• 沒有找到結果。

Abuzinadah, R. A., & Read, D. J. (1986). The Role Of Proteins In The Nitrogen Nutrition Of Ectomycorrhizal Plants. I. Utilization Of Peptides And Proteins By Ectomycorrhizal Fungi. New Phytologist, 103(3), 481–493. https://doi.org/10.1111/j.1469-8137.1986.tb02886.x

Adeyemo, O., & Onilude, A. (2018). Antimicrobial Potential of a Rare Actinomycete Isolated from Soil: Crossiella sp.-EK18. Journal of Advances in Microbiology, 11(2), 1-15.

https://doi.org/10.9734/jamb/2018/41989

Akiyama, K., Matsuzaki, K., & Hayashi, H. (2005). Plant sesquiterpenes induce hyphal branching in arbuscular mycorrhizal fungi. Nature, 435(7043), 824-827. https://doi.org/10.1038/nature03608

Bailey, V. L., Bilskis, C. L., Fansler, S. J., Mccue, L. A., Smith, J. L., & Konopka, A. (2012).

Measurements of microbial community activities in individual soil macroaggregates. Soil Biology and Biochemistry, 48, 192–195. https://doi.org/10.1016/j.soilbio.2012.01.004

Bailey, V. L., Mccue, L. A., Fansler, S. J., Boyanov, M. I., Decarlo, F., Kemner, K. M., & Konopka, A.

(2013). Micrometer-scale physical structure and microbial composition of soil macroaggregates. Soil Biology and Biochemistry, 65, 60–68. https://doi.org/10.1016/j.soilbio.2013.02.005

Barka, E. A., Vatsa, P., Sanchez, L., Gaveau-Vaillant, N., Jacquard, C., & Meier-Kolthoff, J. P. et al.

(2016). Correction for Barka et al., Taxonomy, Physiology, and Natural Products of Actinobacteria.

Microbiology and Molecular Biology Reviews, 80(4), 1-43, Iii-Iii. https://doi.org/10.1128/mmbr.00044-16

Beneduzi, A., Ambrosini, A., & Passaglia, L. M. (2012). Plant growth-promoting rhizobacteria (PGPR): Their potential as antagonists and biocontrol agents. Genetics and Molecular Biology, 35(4 suppl 1), 1044-1051. https://doi.org/10.1590/s1415-47572012000600020

Berg, G., & Smalla, K. (2009). Plant species and soil type cooperatively shape the structure and function of microbial communities in the rhizosphere. FEMS Microbiology Ecology, 68(1), 1–13.

https://doi.org/10.1111/j.1574-6941.2009.00654.x

Cavender-Bares, J., Keen, A., & Miles, B. (2006). Phylogenetic Structure Of Floridian Plant

Communities Depends On Taxonomic And Spatial Scale. Ecology, 87(sp7), S109-S122. https://doi.org/

10.1890/0012-9658(2006)87[109:psofpc]2.0.co;2

46

Chang, C.-W., Huang, B.-H., Lin, S.-M., Huang, C.-L., & Liao, P.-C. (2016). Changes of diet and dominant intestinal microbes in farmland frogs. BMC Microbiology, 16(1), 1-13.

https://doi.org/10.1186/s12866-016-0660-4

Chase, J., & Leibold, M. (2003). Ecological Niches: Linking Classical and Contemporary Approaches (Interspecific interactions). University of Chicago Press.

Chazdon, R. L., Chao, A., Colwell, R. K., Lin, S.-Y., Norden, N., & Letcher, S. G. et al. (2011). A novel statistical method for classifying habitat generalists and specialists. Ecology, 92(6), 1332–1343.

https://doi.org/10.1890/10-1345.1

Chiang, Y.-C., Huang, B.-H., & Liao, P.-C. (2012). Diversification, Biogeographic Pattern, and Demographic History of Taiwanese Scutellaria Species Inferred from Nuclear and Chloroplast DNA.

