiphytic microbial communities with implications for the homeostasis of the plant-soil system and agricultural production.
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Affiliation(s)
- A Katsoula
- Laboratory of Plant and Environmental Biotechnology, Department of Biochemistry and Biotechnology, University of Thessaly, Viopolis 41500, Larissa, Greece
| | - S Vasileiadis
- Laboratory of Plant and Environmental Biotechnology, Department of Biochemistry and Biotechnology, University of Thessaly, Viopolis 41500, Larissa, Greece
| | - M Sapountzi
- Laboratory of Plant and Environmental Biotechnology, Department of Biochemistry and Biotechnology, University of Thessaly, Viopolis 41500, Larissa, Greece
| | - Dimitrios G Karpouzas
- Laboratory of Plant and Environmental Biotechnology, Department of Biochemistry and Biotechnology, University of Thessaly, Viopolis 41500, Larissa, Greece
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11
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Wang Y, Xu X, Liu T, Wang H, Yang Y, Chen X, Zhu S. Analysis of bacterial and fungal communities in continuous-cropping ramie (Boehmeria nivea L. Gaud) fields in different areas in China. Sci Rep 2020; 10:3264. [PMID: 32094349 PMCID: PMC7039886 DOI: 10.1038/s41598-020-58608-0] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2019] [Accepted: 01/16/2020] [Indexed: 11/09/2022] Open
Abstract
Ramie (Boehmeria nivea L. Gaud) suffers from long-term continuous cropping. Here, using Illumina high-throughput sequencing technology, we aimed to identify bacteria and fungi associated with continuous cropping in ramie fields in Yuanjiang, Xianning, Sichuan, and Jiangxi. The rarefaction results showed that Jiangxi had significantly lower bacterial α-diversity than that of the other areas. Firmicutes, Proteobacteria, and Acidobacteria were the dominant bacterial phyla, and Ascomycota, Basidiomycota, and Zygomycota were the dominant fungal phyla. In Jiangxi, Firmicutes accounted for 79.03% of all valid reads, which could have significant decreased microbial diversity and negative effects of continuous ramie cropping. We used traditional methods to examine soil nutrients. Sichuan had a relatively high pH and available P and K, but low total N; opposite findings were recorded in Jiangxi. The redundancy analysis revealed that the urease activity, PH, available K, and total N significantly correlated with bacterial community abundance, whereas only total N significantly correlated with fungal community abundance (P < 0.01). Overall, the effect of soil environmental factors on the bacterial diversity of continuous ramie cropping was greater than that on fungal diversity. In the future, we will focus on the effect of rhizosphere bacteria to solve the obstacle in continuous ramie cropping.
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Affiliation(s)
- Yanzhou Wang
- Institute of bast fiber crops, Chinese Academy of Agricultrial Sciences, Changsha Hunan, 410205, P.R. China
| | - Xiaomin Xu
- Institute of bast fiber crops, Chinese Academy of Agricultrial Sciences, Changsha Hunan, 410205, P.R. China
| | - Touming Liu
- Institute of bast fiber crops, Chinese Academy of Agricultrial Sciences, Changsha Hunan, 410205, P.R. China
| | - Hongwu Wang
- Xianning Agriculture Academy of sciences, Hubei, China
| | - Yan Yang
- Dazhou Agriculture Academy of sciences, Sichuan, China
| | - Xiaorong Chen
- Yichun Institute of Agricultural Sciences, Jiangxi, China
| | - Siyuan Zhu
- Institute of bast fiber crops, Chinese Academy of Agricultrial Sciences, Changsha Hunan, 410205, P.R. China.
