Responses of Soil Rare and Abundant Sub-Communities and Physicochemical Properties after Application of Different Chinese Herb Residue Soil Amendments |
Chang, Fan
(College of Life Science, Shaanxi Normal University)
Jia, Fengan (Shaanxi Institute of Microbiology) Guan, Min (Shaanxi Agricultural Machinery Research Institute) Jia, Qingan (Institute of Medical Research, Northwestern Polytechnical University) Sun, Yan (College of Life Science, Shaanxi Normal University) Li, Zhi (College of Life Science, Shaanxi Normal University) |
1 | Eriksson BG. 2017. Organic textile waste as a resource for sustainable agriculture in arid and semi-arid areas. Ambio 46: 155-161. DOI |
2 | Beckers B, Op De Beeck M, Weyens N, Boerjan W, Vangronsveld J. 2017. Structural variability and niche differentiation in the rhizosphere and endosphere bacterial microbiome of field-grown poplar trees. Microbiome 5: 25. DOI |
3 | Jiao S, Xu Y, Zhang J, Lu Y. 2019. Environmental filtering drives distinct continental atlases of soil archaea between dryland and wetland agricultural ecosystems. Microbiome 7: 15. DOI |
4 | Guangming L, Xuechen Z, Xiuping W, Hongbo S, Jingsong Y, Xiangping W. 2017. Soil enzymes as indicators of saline soil fertility under various soil amendments. Agric. Ecosys. Environ. 237: 274-279. DOI |
5 | Ma J, Chen Y, Wang H, Wu J. 2019. Traditional Chinese medicine residue act as a better fertilizer for improving soil aggregation and crop yields than manure. Soil Tillage Res. 195: 104386. DOI |
6 | Louca S, Polz MF, Mazel F, Albright MBN, Huber JA, O'Connor MI, et al. 2018. Function and functional redundancy in microbial systems. Nat. Ecol. Evol. 2: 936-943. DOI |
7 | Attoe OJ, Truog E. 1947. Rapid photometric determination of exchangeable potassium and sodium. Soil Sci. Soc. Am. J. 11: 221-226. DOI |
8 | Oksanen J, Blanchet FG, Friendly M, Kindt R, Legendre P, McGlinn D, et al. 2019. vegan: Community Ecology Package. |
9 | Hamilton NE, Ferry M. 2018. ggtern: ternary diagrams using ggplot2. J. Stat. Software 87: 1-17. |
10 | Lennon JT, Jones SE. 2011. Microbial seed banks: the ecological and evolutionary implications of dormancy. Nat. Rev. Microbiol. 9: 119-130. DOI |
11 | Zhan Y, Liu W, Bao Y, Zhang J, Petropoulos E, Li Z, et al. 2018. Fertilization shapes a well-organized community of bacterial decomposers for accelerated paddy straw degradation. Sci. Rep. 8: 7981. DOI |
12 | Campbell BJ, Yu L, Heidelberg JF, Kirchman DL. 2011. Activity of abundant and rare bacteria in a coastal ocean. Proc. Natl. Acad. Sci. USA 108: 12776-12781. DOI |
13 | Grandy AS, Robertson GP. 2006. Aggregation and organic matter protection following tillage of a previously uncultivated soil. Soil Sci. Soc. Am. J. 70: 1398-1406. DOI |
14 | Bender SF, Wagg C, van der Heijden MGA. 2016. An underground revolution: biodiversity and soil ecological engineering for agricultural sustainability. Trends Ecol. Evol. 31: 440-452. DOI |
15 | Knight R, Vrbanac A, Taylor BC, Aksenov A, Callewaert C, Debelius J, et al. 2018. Best practices for analysing microbiomes. Nat. Rev. Microbiol. 16: 410-422. DOI |
16 | Chong J, Liu P, Zhou G, Xia J. 2020. Using microbiome analyst for comprehensive statistical, functional, and meta-analysis of microbiome data. Nat. Protoc. 15: 799-821. DOI |
17 | Ramirez M, Lopez-Pineiro A, Pena D, Nunes JR, Albarran A, Munoz A, et al. 2017. Seasonal and interannual fluctuation of the microbial soil community in a maize field under long-term conservation agriculture management. Sustainability 9: 778. DOI |
18 | Xiao L, Liu G, Li P, Xue S. 2017. Elevated CO2 and nitrogen addition have minimal influence on the rhizospheric effects of Bothriochloa ischaemum. Sci. Rep. 7: 6527. DOI |
19 | Lynch M, Neufeld JD. 2015. Ecology and exploration of the rare biosphere. Nat. Rev. Microbiol. 13: 217. DOI |
20 | Edgar RC. 2018. Updating the 97% identity threshold for 16S ribosomal RNA OTUs. Bioinformatics 34: 2371-2375. DOI |
