Spectroscopy-based isotopic (δ13C) analysis for high spatial resolution of carbon exchange in the rhizosphere

Adhikari, 2016, Linking soils to ecosystem services - a global review, Geoderma, 262, 101, 10.1016/j.geoderma.2015.08.009 Bais, 2006, The role of root exudates in rhizosphere interations with plants and other organisms, Annu. Rev. Plant Biol., 57, 233, 10.1146/annurev.arplant.57.032905.105159 Bakker, 2013, The rhizosphere revisited: root microbiomics, Front. Plant Sci., 4, 165, 10.3389/fpls.2013.00165 Bilyera, 2020, How "hot" are hotspots: statistically localizing the high-activity areas on soil and rhizosphere images, Rhizosphere, 16, 10.1016/j.rhisph.2020.100259 Bledt, 2012, Loss and modal properties of Ag/AgI hollow glass waveguides, Appl. Opt., 51, 3114, 10.1364/AO.51.003114 Blossfeld, 2013, Quantitative imaging of rhizosphere pH and CO2 dynamics with planar optodes, Ann Bot-London, 112, 267, 10.1093/aob/mct047 Bruneau, 2002, Determination of rhizosphere 13C pulse signals in soil thin sections by laser ablation isotope ratio mass spectrometry, Rapid Commun. Mass Spectrom., 16, 2190, 10.1002/rcm.740 Cardon, 2006, Resource exchange in the rhizosphere: molecular tools and the microbial perspective, Annu. Rev. Ecol. Evol. Syst., 37, 459, 10.1146/annurev.ecolsys.37.091305.110207 de Vrieze, 2015, The littlest farmhands, Science, 349, 680, 10.1126/science.349.6249.680 Denis, 2019, Spatially tracking carbon through the root-rhizosphere-soil system using laser ablation-IRMS, J. Plant Nutr. Soil Sci., 182, 401, 10.1002/jpln.201800301 Dennis, 2010, Are root exudates more important than other sources of rhizodeposits in structuring rhizosphere bacterial communities?, FEMS Microbiol. Ecol., 72, 313, 10.1111/j.1574-6941.2010.00860.x Gordon, 2017, The HITRAN2016 molecular spectroscopic database, J Quant Spectrosc Ra, 203, 3, 10.1016/j.jqsrt.2017.06.038 Grieve, 2006, Spatial heterogeneity in the relocation of added 13C within the structure of an upland grassland soil, Soil Biol. Biochem., 38, 229, 10.1016/j.soilbio.2005.04.035 Guber, 2018, Quantitative soil zymography: mechanisms, processes of substrate and enzyme diffusion in porous media, Soil Biol. Biochem., 127, 156, 10.1016/j.soilbio.2018.09.030 Hafner, 2014, Spatial distribution and turnover of root-derived carbon in alfalfa rhizosphere depending on top- and subsoil properties and mycorrhization, Plant Soil Environ., 380, 101, 10.1007/s11104-014-2059-z Haichar, 2014, Root exudates mediated interactions belowground, Soil Biol. Biochem., 77, 69, 10.1016/j.soilbio.2014.06.017 Harrington, 2000, A review of IR transmitting, hollow waveguides, Fiber Integrated Opt., 19, 211, 10.1080/01468030050058794 Hartmann, 2008, Lorenz Hiltner, a pioneer in rhizosphere microbial ecology and soil bacteriology research, Plant Soil, 312, 7, 10.1007/s11104-007-9514-z Herrmann, 2007, Nano-scale secondary ion mass spectrometry—a new analytical tool in biogeochemistry and soil ecology: a review article, Soil Biol. Biochem., 39, 1835, 10.1016/j.soilbio.2007.03.011 Hinsinger, 2003, Origins of root-mediated pH changes in the rhizosphere and their responses to environmental constraints: a review, Plant Soil, 248, 43, 10.1023/A:1022371130939 Holz, 2018 Ilhardt, 2019, High-resolution elemental mapping of the root-rhizosphere-soil continuum using laser-induced breakdown spectroscopy (LIBS), Soil Biol. Biochem., 