Keywords
manejo de la tierra
interacción planta-microbios
nutrientes del suelo
bacterias
How to Cite
Abstract
There is a growing interest in the challenges associated with the structures of soil microbial communities that contribute to the stability of agroecosystems and increase crop production to meet the high demand for food and energy in modern agriculture. Currently, major advances in soil metagenomics and spatial patterning of microbial communities and community-level molecular features can be exploited as "biomarker" indicators of ecosystem processes for sustainable health monitoring. This review describes the past, present and ongoing theoretical and methodological strategies used to evaluate and better understand the distribution and evolution of bacteria, fungi, nematodes and archaea with the aim of promoting agricultural practices that use said diversity for the proper functioning of the soil biology and, more broadly, ecosystem services.
References
M. Miransari, “Soil microbes and the availability of soil nutrients,” Acta Physiologiae Plantarum, vol. 35, pp. 3075–3084, 2013.
E.E. Kuramae, E. Yergeau, L.C. Wong, A.S. Pijl, J.A. van Veen, and G.A. Kowalchuk, “Soil characteristics more strongly influence soil bacterial communities than land-use type,” FEMS microbiology Ecology, vol. 79, pp. 12–24, 2012.
A.M. Keith, B. Boots, C. Hazard, R. Niechoj, J. Arroyo, G.D. Bending, T. Bolger, J. Breen, N. Clipson, F.M. Doohan, and C.T. Griffin, “Cross-taxa congruence, indicators and environmental gradients in soils under agricultural and extensive land management,” European Journal of Soil Biology, vol. 49, pp. 55–62, 2011.
D. Finn, P.M. Kopittke,P.G. Dennis, and R.C. Dalal, “Microbial energy and matter transformation in agricultural soils,” Soil Biology and Biochemistry, vol. 111, pp. 176–192, 2017.
B. Küstermann, J.C. Munch, and K-J. Hülsbergen, “Effects of soil tillage and fertilization on resource efficiency and greenhouse gas emissions in a long-term field experiment in Southern Germany,” European Journal of Agronomy, vol. 49, pp. 61–73, 2013.
K.J. Van Groenigen, A. Hastings, D. Forristal, B. Roth, M. Jones, and P. Smith, “Soil C storage as affected by tillage and straw management: An assessment using field measurements and model predictions,” Agriculture, Ecosystem & Environment, vol. 140, pp. 218–225, 2011.
X. Sui, R. Zhang, B. Frey, L. Yang, M.H. Li, and H. Ni, “Land use change effects on diversity of soil bacterial, Acidobacterial and fungal communities in wetlands of the Sanjiang Plain, northeastern China,” Scientific Reports, vol. 9(1), pp. 1–14, 2019.
A.P. Smith, E. Marín-Spiotta, M.A. De Graaff, and T.C. Balser, “Microbial community structure varies across soil organic matter aggregate pools during tropical land cover change,” Soil Biology and Biochemistry, vol. 77, pp. 292–303, 2014.
M. Delgado-Baquerizo, F. Covelo, F.T. Maestre, and A. Gallardo, “Biological soil crusts affect small-scale spatial patterns of inorganic N in a semiarid Mediterranean grassland,” Journal of Arid Environment, vol. 91, pp. 147–150, 2013.
J.L. Rodrigues, V.H. Pellizari, R. Mueller, K. Baek, E.D. Jesus, F.S. Paula, B. Mirza, G.S. Hamaoui Jr, S.M. Tsai, B. Feigl, and J.M. Tiedje, “Conversion of the Amazon rainforest to agriculture results in biotic homogenization of soil bacterial communities,” Proceedings of the National Academy of Sciences, vol. 110, no. 3, pp. 988–993, 2013.
S. Frenk, A. Dag, U. Yermiyahu, I. Zipori, Y. Hadar, and D. Minz, “Seasonal effect and anthropogenic impact on the composition of the active bacterial community in Mediterranean orchard soil,” FEMS Microbiology Ecology, vol. 91, no. 9, pp. 1–12, 2015.
