1
views
0
recommends
+1 Recommend
0 collections
    0
    shares
      • Record: found
      • Abstract: found
      • Article: found
      Is Open Access

      Seed endophytes and rhizosphere microbiome of Imperata cylindrica, a pioneer plant of abandoned mine lands

      research-article

      Read this article at

          There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

          Abstract

          Some plant-associated microorganisms could improve host plants biotic and abiotic stress tolerance. Imperata cylindrica is a dominant pioneer plant in some abandoned mine lands with higher concentrations of heavy metal (HM). To discover the specific microbiome of I. cylindrica in this extreme environment and evaluate its role, the microbiome of I. cylindrica’s seeds and rhizosphere soils from HM heavily contaminated (H) and lightly contaminated (L) sites were studied. It was found that HM-contamination significantly reduced the richness of endophytic bacteria in seeds, but increased the abundance of resistant species, such as Massilia sp. and Duganella sp. Spearman’s rank correlation coefficient analysis showed that both Massilia sp. and Duganella sp. showed a significant positive correlation with Zn concentration, indicating that it may have a strong tolerance to Zn. A comparison of the microbiome of rhizosphere soils (RS) and adjacent bare soils (BS) of site H showed that I. cylindrica colonization significantly increased the diversity of fungi in rhizosphere soil and the abundance of Ascomycota associated with soil nutrient cycling. Spearman’s rank correlation coefficient analysis showed that Ascomycota was positively correlated with the total nitrogen. Combined with the fact that the total nitrogen content of RS was significantly higher than that of BS, we suppose that Ascomycota may enhance the nitrogen fixation of I. cylindrica, thereby promoting its growth in such an extreme environment. In conclusion, the concentration of HM and nutrient contents in the soil significantly affected the microbial community of rhizosphere soils and seeds of I. cylindrica, in turn, the different microbiomes further affected soil HM concentration and nutrient contents. The survival of I. cylindrica in HM severely contaminated environment may mainly be through recruiting more microorganisms that can enhance its nutrition supply.

          Related collections

          Most cited references57

          • Record: found
          • Abstract: found
          • Article: not found

          Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy.

          The Ribosomal Database Project (RDP) Classifier, a naïve Bayesian classifier, can rapidly and accurately classify bacterial 16S rRNA sequences into the new higher-order taxonomy proposed in Bergey's Taxonomic Outline of the Prokaryotes (2nd ed., release 5.0, Springer-Verlag, New York, NY, 2004). It provides taxonomic assignments from domain to genus, with confidence estimates for each assignment. The majority of classifications (98%) were of high estimated confidence (> or = 95%) and high accuracy (98%). In addition to being tested with the corpus of 5,014 type strain sequences from Bergey's outline, the RDP Classifier was tested with a corpus of 23,095 rRNA sequences as assigned by the NCBI into their alternative higher-order taxonomy. The results from leave-one-out testing on both corpora show that the overall accuracies at all levels of confidence for near-full-length and 400-base segments were 89% or above down to the genus level, and the majority of the classification errors appear to be due to anomalies in the current taxonomies. For shorter rRNA segments, such as those that might be generated by pyrosequencing, the error rate varied greatly over the length of the 16S rRNA gene, with segments around the V2 and V4 variable regions giving the lowest error rates. The RDP Classifier is suitable both for the analysis of single rRNA sequences and for the analysis of libraries of thousands of sequences. Another related tool, RDP Library Compare, was developed to facilitate microbial-community comparison based on 16S rRNA gene sequence libraries. It combines the RDP Classifier with a statistical test to flag taxa differentially represented between samples. The RDP Classifier and RDP Library Compare are available online at http://rdp.cme.msu.edu/.
            Bookmark
            • Record: found
            • Abstract: found
            • Article: not found

            Plant–microbiome interactions: from community assembly to plant health

            Healthy plants host diverse but taxonomically structured communities of microorganisms, the plant microbiota, that colonize every accessible plant tissue. Plant-associated microbiomes confer fitness advantages to the plant host, including growth promotion, nutrient uptake, stress tolerance and resistance to pathogens. In this Review, we explore how plant microbiome research has unravelled the complex network of genetic, biochemical, physical and metabolic interactions among the plant, the associated microbial communities and the environment. We also discuss how those interactions shape the assembly of plant-associated microbiomes and modulate their beneficial traits, such as nutrient acquisition and plant health, in addition to highlighting knowledge gaps and future directions.
              Bookmark
              • Record: found
              • Abstract: found
              • Article: not found

              Plant growth-promoting bacterial endophytes.

