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84 changes: 42 additions & 42 deletions paper/paper.bib
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@@ -1,6 +1,6 @@
@article{Adem1984,
author = {H. H. Adem and J. M. Tisdall and P. Willoughby},
title = {Tillage management changes the size-distribution of aggregates and macro-structure of soils used for irrigated row-crops},
title = {{Tillage} management changes the size-distribution of aggregates and macro-structure of soils used for irrigated row-crops},
journal = {Soil and Tillage Research},
volume = {4},
number = {6},
Expand All @@ -10,8 +10,8 @@ @article{Adem1984
}

@article{Bhattacharjee2022,
author = {A. Bhattacharjee and O. Qafoku and J. A. Richardson and L. N. Anderson and K. Schwarz et al.},
title = {A Mineral-Doped Micromodel Platform Demonstrates Fungal Bridging of Carbon Hot Spots and Hyphal Transport of Mineral-Derived Nutrients},
author = {A. Bhattacharjee and O. Qafoku and J. A. Richardson and L. N. Anderson and K. Schwarz and L. M. Bramer and G. Z. Lomas and D. J. Orton and Z. Zhu and M. H. Engelhard and M. E. Bowden and W. C. Nelson and A. Jumpponen and J. K. Jansson and K. S. Hofmockel and C. R. Anderton},
title = {{A} mineral-doped micromodel platform demonstrates fungal bridging of carbon hot spots and {Hyphal} transport of mineral-derived nutrients},
journal = {mSystems},
volume = {7},
number = {6},
Expand All @@ -22,7 +22,7 @@ @article{Bhattacharjee2022

@article{Bhattacharyya2018,
author = {A. Bhattacharyya and M. P. Schmidt and E. Stavitski and C. E. Martínez},
title = {Iron speciation in peats: Chemical and spectroscopic evidence for the co-occurrence of ferric and ferrous iron in organic complexes and mineral precipitates},
title = {{Iron} speciation in peats:~{Chemical} and spectroscopic evidence for the co-occurrence of ferric and ferrous iron in organic complexes and mineral precipitates},
journal = {Organic Geochemistry},
volume = {115},
pages = {124--137},
Expand All @@ -32,7 +32,7 @@ @article{Bhattacharyya2018

@article{Fan2021,
author = {W. Fan and P. Yang and Z. (Joey) Yang},
title = {Freeze-thaw impact on macropore structure of clay by 3D X-ray computed tomography},
title = {{Freeze-thaw} impact on macropore structure of clay by {3D} {X-ray} computed tomography},
journal = {Engineering Geology},
volume = {280},
pages = {105921},
Expand All @@ -42,7 +42,7 @@ @article{Fan2021

@article{Fasinmirin2018,
author = {J. T. Fasinmirin and I. E. Olorunfemi and F. Olakuleyin},
title = {Strength and hydraulics characteristics variations within a tropical Alfisol in Southwestern Nigeria under different land use management},
title = {Strength and hydraulics characteristics variations within a tropical {Alfisol} in {Southwestern} {Nigeria} under different land use management},
journal = {Soil and Tillage Research},
volume = {182},
pages = {45--56},
Expand All @@ -52,7 +52,7 @@ @article{Fasinmirin2018

@article{Feng2020,
author = {Y. Feng and J. Wang and Z. Bai and L. Reading and Z. Jing},
title = {Three-dimensional quantification of macropore networks of different compacted soils from opencast coal mine area using X-ray computed tomography},
title = {Three-dimensional quantification of macropore networks of different compacted soils from opencast coal mine area using {X-ray} computed tomography},
journal = {Soil and Tillage Research},
volume = {198},
pages = {104567},
Expand All @@ -73,7 +73,7 @@ @article{Ford2011

@article{Gostick2016,
author = {J. Gostick and M. Aghighi and J. Hinebaugh and T. Tranter and M. A. Hoeh and H. Day and B. Spellacy and M. H. Sharqawy and A. Bazylak and A. Burns and W. Lehnert},
title = {OpenPNM: a pore network modeling package},
title = {{OpenPNM}:~{A} pore network modeling package},
journal = {Computing in Science & Engineering},
volume = {18},
number = {4},
Expand All @@ -84,15 +84,15 @@ @article{Gostick2016