21 | Perez-Jaramillo JE, Carrion VJ, de Hollander M, Raaijmakers JM. 2018. The wild side of plant microbiomes. Microbiome 6: 143. DOI |
22 | Abdul Halim N, Abdullah R, Karsani S, Osman N, Panhwar Q, Ishak C. 2018. Influence of soil amendments on the growth and yield of rice in acidic soil. Agronomy 8: 165. DOI |
23 | Mao W, Xin G, Feng H, Li Z, Ran L, Zeng Y. 2015. The influence of different microbial inoculants on the fermentation process of Chinese herb residues. J. Green Sci. Technol. 1: 159-161. |
24 | Hou P-F, Chien C-H, Chiang-Hsieh Y-F, Tseng K-C, Chow C-N, Huang H-J, et al. 2018. Paddy-upland rotation for sustainable agriculture with regards to diverse soil microbial community. Sci. Rep. 8: 7966. DOI |
25 | Tian Y, Gao L. 2014. Bacterial diversity in the rhizosphere of cucumbers grown in soils covering a wide range of cucumber cropping histories and environmental conditions. Microb. Ecol 68: 794-806. DOI |
26 | Sanchez-Maranon M, Miralles I, Aguirre-Garrido JF, Anguita-Maeso M, Millan V, Ortega R, et al. 2017. Changes in the soil bacterial community along a pedogenic gradient. Sci. Rep. 7: 14593. DOI |
27 | Meng X, Liu B, Zhang H, Wu J, Yuan X, Cui Z. 2019. Co-composting of the biogas residues and spent mushroom substrate: physicochemical properties and maturity assessment. Bioresour. Technol. 276: 281-287. DOI |
28 | Marques E, Martos ET, Souza RJ, Silva R, Zied DC, Souza DE. 2014. Spent mushroom compost as a substrate for the production of lettuce seedlings. J. Agric. Sci. 6: 7. |
29 | Naveed M, Tanvir B, Xiukang W, Brtnicky M, Ditta A, Kucerik J, et al. 2021. Co-composted biochar enhances growth, physiological, and phytostabilization efficiency of brassica napus and reduces associated health risks under chromium stress. Front. Plant Sci. 12: 775785. DOI |
30 | Bengough AG, Loades K, McKenzie BM. 2016. Root hairs aid soil penetration by anchoring the root surface to pore walls. EXBOTJ 67: 1071-1078. DOI |
31 | Kulcu R, Yaldiz O. 2007. Composting of goat manure and wheat straw using pine cones as a bulking agent. Bioresour. Technol. 98: 2700-2704. DOI |
32 | Cassman NA, Leite MFA, Pan Y, de Hollander M, van Veen JA, Kuramae EE. 2016. Plant and soil fungal but not soil bacterial communities are linked in long-term fertilized grassland. Sci. Rep. 6: 23680. DOI |
33 | Barrios E. 2007. Soil biota, ecosystem services and land productivity. Ecol. Econ. 64: 269-285. DOI |
34 | Wu W, Logares R, Huang B, Hsieh C. 2017. Abundant and rare picoeukaryotic sub-communities present contrasting patterns in the epipelagic waters of marginal seas in the northwestern Pacific Ocean. Environ. Microbiol. 19: 287-300. DOI |
35 | Jiao S, Lu Y. 2020. Soil pH and temperature regulate assembly processes of abundant and rare bacterial communities in agricultural ecosystems. Environ. Microbiol. 22: 1052-1065. DOI |
36 | Li G, Wu M, Li P, Wei S, Liu J, Jiang C, et al. 2021. Assembly and co-occurrence patterns of rare and abundant bacterial subcommunities in rice rhizosphere soil under short-term nitrogen deep placement. J. Integr. Agric. 20: 3299-3311. DOI |
37 | Wagg C, Bender SF, Widmer F, van der Heijden MGA. 2014. Soil biodiversity and soil community composition determine ecosystem multifunctionality. Proc. Natl. Acad. Sci. USA 111: 5266-5270. DOI |
38 | Ma J, Chen Y, Wang H, Wang H, Wu J, Su C, et al. 2020. Newly created farmland should be artificially ameliorated to sustain agricultural production on the loess plateau. Land Degrad. Dev. 31: 265-2576. |
39 | Romdhane L, Ebinezer LB, Panozzo A, Barion G, Dal Cortivo C, Radhouane L, et al. 2021. Effects of soil amendment with wood ash on transpiration, growth, and metal uptake in two contrasting maize (Zea mays L.) hybrids to drought tolerance. Front. Plant Sci. 12: 661909. DOI |