N. Fierer, J. Ladau, J.C. Clemente, J.W. Leff, S.M. Owens, K.S. Pollard, R. Knight, J.A. Gilbert, and R.L. McCulley, “Reconstructing the microbial diversity and function of pre-agricultural tallgrass prairie soils in the United States,” Science, vol. 342, no. 6148, pp. 621–624, 2013.
R. Jacoby, M. Peukert, A. Succurro, A. Koprivova, and S. Kopriva, “The role of soil microorganisms in plant mineral nutrition-current knowledge and future directions,” Frontiers in Plant Science, vol. 8, pp. 1–19, 2017.
J.F. Biddle, S. Fitz-Gibbon, S.C. Schuster, J.E. Brenchley, and C.H. House, “Metagenomic signatures of the Peru Margin subseafloor biosphere show a genetically distinct environment,” Proceedings of the National Academy of Sciences of the United States of America, vol. 105, pp. 10583–10588, 2008.
A. Lagomarsino, S. Grego, and E. Kandeler, “Soil organic carbon distribution drives microbial activity and functional diversity in particle and aggregate-size fractions,” Pedobiologia. vol. 55, no. 2, pp. 101–110, 2012.
R.M. Peralta, C. Ahn, and P.M. Gillevet, “Characterization of soil bacterial community structure and physicochemical properties in created and natural wetlands,” Science of the Total Environment, vol. 443, pp. 725–732, 2013.
Y. Wang, H.F. Sheng, Y. He, J.Y. Wu, Y.X. Jiang, N.F.Y. Tam, and H.W. Zhou, “Comparison of the levels of bacterial diversity in freshwater, intertidal wet-land, and marine sediments by using millions of Illumina tags,” Applied and Environmental Microbiology, vol. 78, no. 23, pp. 8264–8271, 2012.
A.K. Bartram, M.D. Lynch, J.C. Stearns, G. Moreno-Hagelsieb, and J.D. Neufeld, “Generation of multi-million 16S rRNA gene libraries from complex microbial communities by assembling paired-end Illumina reads,” Applied and Environmental Microbiology,vol. 77, pp. 3846–3852, 2011.
T. Zhang, M.F. Shao, and L. Ye, “454 Pyrosequencing reveals bacterial diversity ofactivated sludge from 14 sewage treatment plants,” ISME Journal, vol. 6, no. 6, pp. 1137–1147, 2011.
K. Wallenius, H. Rita, A. Mikkonen, K. Lappi, K. Lindström, H. Hartikainen, A. Raateland, and R.M. Niemi, “Effects of land use on the level, variation and spatial structure of soil enzyme activities and bacterial communities,” Soil Biology and Biochemistry, vol. 43, no. 7, pp. 1464–1473, 2011.
M.S. Montecchia, O.S. Correa, M.A. Soria, S.D. Frey, A.F. García, and J.L. Garland, “Multivariate approach to characterizing soil microbial communities in pristine and agricultural sites in Northwest Argentina,” Applied Soil Ecology, vol. 47, no. 3, pp. 176–183, 2011.
D. Goss-Souza, L.W. Mendes, C.D. Borges, J.L. Rodrigues, and S.M. Tsai, “Amazon forest-to-agriculture conversion alters rhizosphere microbiome composition while functions are kept,” FEMS microbiology, vol. 95, no. 3, pp. 1–13, 2019.
F. Vitali, G. Mastromei, G. Senatore, C. Caroppo, and E. Casalone, “Long lasting effects of the conversion from natural forest to poplar plantation on soil microbial communities,” Microbiological Research, vol. 182, p. 89–98, 2016.
R. He, K. Yang, Z. Li, M. Schädler, W. Yang, F. Wu, B. Tan, L. Zhang, and Z. Xu, “Effects of forest conversion on soil microbial communities depend on soil layer on the eastern Tibetan Plateau of China,” PloS one, vol. 12, no. 10, pp. 1–13, 2017.