@article{Gostick2019,
author = {J. Gostick and Z. A. Khan and T. G. Tranter and M. D. R. Kok and M. Agnaou and M. A. Sadeghi and R. Jervis},
title = {PoreSpy: A Python Toolkit for Quantitative Analysis of Porous Media Images},
title = {{PoreSpy}:~{A} {Python} toolkit for quantitative analysis of porous media images},
journal = {Journal of Open Source Software},
year = {2019},
doi = {10.21105/joss.01296}
}

@article{Hirmas2018,
author = {D. R. Hirmas and D. Giménez and A. Nemes and R. Kerry and N. A. Brunsell et al.},
title = {Climate-induced changes in continental-scale soil macroporosity may intensify water cycle},
author = {D. R. Hirmas and D. Giménez and A. Nemes and R. Kerry and N. A. Brunsell and C. J. Wilson},
title = {{Climate-induced} changes in continental-scale soil macroporosity may intensify water cycle},
journal = {Nature},
volume = {561},
number = {7721},
Expand All @@ -103,7 +103,7 @@ @article{Hirmas2018

@article{deJonge2012,
author = {L. W. de Jonge and P. Moldrup and A. L. Vendelboe and M. Tuller and D. Wildenschild},
title = {Soil Architecture and Physicochemical Functions: An Introduction},
title = {{S}oil architecture and physicochemical functions:~{A}n introduction},
journal = {Vadose Zone Journal},
volume = {11},
number = {1},
Expand All @@ -114,7 +114,7 @@ @article{deJonge2012

@article{Kaiser2012,
author = {K. Kaiser and K. Kalbitz},
title = {Cycling downwards – dissolved organic matter in soils},
title = {{C}ycling downwards – dissolved organic matter in soils},
journal = {Soil Biology and Biochemistry},
volume = {52},
pages = {29--32},
Expand All @@ -124,7 +124,7 @@ @article{Kaiser2012

@article{Lacroix2021,
author = {E. M. Lacroix and R. J. Rossi and D. Bossio and S. Fendorf},
title = {Effects of moisture and physical disturbance on pore-scale oxygen content and anaerobic metabolisms in upland soils},
title = {{E}ffects of moisture and physical disturbance on pore-scale oxygen content and anaerobic metabolisms in upland soils},
journal = {Science of The Total Environment},
volume = {780},
pages = {146572},
Expand All @@ -133,8 +133,8 @@ @article{Lacroix2021
}

@article{Liu2021,
author = {B. Liu and H. Fan and W. Han and L. Zhu and X. Zhao et al.},
title = {Linking soil water retention capacity to pore structure characteristics based on X-ray computed tomography: Chinese Mollisol under freeze-thaw effect},
author = {B. Liu and H. Fan and W. Han and L. Zhu and X. Zhao and Y. Zhang and R. Ma},
title = {Linking soil water retention capacity to pore structure characteristics based on {X-ray} computed tomography:~{Chinese} {Mollisol} under freeze-thaw effect},
journal = {Geoderma},
volume = {401},
pages = {115170},
Expand All @@ -144,7 +144,7 @@ @article{Liu2021

@article{Liu2018,
author = {Z. Liu and D. Ma and W. Hu and X. Li},
title = {Land use dependent variation of soil water infiltration characteristics and their scale-specific controls},
title = {{L}and use dependent variation of soil water infiltration characteristics and their scale-specific controls},
journal = {Soil and Tillage Research},
volume = {178},
pages = {139--149},
Expand All @@ -154,7 +154,7 @@ @article{Liu2018

@article{Lovley1988,
author = {D. R. Lovley and E. J. P. Phillips},
title = {Novel Mode of Microbial Energy Metabolism: Organic Carbon Oxidation Coupled to Dissimilatory Reduction of Iron or Manganese},
title = {Novel mode of microbial energy metabolism:~{Organic} carbon oxidation coupled to dissimilatory reduction of {Iron} or {Manganese}},
journal = {Appl Environ Microbiol},
volume = {54},
number = {6},
Expand All @@ -175,7 +175,7 @@ @article{Ma2021

