Beneficial plant-microbe interactions for agricultural sustainability

Ajar Nath Yadav

doi:10.7324/JABB.2021.91ed

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Abstract

The plant microbes are colonizing the phyllosphere, rhizosphere, and endophytes. The beneficial association the plants help by different ways including solubilization of minerals, production of growth regulators (phytohormones) and bioactive compounds that are useful to kill the pathogenic organisms under the natural as well extreme conditions. Plant microbiomes have been sorted out from all three domains (Eukarya, bacteria, and Archaea) with some dominant members of Acidobacteria, Actinobacteria, Bacteroidetes, Chlorobi, Chloroflexi, Deinococcus-Thermus, Firmicutes, Fusobacteria, Planctomycetes, Proteobacteria, Spirochaetes, Verrucomicrobia, Ascomycota, Basidiomycota, Crenarchaeota, and Euryarchaeota. Plant microbes have been reported worldwide to promote plant growth either directly (by fixation of nitrogen, solubilization of minerals such as phosphorus, potassium, zinc selenium, iron, copper, manganese; production of bioactive compounds, Fe-chelating compounds-siderophores and various phytohormones-auxin, gibberellic acids and cytokinins) or indirectly (via production of bioactive compounds and antagonistic substances). Due to the diverse range of PGP attributes, the plant microbiomes as single or in consortium may provide an important resource as biopesticides and biofertilizers to reduce the chemicals fertilizers for agricultural sustainability.

Keyword: Agricultural sustainability Diversity Plant microbiome Plant-microbe interactions Sustainable development.

Citation:

Yadav AN. Beneficial plant-microbe interactions for agricultural sustainability. J App Biol Biotech. 2021; 9 (1): i-iv. DOI: 10.7324/JABB.2021.91ed

Copyright: Author(s). This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial-ShareAlike license.