40 | Chang F, Jia F, Lv R, Zhen L, Li Y, Wang Y. 2020. Changes in structure and function of bacterial and fungal communities in open composting of Chinese herb residues. Can. J. Microbiol. 66: 194-205. DOI |
41 | Qu B, Liu Y, Sun X, Li S, Wang X, Xiong K, et al. 2019. Effect of various mulches on soil physico - chemical properties and tree growth (Sophora japonica) in urban tree pits. PLoS One 14: e0210777. DOI |
42 | Bradstreet RB. 1954. Kjeldahl method for organic nitrogen. Anal. Chem. 26: 185-187. DOI |
43 | Wolf AM, Baker DE. 1985. Comparisons of soil test phosphorus by Olsen, Bray P1, Mehlich I and Mehlich III methods. Commun. Soil Sci. Plant Anal. 16: 467-484. DOI |
44 | Murphy J, Riley JP. 1962. A modified single solution method for the determination of phosphate in natural waters. Anal. Chim. Acta 27: 31-36. DOI |
45 | Visioli G, Sanangelantoni AM, Vamerali T, Dal Cortivo C, Blandino M. 2018. 16S rDNA profiling to reveal the influence of seed-applied biostimulants on the rhizosphere of young maize plants. Molecules 23: 1461. DOI |
46 | Chen L, Jiang Y, Liang C, Luo Y, Xu Q, Han C, et al. 2019. Competitive interaction with keystone taxa induced negative priming under biochar amendments. Microbiome 7: 77. DOI |
47 | Brown SP, Grillo MA, Podowski JC, Heath KD. 2020. Soil origin and plant genotype structure distinct microbiome compartments in the model legume Medicago truncatula. Microbiome 8: 139. DOI |
48 | Su C-C, Ma J-F, Chen Y-P. 2019. Biochar can improve the soil quality of new creation farmland on the loess plateau. Environ. Sci. Pollut. Res. 26: 2662-2670. DOI |
49 | Reichel R, Wei J, Islam MS, Schmid C, Wissel H, Schroder P, et al. 2018. Potential of wheat straw, spruce sawdust, and lignin as high organic carbon soil amendments to improve agricultural nitrogen retention capacity: an incubation study. Front. Plant Sci. 9: 900. DOI |
50 | Takahashi S, Tomita J, Nishioka K, Hisada T, Nishijima M. 2014. Development of a prokaryotic universal primer for simultaneous analysis of bacteria and archaea using next-generation sequencing. PLoS One 9: e105592. DOI |
51 | Niu W, Chen H, Wu J. 2021. Soil moisture and soluble salt content dominate changes in foliar δ13C and δ15N of desert communities in the Qaidam Basin, Qinghai-Tibetan plateau. Front. Plant Sci. 12: 1411. |
52 | Wang Q, Garrity GM, Tiedje JM, Cole JR. 2007. Naive bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy. AEM 73: 5261-5267. DOI |
53 | Dhariwal A, Chong J, Habib S, King IL, Agellon LB, Xia J. 2017. MicrobiomeAnalyst: a web-based tool for comprehensive statistical, visual and meta-analysis of microbiome data. Nucleic Acids Res. 45: W180-W188. DOI |
54 | Lauber CL, Ramirez KS, Aanderud Z, Lennon J, Fierer N. 2013. Temporal variability in soil microbial communities across land-use types. ISME J. 7: 1641-1650. DOI |
55 | Jousset A, Bienhold C, Chatzinotas A, Gallien L, Gobet A, Kurm V, et al. 2017. Where less may be more: how the rare biosphere pulls ecosystems strings. ISME J. 11: 853-862. DOI |
56 | Murphy BW. 2015. Impact of soil organic matter on soil properties - a review with emphasis on Australian soils. Soil Res. 53: 605. DOI |
57 | Perez-Jaramillo JE, de Hollander M, Ramirez CA, Mendes R, Raaijmakers JM, Carrion VJ. 2019. Deciphering rhizosphere microbiome assembly of wild and modern common bean (Phaseolus vulgaris) in native and agricultural soils from Colombia. Microbiome 7: 114. DOI |
58 | Oelofse M, Markussen B, Knudsen L, Schelde K, Olesen JE, Jensen LS, et al. 2015. Do soil organic carbon levels affect potential yields and nitrogen use efficiency? An analysis of winter wheat and spring barley field trials. Eur. J. Agro. 66: 62-73. DOI |
59 | Bonilla N, Vida C, Martinez-Alonso M, Landa BB, Gaju N, Cazorla FM, et al. 2015. Organic amendments to avocado crops induce suppressiveness and influence the composition and activity of soil microbial communities. Appl. Environ. Microbiol. 81: 3405-3418. DOI |
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