PLoS ONE, 7(11), e50844. https://doi.org/10.1371/journal.pone.005084

Clarke, K. (1993). Non-parametric multivariate analyses of changes in community structure. Austral Ecology, 18(1), pp.117-143. https://doi.org/10.1111/j.1442-9993.1993.tb00438.x

Curd, E. E., Martiny, J. B. H., Li, H., & Smith, T. B. (2018). Bacterial diversity is positively correlated with soil heterogeneity. Ecosphere, 9(1), e02079. https://doi.org/10.1002/ecs2.2079

Delgado-Baquerizo, M., Oliverio, A. M., Brewer, T. E., Benavent-González, A., Eldridge, D. J., Bardgett, R. D. et al. (2018). A global atlas of the dominant bacteria found in soil. Science, 359(6373), 320–325. https://doi.org/10.1126/science.aap9516

DeLong, E., & Rosenberg, E. (2014). The Prokaryotes. Springer Reference.

Erlandson, S., Wei, X., Savage, J., Cavender-Bares, J., & Peay, K. (2018). Soil abiotic variables are more important than Salicaceae phylogeny or habitat specialization in determining soil microbial community structure. Molecular Ecology, 27(8), 2007–2024. https://doi.org/10.1111/mec.14576

Freilich, S., Zarecki, R., Eilam, O., Segal, E. S., Henry, C. S., & Kupiec, M. et al. (2011). Competitive and cooperative metabolic interactions in bacterial communities. Nature Communications, 2(1), 589.

https://doi.org/10.1038/ncomms1597

Hashem, A., Tabassum, B., & Abd_Allah, E. F. (2019). Bacillus subtilis: A plant-growth promoting rhizobacterium that also impacts biotic stress. Saudi Journal of Biological Sciences, 26(6), 1291–1297.

https://doi.org/10.1016/j.sjbs.2019.05.004

47

Heino, J., Melo, A. S., & Bini, L. M. (2014). Reconceptualising the beta diversity-environmental heterogeneity relationship in running water systems. Freshwater Biology, 60(2), 223–235.

https://doi.org/10.1111/fwb.12502

Huang, B.-H., Huang, C.-W., Huang, C.-L., & Liao, P.-C. (2017). Continuation of the genetic divergence of ecological speciation by spatial environmental heterogeneity in island endemic plants.

Scientific Reports, 7(1), 5465. https://doi.org/10.1038/s41598-017-05900-1

Huang, B.-H., Chang, C.-W., Huang, C.-W., Gao, J., & Liao, P.-C. (2018). Composition and Functional Specialists of the Gut Microbiota of Frogs Reflect Habitat Differences and Agricultural Activity.

Frontiers in Microbiology, 8, 2670. https://doi.org/10.3389/fmicb.2017.02670

Hutchison, L. J. (1990). Studies on the systematics of ectomycorrhizal fungi in axenic culture. II. The enzymatic degradation of selected carbon and nitrogen compounds. Canadian Journal of Botany, 68(7), 1522–1530. https://doi.org/10.1139/b90-194

Ivanova, A. A., Zhelezova, A. D., Chernov, T. I., & Dedysh, S. N. (2020). Linking ecology and systematics of acidobacteria: Distinct habitat preferences of the Acidobacteriia and Blastocatellia in tundra soils. Plos One, 15(3), e0230157. https://doi.org/10.1371/journal.pone.0230157

Jaiswal, S. K., & Dakora, F. D. (2019). Widespread Distribution of Highly Adapted Bradyrhizobium Species Nodulating Diverse Legumes in Africa. Frontiers in Microbiology, 10, 310.

https://doi.org/10.3389/fmicb.2019.00310

Jangid, K., Williams, M. A., Franzluebbers, A. J., Schmidt, T. M., Coleman, D. C., & Whitman, W. B.

(2011). Land-use history has a stronger impact on soil microbial community composition than aboveground vegetation and soil properties. Soil Biology and Biochemistry, 43(10), 2184–2193.

https://doi.org/10.1016/j.soilbio.2011.06.022

Janssen, P. H. (2006). Identifying the Dominant Soil Bacterial Taxa in Libraries of 16S rRNA and 16S rRNA Genes. Applied and Environmental Microbiology, 72(3), 1719–1728.

https://doi.org/ 10.1128/aem.72.3.1719-1728.2006

Jombart, T. (2008). Package ‘adegenet’. Bioinforma. Appl. Note 24, 1403–1405.

https://doi.org/10.1093/bioinformatics/btn129

48

Jurburg, S. D., Natal-Da-Luz, T., Raimundo, J., Morais, P. V., Sousa, J. P., Elsas, J. D., & Salles, J. F.