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Reference

1. Kumar V, Joshi S, Pant NC, Sangwan P, Yadav AN, Saxena A, Singh D: Molecular approaches for combating multiple abiotic stresses in crops of arid and semi-arid region. In: Molecular Approaches in Plant Biology and Environmental Challenges. Edited by Singh SP, Upadhyay SK, Pandey A, Kumar S. Singapore: Springer; 2019: 149-170. https://doi.org/10.1007/978-981-15-0690-1_8
2. Hesham AE-L, Kaur T, Devi R, Kour D, Prasad S, Yadav N, Singh C, Singh J, Yadav AN: Current Trends in Microbial Biotechnology for Agricultural Sustainability: Conclusion and Future Challenges. In: Current Trends in Microbial Biotechnology for Sustainable Agriculture. Edited by Yadav AN, Singh J, Singh C, Yadav N. Singapore: Springer Singapore; 2021: 555-572. https://doi.org/10.1007/978-981-15-6949-4_22
3. Kour D, Rana KL, Kaur T, Yadav N, Yadav AN, Kumar M, Kumar V, Dhaliwal HS, Saxena AK. Biodiversity, current developments and potential biotechnological applications of phosphorus-solubilizing and -mobilizing microbes: A review. Pedosphere. 2021; 31(1):43-75. https://doi.org/10.1016/S1002-0160(20)60057-1
4. Yadav AN, Singh J, Rastegari AA, Yadav N: Plant Microbiomes for Sustainable Agriculture. Cham: Springer; 2020. https://doi.org/10.1007/978-3-030-38453-1
5. Liu H, Brettell LE, Singh B. Linking the phyllosphere microbiome to plant health. Trends Plant Sci. 2020; 25(9):841-844. https://doi.org/10.1016/j.tplants.2020.06.003
6. Copeland JK, Yuan L, Layeghifard M, Wang PW, Guttman DS. Seasonal community succession of the phyllosphere microbiome. Mol Plant-Microbe Interact. 2015; 28(3):274-285. https://doi.org/10.1094/MPMI-10-14-0331-FI
7. Purahong W, Orrù L, Donati I, Perpetuini G, Cellini A, Lamontanara A, Michelotti V, Tacconi G, Spinelli F. Plant microbiome and its link to plant health: Host species, organs and Pseudomonas syringae pv. actinidiae infection shaping bacterial phyllosphere communities of kiwifruit plants. Front Plant Sci. 2018; 9:1563. https://doi.org/10.3389/fpls.2018.01563
8. Rana KL, Kour D, Sheikh I, Dhiman A, Yadav N, Yadav AN, Rastegari AA, Singh K, Saxena AK: Endophytic fungi: biodiversity, ecological significance and potential industrial applications. In: Recent Advancement in White Biotechnology through Fungi: Volume 1: Diversity and Enzymes Perspectives. Edited by Yadav AN, Mishra S, Singh S, Gupta A: Springer, Switzerland; 2019: 1-62. https://doi.org/10.1007/978-3-030-10480-1_1
9. Dudeja S, Giri R, Saini R, Suneja?Madan P, Kothe E. Interaction of endophytic microbes with legumes. J Basic Microbiol. 2012; 52(3):248-260. https://doi.org/10.1002/jobm.201100063
10. Rana KL, Kour D, Yadav AN. Endophytic microbiomes: biodiversity, ecological significance and biotechnological applications. Res J Biotechnol. 2019; 14:142-162.
11. Rana KL, Kour D, Kaur T, Devi R, Yadav AN, Yadav N, Dhaliwal HS, Saxena AK. Endophytic microbes: biodiversity, plant growth-promoting mechanisms and potential applications for agricultural sustainability. Antonie Van Leeuwenhoek. 2020; 113(8):1075-1107. https://doi.org/10.1007/s10482-020-01429-y
12. White JF, Kingsley KL, Zhang Q, Verma R, Obi N, Dvinskikh S, Elmore MT, Verma SK, Gond SK, Kowalski KP. Endophytic microbes and their potential applications in crop management. Pest Manage Sci. 2019; 75(10):2558-2565. https://doi.org/10.1002/ps.5527
13. Yadav AN, Kumar R, Kumar S, Kumar V, Sugitha T, Singh B, Chauhan V, Dhaliwal HS, Saxena AK. Beneficial microbiomes: biodiversity and potential biotechnological applications for sustainable agriculture and human health. J Appl Biol Biotechnol. 2017; 5(6):45-57.
14. Singh A, Kumar R, Yadav AN, Mishra S, Sachan S, Sachan SG: Tiny microbes, big yields: Microorganisms for enhancing food crop production sustainable development. In: Trends of Microbial Biotechnology for Sustainable Agriculture and Biomedicine Systems: Diversity and Functional Perspectives. Edited by Rastegari AA, Yadav AN, Yadav N. Amsterdam: Elsevier; 2020: 1-15. https://doi.org/10.1016/B978-0-12-820526-6.00001-4
15. Yadav AN, Kumar V, Dhaliwal HS, Prasad R, Saxena AK: Microbiome in Crops: Diversity, Distribution, and Potential Role in Crop Improvement. In: Crop improvement through microbial biotechnology. Amsterdam: Elsevier; 2018: 305-332. https://doi.org/10.1016/B978-0-444-63987-5.00015-3
16. Puglisi E, Pascazio S, Suciu N, Cattani I, Fait G, Spaccini R, Crecchio C, Piccolo A, Trevisan M. Rhizosphere microbial diversity as influenced by humic substance amendments and chemical composition of rhizodeposits. J Geochem Explor. 2013; 129:82-94. https://doi.org/10.1016/j.gexplo.2012.10.006
17. Yadav S, Kaushik R, Saxena AK, Arora DK. Diversity and phylogeny of plant growth?promoting bacilli from moderately acidic soil. J Basic Microbiol. 2011; 51(1):98-106. https://doi.org/10.1002/jobm.201000098
18. Verma P, Yadav AN, Kazy SK, Saxena AK, Suman A. Elucidating the diversity and plant growth promoting attributes of wheat
(Triticum aestivum) associated acidotolerant bacteria from southern hills zone of India. Natl J Life Sci. 2013; 10(2):219-227.
19. Yadav AN, Gulati S, Sharma D, Singh RN, Rajawat MVS, Kumar R, Dey R, Pal KK, Kaushik R, Saxena AK. Seasonal variations in culturable archaea and their plant growth promoting attributes to predict their role in establishment of vegetation in Rann of Kutch. Biologia. 2019; 74(8):1031-1043. https://doi.org/10.2478/s11756-019-00259-2
20. Kour D, Rana KL, Kaur T, Sheikh I, Yadav AN, Kumar V, Dhaliwal HS, Saxena AK. Microbe-mediated alleviation of drought stress and acquisition of phosphorus in great millet (Sorghum bicolour L.) by drought-adaptive and phosphorus-solubilizing microbes. Biocatal Agric Biotechnol. 2020; 23:101501. https://doi.org/10.1016/j.bcab.2020.101501
21. Kour D, Rana KL, Yadav AN, Sheikh I, Kumar V, Dhaliwal HS, Saxena AK. Amelioration of drought stress in Foxtail millet (Setaria italica L.) by P-solubilizing drought-tolerant microbes with multifarious plant growth promoting attributes. Environ Sustain. 2020; 3(1):23-34. https://doi.org/10.1007/s42398-020-00094-1
22. Giller KE: Nitrogen fixation in tropical cropping systems: Cabi; 2001. https://doi.org/10.1079/9780851994178.0000
23. Elbeltagy A, Nishioka K, Sato T, Suzuki H, Ye B, Hamada T, Isawa T, Mitsui H, Minamisawa K. Endophytic colonization and in planta nitrogen fixation by a Herbaspirillum sp. isolated from wild rice species. Appl Environ Microbiol. 2001; 67(11):5285-5293. https://doi.org/10.1128/AEM.67.11.5285-5293.2001
24. Boddey RM, Urquiaga S, Alves BJ, Reis V. Endophytic nitrogen fixation in sugarcane: present knowledge and future applications. Plant Soil. 2003; 252(1):139-149. https://doi.org/10.1023/A:1024152126541
25. Wei C-Y, Lin L, Luo L-J, Xing Y-X, Hu C-J, Yang L-T, Li Y-R, An Q. Endophytic nitrogen-fixing Klebsiella variicola strain DX120E promotes sugarcane growth. Biol Fert Soils. 2014;50(4): 657-666. https://doi.org/10.1007/s00374-013-0878-3
26. Reis VM, Teixeira KRdS. Nitrogen fixing bacteria in the family Acetobacteraceae and their role in agriculture. J Basic Microbiol. 2015; 55(8):931-949. https://doi.org/10.1002/jobm.201400898
27. Chen Y, Rekha P, Arun A, Shen F, Lai W-A, Young CC. Phosphate solubilizing bacteria from subtropical soil and their tricalcium phosphate solubilizing abilities. Appl Soil Ecol. 2006; 34(1):33-41. https://doi.org/10.1016/j.apsoil.2005.12.002
28. Chen Y, Rekha P, Arun A, Shen F, Lai W-A, Young CC. Phosphate solubilizing bacteria from subtropical soil and their tricalcium phosphate solubilizing abilities. Applied soil ecology. 2006; 34(1):33-41. https://doi.org/10.1016/j.apsoil.2005.12.002
29. Elhaissoufi W, Khourchi S, Ibnyasser A, Ghoulam C, Rchiad Z, Zeroual Y, Lyamlouli K, Bargaz A. Phosphate solubilizing rhizobacteria could have a stronger influence on wheat root traits and aboveground physiology than rhizosphere P solubilization. Front Plant Sci. 2020; 11:979. https://doi.org/10.3389/fpls.2020.00979
30. Thakur N, Kaur S, Tomar P, Thakur S, Yadav AN: Microbial biopesticides: Current status and advancement for sustainable agriculture and environment. In: Trends of Microbial Biotechnology for Sustainable Agriculture and Biomedicine Systems: Diversity and Functional Perspectives. Edited by Rastegari AA, Yadav AN, Yadav N. Amsterdam: Elsevier; 2020: 243-282. https://doi.org/10.1016/B978-0-12-820526-6.00016-6
31. Saxena AK, Padaria JC, Gurjar GT, Yadav AN, Lone SA, Tripathi M, S RMV: Insecticidal formulation of novel strain of Bacillus thuringiensis AK 47. In.: Indian Patent 340541; 2020.