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12
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Gao J, Luo Y, Wei Y, Huang Y, Zhang H, He W, Sheng H, An L. Screening of plant growth promoting bacteria (PGPB) from rhizosphere and bulk soil of Caragana microphylla in different habitats and their effects on the growth of Arabidopsis seedlings. BIOTECHNOL BIOTEC EQ 2019. [DOI: 10.1080/13102818.2019.1629841] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022] Open
Affiliation(s)
- Jiangli Gao
- Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Ministry of Education, Lanzhou University, Lanzhou, PR China
| | - Yang Luo
- Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Ministry of Education, Lanzhou University, Lanzhou, PR China
| | - Yali Wei
- Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Ministry of Education, Lanzhou University, Lanzhou, PR China
| | - Yaolong Huang
- Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Ministry of Education, Lanzhou University, Lanzhou, PR China
| | - Hua Zhang
- Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Ministry of Education, Lanzhou University, Lanzhou, PR China
| | - Wenliang He
- Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Ministry of Education, Lanzhou University, Lanzhou, PR China
| | - Hongmei Sheng
- Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Ministry of Education, Lanzhou University, Lanzhou, PR China
| | - Lizhe An
- Key Laboratory of Cell Activities and Stress Adaptations, School of Life Sciences, Ministry of Education, Lanzhou University, Lanzhou, PR China
- The College of Forestry, Beijing Forestry University, Beijing, PR China
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13
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Yu P, Hochholdinger F. The Role of Host Genetic Signatures on Root-Microbe Interactions in the Rhizosphere and Endosphere. FRONTIERS IN PLANT SCIENCE 2018; 9:1896. [PMID: 30619438 PMCID: PMC6305752 DOI: 10.3389/fpls.2018.01896] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/01/2018] [Accepted: 12/06/2018] [Indexed: 05/04/2023]
Abstract
Microbiomes inhabiting plants are crucial for plant productivity and well-being. A plethora of interactions between roots, microbiomes, and soil shapes the self-organization of the microbial community associated with the root system. The rhizosphere (i.e., the soil close to the root surface) and endosphere (i.e., all inner root tissues) are critical interfaces for the exchange of resources between roots and the soil environment. In recent years, next-generation sequencing technologies have enabled systemic studies of root-associated microbiomes in the endosphere and interactions between roots and microbes at the root-soil interfaces. Genetic factors such as species and genotype of host plants are the driving force of microbial community differentiation and composition. In this mini-review, we will survey the role of these factors on plant-microbe interactions by highlighting the results of next-generation genomic and transcriptomic studies in the rhizosphere and endosphere of land plants. Moreover, environmental factors such as geography and soil type shape the microbiome. Relationships between the root-associated microbiome, architectural variations and functional switches within the root system determine the health and fitness of the whole plant system. A detailed understanding of plant-microbe interactions is of fundamental agricultural importance and significance for crop improvement by plant breeding.
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Affiliation(s)
- Peng Yu
- *Correspondence: Peng Yu, Frank Hochholdinger,
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Singh AK, Dubey SK. Current trends in Bt crops and their fate on associated microbial community dynamics: a review. PROTOPLASMA 2016; 253:663-681. [PMID: 26560114 DOI: 10.1007/s00709-015-0903-5] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/21/2015] [Revised: 10/19/2015] [Accepted: 10/21/2015] [Indexed: 06/05/2023]
Abstract
Cry protein expressing insect-resistant trait is mostly deployed to control major devastating pests and minimize reliance on the conventional pesticides. However, the ethical and environmental issues are the major constraints in their acceptance, and consequently, the cultivation of genetically modified (GM) crops has invited intense debate. Since root exudates of Bacillus thuringiensis (Bt) crops harbor the insecticidal protein, there is a growing concern about the release and accumulation of soil-adsorbed Cry proteins and their impact on non-target microorganisms and soil microbial processes. This review pertains to reports from the laboratory studies and field trials to assess the Bt toxin proteins in soil microbes and the processes determining the soil quality in conjunction with the existing hypothesis and molecular approaches to elucidate the risk posed by the GM crops. Ecological perturbations hinder the risk aspect of soil microbiota in response to GM crops. Therefore, extensive research based on in vivo and interpretation of results using high-throughput techniques such as NGS on risk assessment are imperative to evaluate the impact of Bt crops to resolve the controversy related to their commercialization. But more studies are needed on the risk associated with stacked traits. Such studies would strengthen our knowledge about the plant-microbe interactions.
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Affiliation(s)
| | - Suresh Kumar Dubey
- Department of Botany, Banaras Hindu University, Varanasi, 221005, India.