              Bacterial endophytes ubiquitously colonize the internal tissues of plants, being found in nearly every plant worldwide. Some endophytes are able to promote the growth of plants. For those strains the mechanisms of plant growth-promotion known to be employed by bacterial endophytes are similar to the mechanisms used by rhizospheric bacteria, e.g., the acquisition of resources needed for plant growth and modulation of plant growth and development. Similar to rhizospheric plant growth-promoting bacteria, endophytic plant growth-promoting bacteria can act to facilitate plant growth in agriculture, horticulture and silviculture as well as in strategies for environmental cleanup (i.e., phytoremediation). Genome comparisons between bacterial endophytes and the genomes of rhizospheric plant growth-promoting bacteria are starting to unveil potential genetic factors involved in an endophytic lifestyle, which should facilitate a better understanding of the functioning of bacterial endophytes.
                Bookmark

                Author and article information

                Contributors
                Role: Role: Role: Role:
                Role: Role: Role: Role:
                Role: Role: Role:
                Role: Role: Role:
                URI : https://loop.frontiersin.org/people/1558068/overviewRole: Role: Role: Role:
                Role: Role:
                URI : https://loop.frontiersin.org/people/1788618/overviewRole: Role:
                URI : https://loop.frontiersin.org/people/1438324/overviewRole: Role: Role: Role: Role: Role:
                Journal
                Front Microbiol
                Front Microbiol
                Front. Microbiol.
                Frontiers in Microbiology
                Frontiers Media S.A.
                1664-302X
                24 July 2024
                2024
                : 15
                : 1415329
                Affiliations
                [1] 1Life Science and Technology and Medical Faculty, Kunming University of Science and Technology , Kunming, China
                [2] 2The First People’s Hospital of Yunnan Province , Kunming, China
                [3] 3The Affiliated Yanan Hospital of Kunming Medical University , Kunming, China
                [4] 4State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences , Guiyang, China
                Author notes

                Edited by: Louis S. Tisa, University of New Hampshire, United States

                Reviewed by: Dominika Thiem, Nicolaus Copernicus University, Poland

                Alejandro Hernández Morales, Autonomous University of San Luis Potosí, Mexico

                Amauri Ponce-Hernández, Unidad Académica Multidisciplinaria Zona Huasteca, Universidad Autónoma de San Luis Potosí, in collaboration with reviewer AM

                *Correspondence: Haiyan Li, lhyxrn@ 123456163.com

                These authors have contributed equally to this work

                Article
                10.3389/fmicb.2024.1415329
                11303138
                39113844
                401e7cce-4ec1-42fa-aa7d-e9b380574c94
                Copyright © 2024 Mao, Wu, Li, Xiang, Tang, Hu, Ji and Li.

                This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

                History
                : 10 April 2024
                : 11 July 2024
                Page count
                Figures: 6, Tables: 2, Equations: 0, References: 58, Pages: 11, Words: 7284
                Funding
                The author(s) declare financial support was received for the research, authorship, and/or publication of this article. This work was financially supported by the National Natural Science Foundation of China (42267059), Yunnan International Joint Laboratory of Research and Development of Crop Safety Production on Heavy Metal Pollution Areas.
                Categories
                Microbiology
                Original Research
                Custom metadata
                Microbial Symbioses

                Microbiology & Virology
                heavy metal,pioneer plant,imperata cylindrica,seed endophyte,microbiota,revegetation

                Comments

                Comment on this article