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1. Kumar V, Joshi S, Pant NC, Sangwan P, Yadav AN, Saxena A, Singh D: Molecular approaches for combating multiple abiotic stresses in crops of arid and semi-arid region. In: Molecular Approaches in Plant Biology and Environmental Challenges. Edited by Singh SP, Upadhyay SK, Pandey A, Kumar S. Singapore: Springer; 2019: 149-170. https://doi.org/10.1007/978-981-15-0690-1_8

2. Hesham AE-L, Kaur T, Devi R, Kour D, Prasad S, Yadav N, Singh C, Singh J, Yadav AN: Current Trends in Microbial Biotechnology for Agricultural Sustainability: Conclusion and Future Challenges. In: Current Trends in Microbial Biotechnology for Sustainable Agriculture. Edited by Yadav AN, Singh J, Singh C, Yadav N. Singapore: Springer Singapore; 2021: 555-572. https://doi.org/10.1007/978-981-15-6949-4_22

3. Kour D, Rana KL, Kaur T, Yadav N, Yadav AN, Kumar M, Kumar V, Dhaliwal HS, Saxena AK. Biodiversity, current developments and potential biotechnological applications of phosphorus-solubilizing and -mobilizing microbes: A review. Pedosphere. 2021; 31(1):43-75. https://doi.org/10.1016/S1002-0160(20)60057-1

