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Characteristics and Diversity of Endophytic Bacteria in Endangered Chinese Herb Glehnia littoralis Based on Illumina Sequencing Cover

Characteristics and Diversity of Endophytic Bacteria in Endangered Chinese Herb Glehnia littoralis Based on Illumina Sequencing

Open Access
|Sep 2020

References

  1. Bais HP, Weir TL, Perry LG, Gilroy S, Vivanco JM. The role of root exudates in rhizosphere interactions with plants and other organisms. Annu Rev Plant Biol. 2006 Jun;57(1):233–266. https://doi.org/10.1146/annurev.arplant.57.032905.105159
  2. Correa-Galeote D, Bedmar EJ, Arone GJ. Maize endophytic bacterial diversity as affected by soil cultivation history. Front Microbiol. 2018 Mar 16;9:484. https://doi.org/10.3389/fmicb.2018.00484
  3. Dixon P. VEGAN, a package of R functions for community ecology. J Veg Sci. 2003 Dec;14(6):927–930. https://doi.org/10.1111/j.1654-1103.2003.tb02228.x
  4. Edgar RC, Haas BJ, Clemente JC, Quince C, Knight R. UCHIME improves sensitivity and speed of chimera detection. Bioinformatics. 2011 Aug 15;27(16):2194–2200. https://doi.org/10.1093/bioinformatics/btr381
  5. Edwards J, Johnson C, Santos-Medellín C, Lurie E, Podishetty NK, Bhatnagar S, Eisen JA, Sundaresan V. Structure, variation, and assembly of the root-associated microbiomes of rice. Proc Natl Acad Sci USA. 2015 Feb 24;112(8):E911-E920. https://doi.org/10.1073/pnas.1414592112
  6. Eida AA, Alzubaidy HS, de Zélicourt A, Synek L, Alsharif W, Lafi FF, Hirt H, Saad MM. Phylogenetically diverse endophytic bacteria from desert plants induce transcriptional changes of tissue-specific ion transporters and salinity stress in Arabidopsis thaliana. Plant Sci. 2019 Mar;280:228–240. https://doi.org/10.1016/j.plantsci.2018.12.002
  7. Enya J, Shinohara H, Yoshida S, Tsukiboshi T, Negishi H, Suyama K, Tsushima S. Culturable leaf-associated bacteria on tomato plants and their potential as biological control agents. Microb Ecol. 2007 May 14;53(4):524–536. https://doi.org/10.1007/s00248-006-9085-1
  8. Feng F, Li Y, Ge J, Chen J, Jiang W, He S, Liu X, Yu X. Degradation of chlorpyrifos by an endophytic bacterium of the Sphingomonas genus (strain HJY) isolated from Chinese chives (Allium tuberosum). J Environ Sci Health B. 2017 Oct 03;52(10):736–744. https://doi.org/10.1080/03601234.2017.1356675
  9. Hardoim PR, Andreote FD, Reinhold-Hurek B, Sessitsch A, van Overbeek LS, van Elsas JD. Rice root-associated bacteria: insights into community structures across 10 cultivars. FEMS Microbiol Ecol. 2011 Jul;77(1):154–164. https://doi.org/10.1111/j.1574-6941.2011.01092.x
  10. Hashem A, Abd Allah EF, Alqarawi AA, Al-Huqail AA, Wirth S, Egamberdieva D. The interaction between arbuscular mycorrhizal fungi and endophytic bacteria enhances plant growth of Acacia gerrardii under salt stress. Front Microbiol. 2016;7:1089. https://doi.org/10.3389/fmicb.2016.01089
  11. Hou X, Ren X, Fu Y, Wang H, Zuo X, Lv H, Zhang Z. Study on antimicrobial activity and classification of endophytic fungi from Glehnia littoralis. Chin Tradit Herbal Drugs. 2015;46(19):2932–2936.
  12. Jin H, Yang XY, Yan ZQ, Liu Q, Li XZ, Chen JX, Zhang DH, Zeng LM, Qin B. Characterization of rhizosphere and endophytic bacterial communities from leaves, stems and roots of medicinal Stellera chamaejasme L. Syst Appl Microbiol. 2014 Jul;37(5):376–385. https://doi.org/10.1016/j.syapm.2014.05.001