L. Lee-Cruz, D.P. Edwards, B.M. Tripathi, and J.M. Adams, “Impact of logging and forest conversion to oil palm plantations on soil bacterial communities in Borneo,” Applied Environmental Microbiology, vol. 79, no. 23, pp. 7290–7297, 2013.
A. Sugiyama, Y. Ueda, T. Zushi, H. Takase, and K. Yazaki, “Changes in the bacterial community of soybean rhizospheres during growth in the field,” PLoS One, vol. 9, pp. 1–9, 2014.
N. Lewe, S. Hermans, G. Lear, L.T. Kelly, G. Thomson-Laing, B. Weisbrod, S.A. Wood, R.A. Keyzers, and J.R. Deslippe, “Phospholipid fatty acid (PLFA) analysis as a tool to estimate absolute abundances from compositional 16S rRNA bacterial metabarcoding data,” Journal of Microbiological Methods, vol. 188, pp. 106271, 2021.
A. Williams, and K. Hedlund, “Indicators of soil ecosystem services in conventional and organic arable fields along a gradient of landscape heterogeneity in southern Sweden,” Applied Soil Ecology, vol. 65, pp. 1–7, 2013.
M.A. Cregger, C.W. Schadt, N.G. McDowell, W.T. Pockman, and A.T. Classen, “Response of the soil microbial community to changes in precipitation in a semiarid ecosystem,” Applied and Environmental Microbiology, vol. 78, no. 24, pp. 8587–8594, 2012.
L. D’Acunto, M. Semmartin, and C.M. Ghersa, “Uncultivated margins are source of soil microbial diversity in an agricultural landscape,” Agriculture, Ecosystem & Environment, vol. 220, pp. 1–7, 2016.
M. Hartmann, B. Frey, J. Mayer, P. Mäder, and F. Widmer, “Distinct soil microbial diversity under long-term organic and conventional farming,” The ISME journal, vol. 9, pp. 1177–1194, 2014.
J. Rousk, P.C. Brookes, and E. Bååth, “Investigating the mechanisms for the opposing pH relationships of fungal and bacterial growth in soil,” Soil Biology and Biochemistry, vol. 42, no. 6, pp. 926–934, 2010.
R.P. Phillips, E. Brzostek, and M. Midgley, “The mycorrhizal-associated nutrient economy: a new framework for predicting carbon-nutrient couplings in temperate forests,” New Phytologist, vol. 199, no. 1, pp. 41–51, 2013.
B.G. Waring, R. Adams, S. Branco, and J.S. Powers, “Scale‐dependent variation in nitrogen cycling and soil fungal communities along gradients of forest composition and age in regenerating tropical dry forests,” New Phytologist, vol. 209, no. 2, pp. 845–854, 2016.
A. Corrales, S.A. Mangan, B.L. Turner, and J.W. Dalling, “An ectomycorrhizal nitrogen economy facilitates monodominance in a neotropical forest,” Ecology Letters, vol. 19, no. 4, pp. 383-392, 2016.
H. Ferris, “Form and function: Metabolic footprints of nematodes in the soil food web,” European Journal of Soil Biology, vol. 46, no. 2, pp. 97–104, 2010.
H. Ferris, S. Sánchez-Moreno, and E.B. Brennan, “Structure, functions and interguild relationships of the soil nematode assemblage in organic vegetable production,” Applied Soil Ecology, vol. 61, pp. 16–25, 2012.
S.T. Bates, D. Berg-Lyons, J.G. Caporaso, W.A. Walters, R. Knight, and N. Fierer, “Examining the global distribution of dominant archaeal populations in soil,” The ISME journal, vol. 5, no. 5, pp. 908–917, 2010.
J.H. Ahn, J. Song, B.Y. Kim, M.S. Kim, J.H. Joa, and H.Y. Weon, “Characterization of the bacterial and archaeal communities in rice field soils subjected to long-term fertilization practices,” Journal of Microbiology, vol. 50, no. 5, pp. 754–765, 2012.