(2018). Bacterial communities in soil become sensitive to drought under intensive grazing. Science of The Total Environment, 618, 1638-1646. https://doi.org/10.1016/j.scitotenv.2017.10.012

Kubota, Y., Hirao, T., Fujii, S.-J., & Murakami, M. (2011). Phylogenetic beta diversity reveals historical effects in the assemblage of the tree floras of the Ryukyu Archipelago. Journal of Biogeography, 38(5), 1006–1008. https://doi.org/10.1111/j.1365-2699.2011.02491.x

Kubota, Y., Hirao, T., Fujii, S.-J., Shiono, T., & Kusumoto, B. (2014). Beta diversity of woody plants in the Japanese archipelago: the roles of geohistorical and ecological processes. Journal of Biogeography, 41(7), 1267–1276. https://doi.org/10.1111/jbi.12290

Kubota, Y., Shiono, T., & Kusumoto, B. (2014). Role of climate and geohistorical factors in driving plant richness patterns and endemicity on the east Asian continental islands. Ecography, 38(6), 639–

648. https://doi.org/10.1111/ecog.00981

Lange, M., Habekost, M., Eisenhauer, N., Roscher, C., Bessler, H., & Engels, C. et al. (2014). Biotic and Abiotic Properties Mediating Plant Diversity Effects on Soil Microbial Communities in an Experimental Grassland. PLoS ONE, 9(5), e96182. https//doi.org/ 10.1371/journal.pone.0096182

Lee, H., Kim, D., Lee, S., Park, S., Yoon, J., Seong, C. N., & Ka, J. (2017). Reyranella terrae sp. nov., isolated from an agricultural soil, and emended description of the genus Reyranella. International Journal of Systematic and Evolutionary Microbiology, 67(6), 2031-2035.

https://doi.org/10.1099/ijsem.0.001913

Leff, J. W., Jones, S. E., Prober, S. M., Barberán, A., Borer, E. T., & Firn, J. L et al. (2015). Consistent responses of soil microbial communities to elevated nutrient inputs in grasslands across the globe.

Proceedings of the National Academy of Sciences, 112(35), 10967–10972.

https://doi.org.10.1073/pnas.1508382112

Li, H., Xu, Z., Yan, Q., Yang, S., Nostrand, J. D. V., & Wang, Z. et al. (2017). Soil microbial beta-diversity is linked with compositional variation in aboveground plant biomass in a semi-arid grassland.

Plant and Soil, 423(1-2), 465–480. https://doi.org/10.1007/s11104-017-3524-2

Lundberg, D. S., Lebeis, S. L., Paredes, S. H., Yourstone, S., Gehring, J., & Malfatti, S. et al. (2012).

Defining the core Arabidopsis thaliana root microbiome. Nature, 488(7409), 86–90.

https://doi.org/10.1038/nature11237

49

Lynch, M. D. J., & Neufeld, J. D. (2015). Ecology and exploration of the rare biosphere. Nature Reviews Microbiology, 13(4), 217–229. https://doi.org/10.1038/nrmicro3400

Macarthur, R. H., & Macarthur, J. W. (1961). On Bird Species Diversity. Ecology, 42(3), 594–598.

https://doi.org/10.2307/1932254

Maestre, F. T., Delgado-Baquerizo, M., Jeffries, T. C., Eldridge, D. J., Ochoa, V., & Gozalo, B. et al.

(2015). Increasing aridity reduces soil microbial diversity and abundance in global drylands.

Proceedings of the National Academy of Sciences, 112(51), 15684–15689.

https://doi.org/ 10.1073/pnas.1516684112

Mayfield, M. M., & Levine, J. M. (2010). Opposing effects of competitive exclusion on the phylogenetic structure of communities. Ecology Letters, 13(9), 1085–1093. https://doi.org/

10.1111/j.1461-0248.2010.01509.x

McArdle, B. and Anderson, M., (2001). Fitting Multivariate Models To Community Data: A Comment On Distance-Based Redundncy Analysis. Ecology, 82(1), pp.290-297. https://doi.org/10.1890/0012-9658(2001)082[0290:FMMTCD]2.0.CO;2

Mendes, L. W., Kuramae, E. E., Navarrete, A. A., Veen, J. A., & Tsai, S. M. (2014). Taxonomical and functional microbial community selection in soybean rhizosphere. The ISME Journal, 8(8), 1577-1587.

https://doi.org/10.1038/ismej.2014.17

Montecchia, M. S., Tosi, M., Soria, M. A., Vogrig, J. A., Sydorenko, O., & Correa, O. S. (2015).