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Zhou D, Xu L, Gao S, Guo J, Luo J, You Q, Que Y. Cry1Ac Transgenic Sugarcane Does Not Affect the Diversity of Microbial Communities and Has No Significant Effect on Enzyme Activities in Rhizosphere Soil within One Crop Season. FRONTIERS IN PLANT SCIENCE 2016; 7:265. [PMID: 27014291 PMCID: PMC4781841 DOI: 10.3389/fpls.2016.00265] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2015] [Accepted: 02/19/2016] [Indexed: 05/13/2023]
Abstract
Cry1Ac transgenic sugarcane provides a promising way to control stem-borer pests. Biosafety assessment of soil ecosystem for cry1Ac transgenic sugarcane is urgently needed because of the important role of soil microorganisms in nutrient transformations and element cycling, however little is known. This study aimed to explore the potential impact of cry1Ac transgenic sugarcane on rhizosphere soil enzyme activities and microbial community diversity, and also to investigate whether the gene flow occurs through horizontal gene transfer. We found no horizontal gene flow from cry1Ac sugarcane to soil. No significant difference in the population of culturable microorganisms between the non-GM and cry1Ac transgenic sugarcane was observed, and there were no significant interactions between the sugarcane lines and the growth stages. A relatively consistent trend at community-level, represented by the functional diversity index, was found between the cry1Ac sugarcane and the non-transgenic lines. Most soil samples showed no significant difference in the activities of four soil enzymes: urease, protease, sucrose, and acid phosphate monoester between the non-transgenic and cry1Ac sugarcane lines. We conclude, based on one crop season, that the cry1Ac sugarcane lines may not affect the microbial community structure and functional diversity of the rhizosphere soil and have few negative effects on soil enzymes.
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Ji H, Ding Y, Liu X, Li L, Zhang D, Li Z, Sun J, Lashari MS, Joseph S, Meng Y, Kuzyakov Y, Pan G. Root-Derived Short-Chain Suberin Diacids from Rice and Rape Seed in a Paddy Soil under Rice Cultivar Treatments. PLoS One 2015; 10:e0127474. [PMID: 25961557 PMCID: PMC4427476 DOI: 10.1371/journal.pone.0127474] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2014] [Accepted: 04/15/2015] [Indexed: 11/22/2022] Open
Abstract
Suberin-derived substituted fatty acids have been shown to be potential biomarkers for plant-derived carbon (C) in soils across ecosystems. Analyzing root derived suberin compounds bound in soil could help to understand the root input into a soil organic carbon pool. In this study, bound lipids were extracted and identified in root and topsoil samples. Short-chain suberin diacids were quantified under rice (Oryza sativa L.) and rape (Brassica campestris) rotations with different cultivar combinations in a Chinese rice paddy. After removal of free lipids with sequential extraction, the residual bound lipids were obtained with saponification and derivatization before analysis using gas chromatography–mass spectrometry (GC-MS). Diacids C16 and C18 in bound lipids were detected both in rice and rape root samples, while diacids C20 and C22 were detected only in rape root samples. Accordingly, diacids were quantified in both rhizosphere and bulk soil (0–15 cm). The amount of total root-derived diacids in bulk soil varied in a range of 5.6–9.6 mg/kg across growth stages and crop seasons. After one year-round rice-rape rotation, root-derived suberin diacids were maintained at a level of 7–9 mg/kg in bulk soil; this was higher under a super rice cultivar LY than under a hybrid cultivar IIY. While concentrations of the analyzed diacids were generally higher in rhizosphere than in bulk soil, the total diacid (DA) concentration was higher at the time of rape harvest than at rice harvest, suggesting that rape roots made a major contribution to the preservation of diacids in the paddy. Moreover, the net change in the concentration and the ratios of C16:0 DA to C18:1 DA, and of C16:0 DA to C18:0 DA, over a whole growing season, were greater under LY than under IIY, though there was no difference between cultivars within a single growth stage. Overall, total concentration of root-derived suberin diacids was found to be positively correlated to soil organic carbon concentration both for bulk soil and rhizosphere. However, the turnover and preservation of the root suberin biomolecules with soil property and field conditions deserve further field studies.