J. Wang, Y. Song, T. Ma, W. Raza, J. Li, J.G. Howland, Q. Huang, and Q. Shen, “Impacts of inorganic and organic fertilization treatments on bacterial and fungal communities in a paddy soil,” Applied Soil Ecology, vol. 112, pp. 42–50, 2017.
A.M. Treonis, S.K. Unangst, R.M. Kepler, J.S. Buyer, M.A. Cavigelli, S.B. Mirsky, and J.E. Maul, “Characterization of soil nematode communities in three cropping systems through morphological and DNA metabarcoding approaches,” Scientific Reports, vol. 8, no. 1, pp. 1–12, 2018.
J. Liu, Z. Yu, Q. Yao, X. Hu, W. Zhang, G. Mi, X. Chen, and G. Wang, “Distinct soil bacterial communities in response to the cropping system in a Mollisol of northeast China,” Applied Soil Ecology, vol. 119, pp. 407–416, 2017.
B. Sun, S. Jia, S. Zhang, N.B. McLaughlin, X. Zhang, A. Liang, X. Chen, S. Wei, and S. Liu, “Tillage, seasonal and depths effects on soil microbial properties in black soil of Northeast China,” Soil and Tillage Research, vol. 155, pp. 421–428, 2016.
A. Somenahally, J.I. DuPont, J. Brady, J. McLawrence, B. Northup, and P. Gowda, “Microbial communities in soil profile are more responsive to legacy effects of wheat-cover crop rotations than tillage systems,” Soil Biology and Biochemistry, vol. 123, pp. 126–135, 2018.
Q. Guo, L. Yan, H. Korpelainen, Ü. Niinemets, and C. Li, “Plant-plant interactions and N fertilization shape soil bacterial and fungal communities,” Soil Biology and Biochemistry, vol. 128, pp.127–138, 2019.
S.M. Juice, C.A. Walter, K.E. Allen, D.M. Berardi, T.W. Hudiburg, B.N. Sulman, and E.R. Brzostek, “A new bioenergy model that simulates the impacts of plant‐microbial interactions, soil carbon protection, and mechanistic tillage on soil carbon cycling,” Global Change Biology Bioenergy, vol. 14, no. 3, pp. 346–363, 2022.
T.R. Sveen, T. Netherway, J. Juhanson, J. Oja, P. Borgström, M. Viketoft, J. Strengbom, R. Bommarco, K. Clemmensen, S. Hallin, and M. Bahram, “Plant-microbe interactions in response to grassland herbivory and nitrogen eutrophication,” Soil Biology and Biochemistry, vol. 156, pp. 1–10, 2021.
O. Hararuk, M.J. Smith, and Y.Q. Luo, “Microbial models with data-driven parameters predict stronger soil carbon responses to climate change,” Global Change Biology, vol. 21, no. 6, pp. 2439–2453, 2015.
P.G. Mellado-Vázquez, M. Lange, D. Bachmann, A. Gockele, S. Karlowsky, A. Milcu, C. Piel, C. Roscher, J. Roy, and G. Gleixner, “Plant diversity generates enhanced soil microbial access to recently photosynthesized carbon in the rhizosphere,” Soil Biology and Biochemistry, vol. 94, pp. 122–132, 2016.
M.M. Qaisrani, A. Zaheer, M.S. Mirza, T. Naqqash, T.B. Qaisrani, M.K. Hanif, G. Rasool, K.A. Malik, S. Ullah, M.S. Jamal, and Z. Mirza, “A comparative study of bacterial diversity based on culturable and culture-independent techniques in the rhizosphere of maize (Zea mays L.),” Saudi Journal of Biological Science, vol. 26, no. 7, pp. 1344–1351, 2019.
T.E. Cheeke, R.P. Phillips, E.R. Brzostek, A. Rosling, J.D. Bever, and P. Fransson, “Dominant mycorrhizal association of trees alters carbon and nutrient cycling by selecting for microbial groups with distinct enzyme function,” New Phytologist, vol. 214, no. 1, pp. 432–442, 2017.
This work is licensed under a Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License.
Copyright (c) 2024 Perspectivas de la Ciencia y la Tecnología