4. Yadav AN, Singh J, Rastegari AA, Yadav N: Plant Microbiomes for Sustainable Agriculture. Cham: Springer; 2020. https://doi.org/10.1007/978-3-030-38453-1

5. Liu H, Brettell LE, Singh B. Linking the phyllosphere microbiome to plant health. Trends Plant Sci. 2020; 25(9):841-844. https://doi.org/10.1016/j.tplants.2020.06.003

6. Copeland JK, Yuan L, Layeghifard M, Wang PW, Guttman DS. Seasonal community succession of the phyllosphere microbiome. Mol Plant-Microbe Interact. 2015; 28(3):274-285. https://doi.org/10.1094/MPMI-10-14-0331-FI

7. Purahong W, Orrù L, Donati I, Perpetuini G, Cellini A, Lamontanara A, Michelotti V, Tacconi G, Spinelli F. Plant microbiome and its link to plant health: Host species, organs and Pseudomonas syringae pv. actinidiae infection shaping bacterial phyllosphere communities of kiwifruit plants. Front Plant Sci. 2018; 9:1563. https://doi.org/10.3389/fpls.2018.01563

8. Rana KL, Kour D, Sheikh I, Dhiman A, Yadav N, Yadav AN, Rastegari AA, Singh K, Saxena AK: Endophytic fungi: biodiversity, ecological significance and potential industrial applications. In: Recent Advancement in White Biotechnology through Fungi: Volume 1: Diversity and Enzymes Perspectives. Edited by Yadav AN, Mishra S, Singh S, Gupta A: Springer, Switzerland; 2019: 1-62. https://doi.org/10.1007/978-3-030-10480-1_1

9. Dudeja S, Giri R, Saini R, Suneja?Madan P, Kothe E. Interaction of endophytic microbes with legumes. J Basic Microbiol. 2012; 52(3):248-260. https://doi.org/10.1002/jobm.201100063

10. Rana KL, Kour D, Yadav AN. Endophytic microbiomes: biodiversity, ecological significance and biotechnological applications. Res J Biotechnol. 2019; 14:142-162.

11. Rana KL, Kour D, Kaur T, Devi R, Yadav AN, Yadav N, Dhaliwal HS, Saxena AK. Endophytic microbes: biodiversity, plant growth-promoting mechanisms and potential applications for agricultural sustainability. Antonie Van Leeuwenhoek. 2020; 113(8):1075-1107. https://doi.org/10.1007/s10482-020-01429-y

12. White JF, Kingsley KL, Zhang Q, Verma R, Obi N, Dvinskikh S, Elmore MT, Verma SK, Gond SK, Kowalski KP. Endophytic microbes and their potential applications in crop management. Pest Manage Sci. 2019; 75(10):2558-2565. https://doi.org/10.1002/ps.5527

13. Yadav AN, Kumar R, Kumar S, Kumar V, Sugitha T, Singh B, Chauhan V, Dhaliwal HS, Saxena AK. Beneficial microbiomes: biodiversity and potential biotechnological applications for sustainable agriculture and human health. J Appl Biol Biotechnol. 2017; 5(6):45-57.

14. Singh A, Kumar R, Yadav AN, Mishra S, Sachan S, Sachan SG: Tiny microbes, big yields: Microorganisms for enhancing food crop production sustainable development. In: Trends of Microbial Biotechnology for Sustainable Agriculture and Biomedicine Systems: Diversity and Functional Perspectives. Edited by Rastegari AA, Yadav AN, Yadav N. Amsterdam: Elsevier; 2020: 1-15. https://doi.org/10.1016/B978-0-12-820526-6.00001-4

15. Yadav AN, Kumar V, Dhaliwal HS, Prasad R, Saxena AK: Microbiome in Crops: Diversity, Distribution, and Potential Role in Crop Improvement. In: Crop improvement through microbial biotechnology. Amsterdam: Elsevier; 2018: 305-332. https://doi.org/10.1016/B978-0-444-63987-5.00015-3

16. Puglisi E, Pascazio S, Suciu N, Cattani I, Fait G, Spaccini R, Crecchio C, Piccolo A, Trevisan M. Rhizosphere microbial diversity as influenced by humic substance amendments and chemical composition of rhizodeposits. J Geochem Explor. 2013; 129:82-94. https://doi.org/10.1016/j.gexplo.2012.10.006

17. Yadav S, Kaushik R, Saxena AK, Arora DK. Diversity and phylogeny of plant growth?promoting bacilli from moderately acidic soil. J Basic Microbiol. 2011; 51(1):98-106. https://doi.org/10.1002/jobm.201000098

18. Verma P, Yadav AN, Kazy SK, Saxena AK, Suman A. Elucidating the diversity and plant growth promoting attributes of wheat

(Triticum aestivum) associated acidotolerant bacteria from southern hills zone of India. Natl J Life Sci. 2013; 10(2):219-227.