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Affiliation(s)
- Haishi Ji
- Institute of Resource, Ecosystem and Environment of Agriculture, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, China
| | - Yuanjun Ding
- Institute of Resource, Ecosystem and Environment of Agriculture, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, China
| | - Xiaoyu Liu
- Institute of Resource, Ecosystem and Environment of Agriculture, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, China
| | - Lianqing Li
- Institute of Resource, Ecosystem and Environment of Agriculture, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, China
| | - Dengxiao Zhang
- Institute of Resource, Ecosystem and Environment of Agriculture, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, China
| | - Zichuan Li
- Institute of Resource, Ecosystem and Environment of Agriculture, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, China
| | - Jingling Sun
- Institute of Resource, Ecosystem and Environment of Agriculture, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, China
| | - Muhammad Siddique Lashari
- Institute of Resource, Ecosystem and Environment of Agriculture, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, China
| | - Stephen Joseph
- Institute of Resource, Ecosystem and Environment of Agriculture, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, China
- Discipline of Chemistry, University of Newcastle, Callaghan, NSW 2308, Australia
| | - Yuanduo Meng
- National Agricultural Technical Extension and Service Center, Beijing, 100026, China
| | - Yakov Kuzyakov
- Department of Soil Science of Temperate Ecosystems, University of Göttingen, Büsgenweg 2, 37077, Göttingen, Germany
- Department of Agricultural Soil Science, University of Göttingen, Büsgenweg 2, 37077, Göttingen, Germany
- Institute of Environmental Sciences, Kazan Federal University, 420049, Kazan, Russia
| | - Genxing Pan
- Institute of Resource, Ecosystem and Environment of Agriculture, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, China
- Research Center of Terrestrial Ecosystem Carbon Sink and Land Remediation, Zhejiang Agro-Forestry University, Linan, Hangzhou, 311300, China
- * E-mail:
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Cui H, Yang X, Lu D, Jin H, Yan Z, Chen J, Li X, Qin B. Isolation and characterization of bacteria from the rhizosphere and bulk soil of Stellera chamaejasme L. Can J Microbiol 2014; 61:171-81. [PMID: 25654446 DOI: 10.1139/cjm-2014-0543] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
This study is the first to describe the composition and characteristics of culturable bacterial isolates from the rhizosphere and bulk soil of the medicinal plant Stellera chamaejasme L. at different growth stages. Using a cultivation-dependent approach, a total of 148 isolates showing different phenotypic properties were obtained from the rhizosphere and bulk soil. Firmicutes and Actinobacteria were the major bacterial groups in both the rhizosphere and bulk soil at all 4 growth stages of S. chamaejasme. The diversity of the bacterial community in the rhizosphere was higher than that in bulk soil in flowering and fruiting stages. The abundance of bacterial communities in the rhizosphere changed with the growth stages and had a major shift at the fruiting stage. Dynamic changes of bacterial abundance and many bacterial groups in the rhizosphere were similar to those in bulk soil. Furthermore, most bacterial isolates exhibited single or multiple biochemical activities associated with S. chamaejasme growth, which revealed that bacteria with multiple physiological functions were abundant and widespread in the rhizosphere and bulk soil. These results are essential (i) for understanding the ecological roles of bacteria in the rhizosphere and bulk soil and (ii) as a foundation for further evaluating their efficacy as effective S. chamaejasme growth-promoting rhizobacteria.
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Affiliation(s)
- Haiyan Cui
- Key Laboratory of Chemistry of Northwestern Plant Resources and Key Laboratory for Natural Medicine of Gansu Province, Lanzhou Institute of Chemical Physics, Chinese Academy of Sciences, 18 Tianshui Middle Road, Lanzhou 730000, People's Republic of China., Graduate University of Chinese Academy of Sciences, Beijing 100049, People's Republic of China
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18
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Impact of continuous Salvia miltiorrhiza cropping on rhizosphere actinomycetes and fungi communities. ANN MICROBIOL 2014. [DOI: 10.1007/s13213-014-0964-2] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022] Open
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Singh AK, Singh M, Dubey SK. Rhizospheric fungal community structure of a Bt brinjal and a near isogenic variety. J Appl Microbiol 2014; 117:750-65. [PMID: 24848712 DOI: 10.1111/jam.12549] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2014] [Revised: 05/17/2014] [Accepted: 05/17/2014] [Indexed: 11/27/2022]
Abstract
AIMS The objective of this study was to investigate the influence of Cry1Ac gene expressing brinjal (VRBT-8) on the rhizospheric fungal community structure. METHODS AND RESULTS qPCR indicated variations in the fungal ITS rRNA copy numbers of non-Bt (1·43-4·43) × 10(9) g(-1) dws and Bt (1·43-3·32) × 10(9) g(-1) dws plots. Phylogenetic analysis of ITS rRNA clones indicated fungal-related group majority of being Ascomycota compared to that of Basidiomycota and Zygomycota in non-Bt- and Bt-planted soils. Sordariomycetes was the dominant class detected in all the stages. CONCLUSIONS Despite the variations in the population size and the distribution pattern observed across the non-Bt and Bt brinjal, plant-growth-dependent variability was more prominent compared with genetic modification. Therefore, this study concludes that genetic modification of brinjal crop has minor effect on the fungal community. SIGNIFICANCE AND IMPACT OF THE STUDY Brinjal, the important solanaceous crop, is also prone to attack by many insect pests, especially by Leucinoides orbonalis, resulting in significant losses in the crop yield. However, the reports on the effect of transgenic crops and the associated microbial community are inconsistent. The present communication takes into account for the first time the possible interactions between Bt brinjal and the associated fungal community; the latter playing a significant role in maintaining soil fertility. As this study is limited to the structural diversity of fungal community, additional information regarding the functional diversity of the group seems imperative before recommending the commercialization of GM crops.