Pyrosequencing Reveals Changes in Soil Bacterial Communities after Conversion of Yungas Forests to Agriculture. Plos One, 10(3), e0119426. https://doi.org/10.1371/journal.pone.0119426

Navarrete, A. A., Kuramae, E. E., Hollander, M. D., Pijl, A. S., Veen, J. A., & Tsai, S. M. (2012).

Acidobacterial community responses to agricultural management of soybean in Amazon forest soils.

FEMS Microbiology Ecology, 83(3), 607-621. https://doi.org/10.1111/1574-6941.12018

Oksanen, J., Blanchet, F. G., Kindt, R., Legendre, P., Minchin, P. R., O’Hara, R. et al. (2013). Package

‘Vegan’. Community Ecology Package, Version 2(9), 1-295. Available at: http://CRAN.R-project.org/package=vegan

Papaioannou, T. and Hsu, J., (1997). Multiple Comparisons: Theory and Methods. Biometrics, 53(4), p.1561. https://doi.org/10.2307/2533528

50

Parsley, L. C., Linneman, J., Goode, A. M., Becklund, K., George, I., & Goodman, R. M. et al. (2011).

Polyketide synthase pathways identified from a metagenomic library are derived from soil Acidobacteria. FEMS Microbiology Ecology, 78(1), 176-187. https://doi.org/10.1111/j.1574-6941.2011.01122.x

Pfeiffer, S., Mitter, B., Oswald, A., Schloter-Hai, B., Schloter, M., Declerck, S., & Sessitsch, A. (2016).

Rhizosphere microbiomes of potato cultivated in the High Andes show stable and dynamic core microbiomes with different responses to plant development. FEMS Microbiology Ecology, 93(2), fiw242. https://doi.org/10.1093/femsec/fiw242

Phoenix, G. K., Johnson, D. A., Muddimer, S. P., Leake, J. R., & Cameron, D. D. (2020). Niche differentiation and plasticity in soil phosphorus acquisition among co-occurring plants. Nature Plants, 6(4), 349–354. https://doi.org/10.1038/s41477-020-0624-4

Raaijmakers, J. M., Paulitz, T. C., Steinberg, C., Alabouvette, C., & Moënne-Loccoz, Y. (2008). The rhizosphere: a playground and battlefield for soilborne pathogens and beneficial microorganisms. Plant and Soil, 321(1-2), 341–361. https//doi.org/10.1007/s11104-008-9568-6

Radhakrishnan, R., Hashem, A., & Abd_Allah, E. F. (2017). Bacillus: A Biological Tool for Crop Improvement through Bio-Molecular Changes in Adverse Environments. Frontiers in Physiology, 8, 667. https://doi.org/10.3389/fphys.2017.00667

Ranjani, A., Dhanasekaran, D., & Gopinath, P. (2020). An Introduction to Actinobacteria. Retrieved 17 August 2020, from. https://www.intechopen.com/books/actinobacteria-basics-and-biotechnological-applications/an-introduction-to-actinobacteria

Ratzke, C., & Gore, J. (2018). Modifying and reacting to the environmental pH can drive bacterial interactions. PLOS Biology, 16(3), e2004248. https://doi.org/10.1371/journal.pbio.2004248

Schlaeppi, K., Dombrowski, N., Oter, R. G., Themaat, E. V. L. V., & Schulze-Lefert, P. (2013).

Quantitative divergence of the bacterial root microbiota in Arabidopsis thaliana relatives. Proceedings of the National Academy of Sciences, 111(2), 585–592. https://doi.org/10.1073/pnas.1321597111

Schneider, K., Migge, S., Norton, R. A., Scheu, S., Langel, R., Reineking, A., & Maraun, M. (2004).