19. Yadav AN, Gulati S, Sharma D, Singh RN, Rajawat MVS, Kumar R, Dey R, Pal KK, Kaushik R, Saxena AK. Seasonal variations in culturable archaea and their plant growth promoting attributes to predict their role in establishment of vegetation in Rann of Kutch. Biologia. 2019; 74(8):1031-1043. https://doi.org/10.2478/s11756-019-00259-2

20. Kour D, Rana KL, Kaur T, Sheikh I, Yadav AN, Kumar V, Dhaliwal HS, Saxena AK. Microbe-mediated alleviation of drought stress and acquisition of phosphorus in great millet (Sorghum bicolour L.) by drought-adaptive and phosphorus-solubilizing microbes. Biocatal Agric Biotechnol. 2020; 23:101501. https://doi.org/10.1016/j.bcab.2020.101501

21. Kour D, Rana KL, Yadav AN, Sheikh I, Kumar V, Dhaliwal HS, Saxena AK. Amelioration of drought stress in Foxtail millet (Setaria italica L.) by P-solubilizing drought-tolerant microbes with multifarious plant growth promoting attributes. Environ Sustain. 2020; 3(1):23-34. https://doi.org/10.1007/s42398-020-00094-1

22. Giller KE: Nitrogen fixation in tropical cropping systems: Cabi; 2001. https://doi.org/10.1079/9780851994178.0000

23. Elbeltagy A, Nishioka K, Sato T, Suzuki H, Ye B, Hamada T, Isawa T, Mitsui H, Minamisawa K. Endophytic colonization and in planta nitrogen fixation by a Herbaspirillum sp. isolated from wild rice species. Appl Environ Microbiol. 2001; 67(11):5285-5293. https://doi.org/10.1128/AEM.67.11.5285-5293.2001

24. Boddey RM, Urquiaga S, Alves BJ, Reis V. Endophytic nitrogen fixation in sugarcane: present knowledge and future applications. Plant Soil. 2003; 252(1):139-149. https://doi.org/10.1023/A:1024152126541

25. Wei C-Y, Lin L, Luo L-J, Xing Y-X, Hu C-J, Yang L-T, Li Y-R, An Q. Endophytic nitrogen-fixing Klebsiella variicola strain DX120E promotes sugarcane growth. Biol Fert Soils. 2014;50(4): 657-666. https://doi.org/10.1007/s00374-013-0878-3

26. Reis VM, Teixeira KRdS. Nitrogen fixing bacteria in the family Acetobacteraceae and their role in agriculture. J Basic Microbiol. 2015; 55(8):931-949. https://doi.org/10.1002/jobm.201400898

27. Chen Y, Rekha P, Arun A, Shen F, Lai W-A, Young CC. Phosphate solubilizing bacteria from subtropical soil and their tricalcium phosphate solubilizing abilities. Appl Soil Ecol. 2006; 34(1):33-41. https://doi.org/10.1016/j.apsoil.2005.12.002

28. Chen Y, Rekha P, Arun A, Shen F, Lai W-A, Young CC. Phosphate solubilizing bacteria from subtropical soil and their tricalcium phosphate solubilizing abilities. Applied soil ecology. 2006; 34(1):33-41. https://doi.org/10.1016/j.apsoil.2005.12.002

29. Elhaissoufi W, Khourchi S, Ibnyasser A, Ghoulam C, Rchiad Z, Zeroual Y, Lyamlouli K, Bargaz A. Phosphate solubilizing rhizobacteria could have a stronger influence on wheat root traits and aboveground physiology than rhizosphere P solubilization. Front Plant Sci. 2020; 11:979. https://doi.org/10.3389/fpls.2020.00979

30. Thakur N, Kaur S, Tomar P, Thakur S, Yadav AN: Microbial biopesticides: Current status and advancement for sustainable agriculture and environment. In: Trends of Microbial Biotechnology for Sustainable Agriculture and Biomedicine Systems: Diversity and Functional Perspectives. Edited by Rastegari AA, Yadav AN, Yadav N. Amsterdam: Elsevier; 2020: 243-282. https://doi.org/10.1016/B978-0-12-820526-6.00016-6

31. Saxena AK, Padaria JC, Gurjar GT, Yadav AN, Lone SA, Tripathi M, S RMV: Insecticidal formulation of novel strain of Bacillus thuringiensis AK 47. In.: Indian Patent 340541; 2020.