References
Agler, M.T., Ruhe, J., Kroll, S., Morhenn, C., Kim, S.-T., Weigel, D., Kemen, E.M., 2016. Microbial Hub Taxa Link Host and Abiotic Factors to Plant Microbiome Variation. PLoS Biol 14, e1002352. https://doi.org/10.1371/journal.pbio.1002352
Bagstad, K.J., Cohen, E., Ancona, Z.H., McNulty, S.G., Sun, G., 2018. The sensitivity of ecosystem service models to choices of input data and spatial resolution. Applied Geography 93, 25–36. https://doi.org/10.1016/j.apgeog.2018.02.005
Banerjee, S., Schlaeppi, K., van der Heijden, M.G.A., 2018. Keystone taxa as drivers of microbiome structure and functioning. Nat Rev Microbiol 16, 567–576. https://doi.org/10.1038/s41579-018-0024-1
Banerjee, S., Walder, F., Büchi, L., Meyer, M., Held, A.Y., Gattinger, A., Keller, T., Charles, R., van der Heijden, M.G.A., 2019. Agricultural intensification reduces microbial network complexity and the abundance of keystone taxa in roots. ISME J 13, 1722–1736. https://doi.org/10.1038/s41396-019-0383-2
Barberán, A., Bates, S.T., Casamayor, E.O., Fierer, N., 2012. Using network analysis to explore co-occurrence patterns in soil microbial communities. ISME J 6, 343–351. https://doi.org/10.1038/ismej.2011.119
Bardgett, R.D., van der Putten, W.H., 2014. Belowground biodiversity and ecosystem functioning. Nature 515, 505–511. https://doi.org/10.1038/nature13855
Baveye, P.C., 2021. Soil health at a crossroad. Soil Use Manage 37, 215–219. https://doi.org/10.1111/sum.12703
Bender, S.F., Wagg, C., van der Heijden, M.G.A., 2016. An Underground Revolution: Biodiversity and Soil Ecological Engineering for Agricultural Sustainability. Trends in Ecology & Evolution 31, 440–452. https://doi.org/10.1016/j.tree.2016.02.016
Bennett, A.E., Bever, J.D., 2007. MYCORRHIZAL SPECIES DIFFERENTIALLY ALTER PLANT GROWTH AND RESPONSE TO HERBIVORY. Ecology 88, 210–218. https://doi.org/10.1890/0012-9658(2007)88[210:MSDAPG]2.0.CO;2
Clark, M.A., Choi, J., Douglas, M., n.d. SENIOR CONTRIBUTING AUTHORS 1578.
Coleman, D.C., Callaham, M., Jr, D.A.C., 2017. Fundamentals of Soil Ecology. Academic Press.
Daniel, R., 2005. The metagenomics of soil. Nat Rev Microbiol 3, 470–478. https://doi.org/10.1038/nrmicro1160
Fisher, C.K., Mehta, P., 2014. Identifying Keystone Species in the Human Gut Microbiome from Metagenomic Timeseries Using Sparse Linear Regression. PLoS ONE 9, e102451. https://doi.org/10.1371/journal.pone.0102451
Frąc, M., Hannula, S.E., Bełka, M., Jędryczka, M., 2018. Fungal Biodiversity and Their Role in Soil Health. Front. Microbiol. 9, 707. https://doi.org/10.3389/fmicb.2018.00707
Gilbert, J.A., Steele, J.A., Caporaso, J.G., Steinbrück, L., Reeder, J., Temperton, B., Huse, S., McHardy, A.C., Knight, R., Joint, I., Somerfield, P., Fuhrman, J.A., Field, D., 2012. Defining seasonal marine microbial community dynamics. ISME J 6, 298–308. https://doi.org/10.1038/ismej.2011.107
Hu, X., Liu, J., Liang, A., Li, L., Yao, Q., Yu, Z., Li, Y., Jin, J., Liu, X., Wang, G., 2021. Conventional and conservation tillage practices affect soil microbial co-occurrence patterns and are associated with crop yields. Agriculture, Ecosystems & Environment 319, 107534. https://doi.org/10.1016/j.agee.2021.107534
Janzen, H.H., Janzen, D.W., Gregorich, E.G., 2021. The ‘soil health’ metaphor: Illuminating or illusory? Soil Biology and Biochemistry 159, 108167. https://doi.org/10.1016/j.soilbio.2021.108167
Lautenbach, S., Mupepele, A.-C., Dormann, C.F., Lee, H., Schmidt, S., Scholte, S.S.K., Seppelt, R., van Teeffelen, A.J.A., Verhagen, W., Volk, M., 2019. Blind spots in ecosystem services research and challenges for implementation. Reg Environ Change 19, 2151–2172. https://doi.org/10.1007/s10113-018-1457-9
Lehmann, J., Bossio, D.A., Kögel-Knabner, I., Rillig, M.C., 2020. The concept and future prospects of soil health. Nat Rev Earth Environ 1, 544–553. https://doi.org/10.1038/s43017-020-0080-8
Lernoud, J., Willer, H., n.d. Organic Agriculture Worldwide 2017: Current Statistics 29.