@article{deOliveira2022,
author = {J. A. T. de Oliveira and F. A. M. Cássaro and A. N. D. Posadas and L. F. Pires},
title = {Soil Pore Network Complexity Changes Induced by Wetting and Drying Cycles—A Study Using X-ray Microtomography and 3D Multifractal Analyses},
title = {Soil pore network complexity changes induced by wetting and drying cycles—{A} study using {X-ray} microtomography and {3D} multifractal analyses},
journal = {IJERPH},
volume = {19},
number = {17},
Expand All @@ -186,7 +186,7 @@ @article{deOliveira2022

@article{Raoof2010,
author = {A. Raoof and S. M. Hassanizadeh},
title = {A New Method for Generating Pore-Network Models of Porous Media},
title = {A new method for generating pore-network models of porous media},
journal = {Transp Porous Med},
volume = {81},
pages = {391--407},
Expand All @@ -195,7 +195,7 @@ @article{Raoof2010
}

@article{Rooney2022,
author = {E. C. Rooney and V. L. Bailey and K. F. Patel and M. Dragila and A. K. Battu et al.},
author = {E. C. Rooney and V. L. Bailey and K. F. Patel and M. Dragila and A. K. Battu and A. C. Buchko and A. C. Gallo,and J. Hatten and A. R. Possinger and O. Qafoku and L. R. Reno},
title = {Soil pore network response to freeze-thaw cycles in permafrost aggregates},
journal = {Geoderma},
volume = {411},
Expand All @@ -205,8 +205,8 @@ @article{Rooney2022
}

@article{Smith2017,
author = {A. P. Smith and B. Bond-Lamberty and B. W. Benscoter and M. M. Tfaily and C. R. Hinkle et al.},
title = {Shifts in pore connectivity from precipitation versus groundwater rewetting increases soil carbon loss after drought},
author = {A. P. Smith and B. Bond-Lamberty and B. W. Benscoter and M. M. Tfaily and C. R. Hinkle and C. Li and V. L. Bailey},
title = {{S}hifts in pore connectivity from precipitation versus groundwater rewetting increases soil carbon loss after drought},
journal = {Nat Commun},
volume = {8},
number = {1},
Expand All @@ -216,8 +216,8 @@ @article{Smith2017
}

@article{Smith2021,
author = {G. J. Smith and R. W. McDowell and L. M. Condron and K. Daly and D. Ó hUallacháin et al.},
title = {Reductive dissolution of phosphorus associated with iron‐oxides during saturation in agricultural soil profiles},
author = {G. J. Smith and R. W. McDowell and L. M. Condron and K. Daly and D. Ó hUallacháin and O. Fenton},
title = {{R}eductive dissolution of phosphorus associated with iron‐oxides during saturation in agricultural soil profiles},
journal = {Journal of Environmental Quality},
volume = {50},
number = {5},
Expand All @@ -227,8 +227,8 @@ @article{Smith2021
}

@article{Stieglitz2003,
author = {M. Stieglitz and J. Shaman and J. McNamara and V. Engel and J. Shanley et al.},
title = {An approach to understanding hydrologic connectivity on the hillslope and the implications for nutrient transport},
author = {M. Stieglitz and J. Shaman and J. McNamara and V. Engel and J. Shanley and G. W. Kling},
title = {{A}n approach to understanding hydrologic connectivity on the hillslope and the implications for nutrient transport},
journal = {Global Biogeochemical Cycles},
volume = {17},
number = {4},
Expand All @@ -238,7 +238,7 @@ @article{Stieglitz2003
}

@article{Stoof2016,
author = {C. R. Stoof and A. I. Gevaert and C. Baver and B. Hassanpour and V. L. Morales et al.},
author = {C. R. Stoof and A. I. Gevaert and C. Baver and B. Hassanpour and V. L. Morales and W. Zhang and D. Martin and S. K. Giri and T. S. Steenhuis},
title = {Can pore-clogging by ash explain post-fire runoff?},
journal = {International Journal of Wildland Fire},
volume = {25},
Expand All @@ -260,8 +260,8 @@ @article{Urbanek2013
}

@article{Wanzek2018,
author = {T. Wanzek and M. Keiluweit and T. Varga and A. Lindsley and P. S. Nico et al.},
title = {The Ability of Soil Pore Network Metrics to Predict Redox Dynamics is Scale Dependent},
author = {T. Wanzek and M. Keiluweit and T. Varga and A. Lindsley and P. S. Nico and S. Fendorf and M. Kleber},
title = {The ability of soil pore network metrics to predict redox dynamics is scale dependent},
journal = {Soil Systems},
volume = {2},
number = {4},
Expand All @@ -271,8 +271,8 @@ @article{Wanzek2018
}