131, 119, 10.1016/j.soilbio.2018.12.029 Jones, 2008, The rhizosphere: complex by design, Plant Soil, 312, 1, 10.1007/s11104-008-9774-2 Jones, 2009, Carbon flow in the rhizosphere: carbon trading at the soil–root interface, Plant Soil, 321, 5, 10.1007/s11104-009-9925-0 Kaiser, 2015, Exploring the transfer of recent plant photosynthates to soil microbes: mycorrhizal pathway vs direct root exudation, New Phytol., 205, 1537, 10.1111/nph.13138 Kelly, 2012, A capillary absorption spectrometer for stable carbon isotope ratio (C-13/C-12) analysis in very small samples, Rev. Sci. Instrum., 83, 10.1063/1.3680593 Kiser, 2008, Exploring the transport of plant metabolites using positron emitting radiotracers, HFSP J., 2, 189, 10.2976/1.2921207 Kriesel, 2017, Versatile, ultra-low sample volume gas analyzer using a rapid, broad tuning ECQCL and a hollow fiber gas cell, Proc. SPIE, 10210 Kriesel, 2020, Hollow fiber mid-IR spectrometer with UV laser ablation sampling for fine spatial resolution of isotope ratios in solids, Quant. Sens. Nano Electr. Photon., XVII, 10.1117/12.2546908 Kuzyakov, 2015, Microbial hotspots and hot moments in soil: concept & review, Soil Biol. Biochem., 83, 184, 10.1016/j.soilbio.2015.01.025 Kuzyakov, 2000, Carbon input by plants into the soil. Review, J. Plant Nutr. Soil Sci., 163, 421, 10.1002/1522-2624(200008)163:4<421::AID-JPLN421>3.0.CO;2-R Lambers, 2009, Plant-microbe-soil interactions in the rhizosphere: an evolutionary perspective, Plant Soil, 321, 83, 10.1007/s11104-009-0042-x Lenzewski, 2018, Dynamics of oxygen and carbon dioxide in rhizospheres of Lobelia dortmanna - a planar optode study of belowground gas exchange between plants and sediment, New Phytol., 218, 131, 10.1111/nph.14973 Ma, 2018, Spatiotemporal patterns of enzyme activities in the rhizosphere: effects of plant growth and root morphology, Biol. Fertil. Soils, 54, 819, 10.1007/s00374-018-1305-6 Macabuhay, 2022, Modulators or facilitators? Roles of lipids in plant root-microbe interactions, Trends Plant Sci., 27, 180, 10.1016/j.tplants.2021.08.004 Mao, 2014, Enrichment of specific bacterial and eukaryotic microbes in the rhizosphere of switchgrass (Panicum virgatum L.) through root exudates, Environ Microbiol Rep, 6, 293, 10.1111/1758-2229.12152 Marschner, 2011, Rhizosphere interactions between microorganisms and plants govern iron and phosphorus acquisition along the root axis - model and research methods, Soil Biol. Biochem., 43, 883, 10.1016/j.soilbio.2011.01.005 Moran, 2021, Comparison of methods for mapping rhizosphere processes in the context of their surrounding root and soil environments, Biotechniques, 71, 10.2144/btn-2021-0021 Moran, 2011, Laser ablation isotope ratio mass spectrometry for enhanced sensitivity and spatial resolution in stable isotope analysis, Rapid Commun. Mass Spectrom., 25, 1282, 10.1002/rcm.4985 Moran, 2014, Spatially tracking C-13-labelled substrate (bicarbonate) accumulation in microbial communities using laser ablation isotope ratio mass spectrometry, Environ Microbiol. Rep., 6, 786, 10.1111/1758-2229.12211 Moran, 2016, Soil carbon: compositional and isotopic analysis, 2073 Nguyen, 2003, Rhizodeposition of organic C by plants: mechanisms and controls, Agronomie, 23, 375, 10.1051/agro:2003011 Oburger, 2016, New methods to unravel rhizosphere processes, Trends Plant Sci., 21, 243, 10.1016/j.tplants.2015.12.005 