Nannipieri, P., Ascher-Jenull, J., Ceccherini, M.T., Pietramellara, G., Renella, G., Schloter, M., 2020. Beyond microbial diversity for predicting soil functions: A mini review. Pedosphere 30, 5–17. https://doi.org/10.1016/S1002-0160(19)60824-6
Naylor, D., DeGraaf, S., Purdom, E., Coleman-Derr, D., 2017. Drought and host selection influence bacterial community dynamics in the grass root microbiome. ISME J 11, 2691–2704. https://doi.org/10.1038/ismej.2017.118
Paustian, K., Lehmann, J., Ogle, S., Reay, D., Robertson, G.P., Smith, P., 2016. Climate-smart soils. Nature 532, 49–57. https://doi.org/10.1038/nature17174
Peltoniemi, K., Velmala, S., Fritze, H., Lemola, R., Pennanen, T., 2021. Long-term impacts of organic and conventional farming on the soil microbiome in boreal arable soil. European Journal of Soil Biology 104, 103314. https://doi.org/10.1016/j.ejsobi.2021.103314
Primer [WWW Document], n.d. . Genome.gov. URL https://www.genome.gov/genetics-glossary/Primer (accessed 1.25.22).
quick start guide [Zotero Documentation] [WWW Document], n.d. URL https://www.zotero.org/support/quick_start_guide (accessed 1.24.22).
Saia, S., Rappa, V., Ruisi, P., Abenavoli, M.R., Sunseri, F., Giambalvo, D., Frenda, A.S., Martinelli, F., 2015. Soil inoculation with symbiotic microorganisms promotes plant growth and nutrient transporter genes expression in durum wheat. Front. Plant Sci. 6. https://doi.org/10.3389/fpls.2015.00815
Schröter, M., Koellner, T., Alkemade, R., Arnhold, S., Bagstad, K.J., Erb, K.-H., Frank, K., Kastner, T., Kissinger, M., Liu, J., López-Hoffman, L., Maes, J., Marques, A., Martín-López, B., Meyer, C., Schulp, C.J.E., Thober, J., Wolff, S., Bonn, A., 2018. Interregional flows of ecosystem services: Concepts, typology and four cases. Ecosystem Services 31, 231–241. https://doi.org/10.1016/j.ecoser.2018.02.003
Shetty, S.A., Hugenholtz, F., Lahti, L., Smidt, H., de Vos, W.M., 2017. Intestinal microbiome landscaping: insight in community assemblage and implications for microbial modulation strategies. FEMS Microbiology Reviews 41, 182–199. https://doi.org/10.1093/femsre/fuw045
The Nobel Prize in Chemistry 1993 [WWW Document], n.d. . NobelPrize.org. URL https://www.nobelprize.org/prizes/chemistry/1993/press-release/ (accessed 1.25.22).
Trivedi, P., Delgado-Baquerizo, M., Anderson, I.C., Singh, B.K., 2016. Response of Soil Properties and Microbial Communities to Agriculture: Implications for Primary Productivity and Soil Health Indicators. Front. Plant Sci. 7. https://doi.org/10.3389/fpls.2016.00990
Tsiafouli, M.A., Thébault, E., Sgardelis, S.P., de Ruiter, P.C., van der Putten, W.H., Birkhofer, K., Hemerik, L., de Vries, F.T., Bardgett, R.D., Brady, M.V., Bjornlund, L., Jørgensen, H.B., Christensen, S., Hertefeldt, T.D., Hotes, S., Gera Hol, W.H., Frouz, J., Liiri, M., Mortimer, S.R., Setälä, H., Tzanopoulos, J., Uteseny, K., Pižl, V., Stary, J., Wolters, V., Hedlund, K., 2015. Intensive agriculture reduces soil biodiversity across Europe. Glob Change Biol 21, 973–985. https://doi.org/10.1111/gcb.12752
Wang, R., Zhang, H., Sun, L., Qi, G., Chen, S., Zhao, X., 2017. Microbial community composition is related to soil biological and chemical properties and bacterial wilt outbreak. Sci Rep 7, 343. https://doi.org/10.1038/s41598-017-00472-6
Wang, Y., Liu, L., Luo, Y., Awasthi, M.K., Yang, J., Duan, Y., Li, H., Zhao, Z., 2020. Mulching practices alter the bacterial-fungal community and network in favor of soil quality in a semiarid orchard system. Science of The Total Environment 725, 138527. https://doi.org/10.1016/j.scitotenv.2020.138527
Zahm, F., Viaux, P., Vilain, L., Girardin, P., Mouchet, C., 2008. Assessing farm sustainability with the IDEA method - from the concept of agriculture sustainability to case studies on farms. Sust. Dev. 16, 271–281. https://doi.org/10.1002/sd.380
Zhou, J., Deng, Y., Luo, F., He, Z., Tu, Q., Zhi, X., 2010. Functional Molecular Ecological Networks. mBio 1. https://doi.org/10.1128/mBio.00169-10
Zhu, Z., Bai, Y., Lv, M., Tian, G., Zhang, X., Li, L., Jiang, Y., Ge, S., 2020a. Soil Fertility, Microbial Biomass, and Microbial Functional Diversity Responses to Four Years Fertilization in an Apple Orchard in North China. Horticultural Plant Journal 6, 223–230. https://doi.org/10.1016/j.hpj.2020.06.003
Zhu, Z., Bai, Y., Lv, M., Tian, G., Zhang, X., Li, L., Jiang, Y., Ge, S., 2020b. Soil Fertility, Microbial Biomass, and Microbial Functional Diversity Responses to Four Years Fertilization in an Apple Orchard in North China. Horticultural Plant Journal 6, 223–230. https://doi.org/10.1016/j.hpj.2020.06.003
"Our Sustainable Future - Regenerative Ag Description". csuchico.edu. Retrieved 2017-03-09.