Trophic niche differentiation in soil microarthropods (Oribatida, Acari): evidence from stable isotope ratios (15N/14N). Soil Biology and Biochemistry, 36(11), 1769–1774.

https://doi.org/10.1016/j.soilbio.2004.04.033

51

Schreiter, S., Ding, G., Heuer, H., Neumann, G., Sandmann, M., & Grosch, R. et al. (2014). Effect of the soil type on the microbiome in the rhizosphere of field-grown lettuce. Frontiers in Microbiology, 5, 144. https://doi.org/10.3389/fmicb.2014.00144

Sharma, R., John, S. J., Damgaard, D. M., & Mcallister, T. A. (2003). Extraction of PCR-Quality Plant and Microbial DNA from Total Rumen Contents. Biotechniques, 34(1), 92–97.

https://doi.org/10.2144/03341st06

Smith, A., Marín-Spiotta, E., Graaff, M. D., & Balser, T. (2014). Microbial community structure varies across soil organic matter aggregate pools during tropical land cover change. Soil Biology and

Biochemistry, 77, 292–303. https://doi.org/10.1016/j.soilbio.2014.05.030

Stackebrandt, E., & Goebel, B. M. (1994). Taxonomic Note: A Place for DNA-DNA Reassociation and 16S rRNA Sequence Analysis in the Present Species Definition in Bacteriology. International Journal of Systematic and Evolutionary Microbiology, 44(4), 846–849. https://doi.org/10.1099/00207713-44-4-846

Stein, A., Gerstner, K., & Kreft, H. (2014). Environmental heterogeneity as a universal driver of species richness across taxa, biomes and spatial scales. Ecology Letters, 17(7), 866–880. https://doi.org/

10.1111/ele.12277

Tasnim, N., Abulizi, N., Pither, J., Hart, M. M., & Gibson, D. L. (2017). Linking the Gut Microbial Ecosystem with the Environment: Does Gut Health Depend on Where We Live? Frontiers in Microbiology, 8, 1935. https://doi.org/10.3389/fmicb.2017.01935

Trivedi, C., Reich, P. B., Maestre, F. T., Hu, H.-W., Singh, B. K., & Delgado-Baquerizo, M. (2019).

Plant-driven niche differentiation of ammonia-oxidizing bacteria and archaea in global drylands. The ISME Journal, 13(11), 2727–2736. https://doi.org/10.1038/s41396-019-0465-1

Walters, W. A., Jin, Z., Youngblut, N., Wallace, J. G., Sutter, J., & Zhang, W. et al. (2018). Large-scale replicated field study of maize rhizosphere identifies heritable microbes. Proceedings of the National Academy of Sciences, 115(28), 7368-7373. https://doi.org/10.1073/pnas.1800918115

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. Scientific Reports, 7(1), 343. https://doi.org/10.1038/s41598-017-00472-6

52

Ward, N. L., Challacombe, J. F., Janssen, P. H., Henrissat, B., Coutinho, P. M., & Wu, M. et al. (2009).

Three Genomes from the Phylum Acidobacteria Provide Insight into the Lifestyles of These Microorganisms in Soils. Applied and Environmental Microbiology, 75(7), 2046-2056.

https://doi.org/10.1128/aem.02294-08

Whittaker, R. H. (1960). Vegetation of the Siskiyou Mountains, Oregon and California. Ecological Monographs, 30(4), 407–407. https://doi.org/10.2307/1948435

Wu, S.-H., Huang, B.-H., Huang, C.-L., Li, G., & Liao, P.-C. (2017). The Aboveground Vegetation Type and Underground Soil Property Mediate the Divergence of Soil Microbiomes and the Biological Interactions. Microbial Ecology, 75(2), 434–446. https://doi.org/10.1007/s00248-017-1050-7

Zelezniak, A., Andrejev, S., Ponomarova, O., Mende, D. R., Bork, P., & Patil, K. R. (2015). Metabolic dependencies drive species co-occurrence in diverse microbial communities. Proceedings of the National Academy of Sciences, 112(20), 6449–6454. https://doi.org/10.1073/pnas.1421834112

Zhalnina, K., Louie, K. B., Hao, Z., Mansoori, N., Rocha, U. N. D., & Shi, S. et al. (2018). Dynamic root exudate chemistry and microbial substrate preferences drive patterns in rhizosphere microbial community assembly. Nature Microbiology, 3(4), 470–480. https://doi.org/10.1038/s41564-018-0129-3

Zhou, D., Zhang, H., Bai, Z., Zhang, A., Bai, F., & Luo, X. et al. (2015). Exposure to soil, house dust and decaying plants increases gut microbial diversity and decreases serum immunoglobulin E levels in BALB/c mice. Environmental Microbiology, 18(5), 1326–1337.

https://doi.org/10.1111/1462-2920.12895

行政院農業委員會農業試驗所(2016)。土壤資料供應查詢平台。行政院農業委員會,農業試驗 所https://tssurgo.tari.gov.tw/Tssurgo/

相關文件