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Affiliation(s)
- A K Singh
- Department of Botany, Banaras Hindu University, Varanasi, India
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20
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Singh AK, Rai GK, Singh M, Dubey SK. Bacterial community structure in the rhizosphere of a Cry1Ac Bt-brinjal crop and comparison to its non-transgenic counterpart in the tropical soil. MICROBIAL ECOLOGY 2013; 66:927-39. [PMID: 24046073 DOI: 10.1007/s00248-013-0287-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2012] [Accepted: 08/30/2013] [Indexed: 05/26/2023]
Abstract
To elucidate whether the transgenic crop alters the rhizospheric bacterial community structure, a 2-year study was performed with Cry1Ac gene-inserted brinjal crop (Bt) and their near isogenic non-transformed trait (non-Bt). The event of Bt crop (VRBT-8) was screened using an insect bioassay and enzyme-linked immunosorbent assay. Soil moisture, NH4 (+)-N, NO3 (-)-N, and PO4 (-)-P level had non-significant variation. Quantitative polymerase chain reaction revealed that abundance of bacterial 16S rRNA gene copies were lower in soils associated with Bt brinjal. Microbial biomass carbon (MBC) showed slight reduction in Bt brinjal soils. Higher MBC values in the non-Bt crop soil may be attributed to increased root activity and availability of readily metabolizable carbon compounds. The restriction fragment length polymorphism of PCR-amplified rRNA gene fragments detected 13 different bacterial groups with the exclusive presence of β-Proteobacteria, Chloroflexus, Planctomycetes, and Fusobacteria in non-Bt, and Cyanobacteria and Bacteroidetes in Bt soils, respectively, reflecting minor changes in the community structure. Despite the detection of Cry1Ac protein in the rhizospheric soil, the overall impact of Cry1Ac expressing Bt brinjal was less compared to that due to seasonal changes.
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Chen J, He F, Zhang X, Sun X, Zheng J, Zheng J. Heavy metal pollution decreases microbial abundance, diversity and activity within particle-size fractions of a paddy soil. FEMS Microbiol Ecol 2013; 87:164-81. [DOI: 10.1111/1574-6941.12212] [Citation(s) in RCA: 165] [Impact Index Per Article: 15.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2013] [Revised: 08/25/2013] [Accepted: 09/03/2013] [Indexed: 11/30/2022] Open
Affiliation(s)
- Junhui Chen
- College of Resources and Environmental Sciences; Nanjing Agricultural University; Nanjing China
| | - Feng He
- College of Resources and Environmental Sciences; Nanjing Agricultural University; Nanjing China
| | - Xuhui Zhang
- College of Resources and Environmental Sciences; Nanjing Agricultural University; Nanjing China
| | - Xuan Sun
- College of Resources and Environmental Sciences; Nanjing Agricultural University; Nanjing China
| | - Jufeng Zheng
- College of Resources and Environmental Sciences; Nanjing Agricultural University; Nanjing China
| | - Jinwei Zheng
- College of Resources and Environmental Sciences; Nanjing Agricultural University; Nanjing China
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Mitter B, Brader G, Afzal M, Compant S, Naveed M, Trognitz F, Sessitsch A. Advances in Elucidating Beneficial Interactions Between Plants, Soil, and Bacteria. ADVANCES IN AGRONOMY 2013:381-445. [PMID: 0 DOI: 10.1016/b978-0-12-407685-3.00007-4] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/18/2023]
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