  13. Li Y, Chen Q, Wang CH, Cai S, He J, Huang X, Li SP. Degradation of acetochlor by consortium of two bacterial strains and cloning of a novel amidase gene involved in acetochlor-degrading pathway. Bioresour Technol. 2013 Nov;148:628–631. https://doi.org/10.1016/j.biortech.2013.09.038
  14. Liu F, Yuan Z, Zhang X, Zhang G, Xie B. Characteristics and diversity of endophytic bacteria in moso bamboo (Phyllostachys edulis) based on 16S rDNA sequencing. Arch Microbiol. 2017 Nov; 199(9):1259–1266. https://doi.org/10.1007/s00203-017-1397-7
  15. Ma B, Lv X, Warren A, Gong J. Shifts in diversity and community structure of endophytic bacteria and archaea across root, stem and leaf tissues in the common reed, Phragmites australis, along a salinity gradient in a marine tidal wetland of northern China. Antonie van Leeuwenhoek. 2013 Nov;104(5):759–768. https://doi.org/10.1007/s10482-013-9984-3
  16. Magoč T, Salzberg SL. FLASH: fast length adjustment of short reads to improve genome assemblies. Bioinformatics. 2011 Nov 01; 27(21):2957–2963. https://doi.org/10.1093/bioinformatics/btr507
  17. Miguel PSB, de Oliveira MNV, Delvaux JC, de Jesus GL, Borges AC, Tótola MR, Neves JCL, Costa MD. Diversity and distribution of the endophytic bacterial community at different stages of Eucalyptus growth. Antonie van Leeuwenhoek. 2016 Jun;109(6): 755–771. https://doi.org/10.1007/s10482-016-0676-7
  18. Mori H, Maruyama F, Kato H, Toyoda A, Dozono A, Ohtsubo Y, Nagata Y, Fujiyama A, Tsuda M, Kurokawa K. Design and experimental application of a novel non-degenerate universal primer set that amplifies prokaryotic 16S rRNA genes with a low possibility to amplify eukaryotic rRNA genes. [J]. DNA Res. 2014 Apr 01;21(2): 217–227. https://doi.org/10.1093/dnares/dst052
  19. Navarro-Torre S, Barcia-Piedras JM, Mateos-Naranjo E, Redondo-Gómez S, Camacho M, Caviedes MA, Pajuelo E, Rodríguez-Llorente ID. Assessing the role of endophytic bacteria in the halophyte Arthrocnemum macrostachyum salt tolerance. Plant Biol. 2017 Mar;19(2):249–256. https://doi.org/10.1111/plb.12521
  20. Redman RS, Kim YO, Woodward CJDA, Greer C, Espino L, Doty SL, Rodriguez RJ. Increased fitness of rice plants to abiotic stress via habitat adapted symbiosis: a strategy for mitigating impacts of climate change. PLoS One. 2011 Jul 5;6(7):e14823. https://doi.org/10.1371/journal.pone.0014823
  21. Ren F, Dong W, Yan DH. Endophytic bacterial communities of Jingbai Pear trees in north China analyzed with Illumina sequencing of 16S rDNA. Arch Microbiol. 2019 Mar;201(2):199–208. https://doi.org/10.1007/s00203-018-1597-9
  22. Rodriguez RJ, Henson J, Van Volkenburgh E, Hoy M, Wright L, Beckwith F, Kim YO, Redman RS. Stress tolerance in plants via habitat-adapted symbiosis. ISME J. 2008 Apr;2(4):404–416. https://doi.org/10.1038/ismej.2007.106
  23. Rozema J, Flowers T. Ecology. Crops for a salinized world. Science. 2008 Dec 05;322(5907):1478–1480. https://doi.org/10.1126/science.1168572
  24. Segata N, Izard J, Waldron L, Gevers D, Miropolsky L, Garrett WS, Huttenhower C. Metagenomic biomarker discovery and explanation. Genome Biol. 2011;12(6):R60. https://doi.org/10.1186/gb-2011-12-6-r60