Pausch, 2011, Photoassimilate allocation and dynamics of hotspots in roots visualized by 14C phosphor imaging, J. Plant Nutr. Soil Sci., 174, 12, 10.1002/jpln.200900271 Pausch, 2018, Carbon input by roots into the soil: quantification of rhizodeposition from root to ecosystem scale, Global Change Biol., 24, 1, 10.1111/gcb.13850 Pett-Ridge, 2017, Using stable isotopes to explore root-microbe-mineral interactions in soil, Rhizosphere, 3, 244, 10.1016/j.rhisph.2017.04.016 Philippot, 2013, Going back to the roots: the microbial ecology of the rhizosphere, Nat. Rev. Microbiol., 11, 789, 10.1038/nrmicro3109 Robertson, 2015, Long-term ecological research at the Kellogg biological station LTER site, 1 Rodionov, 2019, Spatial micro-analysis of natural 13C/12C abundance in environmental samples using laser-ablation isotope-ratio-mass spectrometry, Anal. Chem., 91, 6225, 10.1021/acs.analchem.9b00892 Ryan, 2009, Rhizosphere engineering and management for sustainable agriculture, Plant Soil, 321, 363, 10.1007/s11104-009-0001-6 Santos, 2012, Laser-induced breakdown spectroscopy for analysis of plant materials: a review, Spectrochim. Acta B, 71–72, 3, 10.1016/j.sab.2012.05.005 Sauer, 2006, Spatial distribution of root exudates of five plant species as assessed by14C labeling, J. Plant Nutr. Soil Sci., 169, 360, 10.1002/jpln.200621974 Song, 2019, Relationship between carbon mobilization and root growth measured by carbon-11 tracer in arabidopsis starch mutants, J. Plant Growth Regul., 38, 164, 10.1007/s00344-018-9824-9 Spohn, 2013, Soil zymography – a novel in situ method for mapping distribution of enzyme activity in soil, Soil Biol. Biochem., 58, 275, 10.1016/j.soilbio.2012.12.004 Starke, 2019, Using proteins to study how microbes contribute to soil ecosystem services: the current state and future perspectives of soil metaproteomics, J. Proteonomics, 198, 50, 10.1016/j.jprot.2018.11.011 Tian, 2020, Microbial growth and enzyme kinetics in rhizosphere hotspots are modulated by soil organics and nutrient availability, Soil Biol. Biochem., 141, 10.1016/j.soilbio.2019.107662 2011, Fact sheet for release of Cave-in-Rock switchgrass (Panicum virgatum L.) van Dam, 2016, Metabolomics in the rhizosphere: tapping into belowground chemical communication, Trends Plant Sci., 21, 256, 10.1016/j.tplants.2016.01.008 van Roij, 2017 Villarino, 2021, Plant rhizodeposition: a key factor for soil organic matter formation in stable fractions, Sci. Adv., 7, 10.1126/sciadv.abd3176 Walker, 2003, Root exudation and rhizosphere biology, Plant Physiol., 132, 44, 10.1104/pp.102.019661 Weller, 1988, Biological control of soilborne plant pathogens in the rhizosphere with bacteria, Annu. Rev. Phytopathol., 26, 379, 10.1146/annurev.py.26.090188.002115 White, 2017, The state of rhizospheric science in the era of multi-omics: a practical guide to omics technologies, Rhizosphere, 3, 212, 10.1016/j.rhisph.2017.05.003 York, 2016, The holistic rhizosphere: integrating zones, processes, and semantics in the soil influenced by roots, J. Exp. Bot., 67, 3629, 10.1093/jxb/erw108 Zhalnina, 2018, Dynamic root exudate chemistry and microbial substrate preferences drive patterns in rhizosphere microbial community assembly, Nat. Microbiol., 3, 470, 10.1038/s41564-018-0129-3 Zhang, 2015, Engineering the plant rhizosphere, Curr. Opin. Biotechnol., 32, 136, 10.1016/j.copbio.2014.12.006