  25. Solans M, Vobis G, Cassán F, Luna V, Wall LG. Production of phytohormones by root-associated saprophytic actinomycetes isolated from the actinorhizal plant Ochetophila trinervis. World J Microbiol Biotechnol. 2011 Sep;27(9):2195–2202. https://doi.org/10.1007/s11274-011-0685-7
  26. Syranidou E, Christofilopoulos S, Gkavrou G, Thijs S, Weyens N, Vangronsveld J, Kalogerakis N. Exploitation of endophytic bacteria to enhance the phytoremediation potential of the wetland helophyte Juncus acutus. Front Microbiol. 2016 Jul 04;07:1016. https://doi.org/10.3389/fmicb.2016.01016
  27. Szymańska S, Płociniczak T, Piotrowska-Seget Z, Hrynkiewicz K. Endophytic and rhizosphere bacteria associated with the roots of the halophyte Salicornia europaea L. – community structure and metabolic potential. Microbiol Res. 2016 Nov;192:37–51. https://doi.org/10.1016/j.micres.2016.05.012
  28. Tian XY, Zhang CS. Illumina-based analysis of endophytic and rhizosphere bacterial diversity of the coastal halophyte Messerschmidia sibirica. Front Microbiol. 2017 Nov 20;8:2288. https://doi.org/10.3389/fmicb.2017.02288
  29. Vepštaitė-Monstavičė I, Lukša J, Stanevičienė R, Strazdaitė-Žielienė Ž, Yurchenko V, Serva S, Servienė E. Distribution of apple and blackcurrant microbiota in Lithuania and the Czech Republic. Microbiol Res. 2018 Jan;206:1–8. https://doi.org/10.1016/j.micres.2017.09.004
  30. Wang A, Zhang P, Liu X, Liang J, Li W. Genetic structure and diversity of Glehnia littoralis, an endangered medicinal plant in China. Biochem Syst Ecol. 2016 Jun;66:265–271. https://doi.org/10.1016/j.bse.2016.04.019
  31. Yan M, Chen S, Huang T, Li B, Li N, Liu K, Zong R, Miao Y, Huang X. Community compositions of phytoplankton and Eukaryotes during the mixing periods of a drinking water reservoir: dynamics and interactions. Int J Environ Res Public Health. 2020 Feb 11; 17(4):1128. https://doi.org/10.3390/ijerph17041128
  32. Yoon T, Cheon MS, Lee AY, Lee DY, Moon BC, Chun JM, Choo BK, Kim HK. Anti-inflammatory activity of methylene chloride fraction from Glehnia littoralis extract via suppression of NF-κ B and mitogen-activated protein kinase activity. J Pharmacol Sci. 2010;112(1):46–55. https://doi.org/10.1254/jphs.09168FP
  33. Zhang J, Zhang C, Yang J, Zhang R, Gao J, Zhao X, Zhao J, Zhao D, Zhang X. Insights into endophytic bacterial community structures of seeds among various Oryza sativa L. rice genotypes. J Plant Growth Regul. 2019 Mar;38(1):93–102. https://doi.org/10.1007/s00344-018-9812-0
  34. Zhou Y, Geng M, Li M. The complete chloroplast genome of Glehnia littoralis, an endangered medicinal herb of Apiaceae family. Mitochondrial DNA B Resour. 2018 Jul 03;3(2):1013–1014. https://doi.org/10.1080/23802359.2018.1507638
DOI: https://doi.org/10.33073/pjm-2020-031 | Journal eISSN: 2544-4646 | Journal ISSN: 1733-1331
Language: English
Page range: 283 - 291
Submitted on: Apr 17, 2020
Accepted on: Jun 19, 2020
Published on: Sep 8, 2020
Published by: Polish Society of Microbiologists
In partnership with: Paradigm Publishing Services
Publication frequency: 4 issues per year

© 2020 XIAOWEI HUO, YUE WANG, DAWEI ZHANG, TING GAO, MENGMENG LIU, published by Polish Society of Microbiologists
This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License.