@article{Waring2020,
author = {B. G. Waring and B. N. Sulman and S. Reed and A. P. Smith and C. Averill et al.},
title = {From pools to flow: The PROMISE framework for new insights on soil carbon cycling in a changing world},
author = {B. G. Waring and B. N. Sulman and S. Reed and A. P. Smith and C. Averill and C. A. Creamer and D. F. Cusack and S. J. Hall and J. D. Jastrow and A. Jilling and K. M. Kemner},
title = {{F}rom pools to flow:~{T}he {PROMISE} framework for new insights on soil carbon cycling in a changing world},
journal = {Global Change Biology},
volume = {26},
number = {12},
Expand All @@ -283,7 +283,7 @@ @article{Waring2020

@article{Dentz2023,
author = {M. Dentz and J. Hidalgo and D. Lester},
title = {Mixing in Porous Media: Concepts and Approaches Across Scales},
title = {Mixing in porous media:~{C}oncepts and approaches across scales},
journal = {Transport in Porous Media},
volume = {146},
number = {1--2},
Expand All @@ -304,7 +304,7 @@ @article{Oostrom2014

@inproceedings{New2024,
author = {A. New and A. S. Gearhart and R. A. Darragh and M. Villafañe-Delgado},
title = {Physics-informed neural networks for scientific modeling: uses, implementations, and directions},
title = {Physics-informed neural networks for scientific modeling:~{U}ses, implementations, and directions},
booktitle = {Artificial Intelligence and Machine Learning for Multi-Domain Operations Applications VI},
volume = {13051},
pages = {492--502},
Expand All @@ -315,7 +315,7 @@ @inproceedings{New2024

@article{Dobson2022,
author = {S. Dobson},
title = {epyc: Computational experiment management in Python},
title = {epyc:~{C}omputational experiment management in {Python}},
journal = {Journal of Open Source Software},
volume = {7},
number = {72},
Expand All @@ -337,7 +337,7 @@ @article{karadimitriou2012review
}

@article{anbari2018microfluidic,
title={Microfluidic model porous media: Fabrication and applications},
title={Microfluidic model porous media:~{F}abrication and applications},
author={Anbari, Alimohammad and Chien, Hung-Ta and Datta, Sujit S and Deng, Wen and Weitz, David A and Fan, Jing},
journal={Small},
volume={14},
Expand All @@ -349,7 +349,7 @@ @article{anbari2018microfluidic
}

@article{isah2022fluid,
title={Fluid--rock interactions and its implications on EOR: Critical analysis, experimental techniques and knowledge gaps},
title={Fluid--rock interactions and its implications on {EOR}:~{C}ritical analysis, experimental techniques and knowledge gaps},
author={Isah, Abubakar and Arif, Muhammad and Hassan, Amjed and Mahmoud, Mohamed and Iglauer, Stefan},
journal={Energy Reports},
volume={8},
Expand All @@ -360,7 +360,7 @@ @article{isah2022fluid
}

@article{zhu2022microfluidics,
title={Microfluidics as an emerging platform for exploring soil environmental processes: a critical review},
title={Microfluidics as an emerging platform for exploring soil environmental processes:~{A} critical review},
author={Zhu, Xiangyu and Wang, Kun and Yan, Huicong and Liu, Congcong and Zhu, Xiaoying and Chen, Baoliang},
journal={Environmental Science \& Technology},
volume={56},
Expand All @@ -372,7 +372,7 @@ @article{zhu2022microfluidics
}

@article{aralekallu2023development,
title={Development of glass-based microfluidic devices: A review on its fabrication and biologic applications},
title={Development of glass-based microfluidic devices:~{A} review on its fabrication and biologic applications},
author={Aralekallu, Shambhulinga and Boddula, Rajamouli and Singh, Vijay},
journal={Materials \& Design},
volume={225},
Expand All @@ -383,7 +383,7 @@ @article{aralekallu2023development
}

@article{hamamoto2010excluded,
title={Excluded-volume expansion of Archie's law for gas and solute diffusivities and electrical and thermal conductivities in variably saturated porous media},
title={Excluded-volume expansion of {A}rchie's law for gas and solute diffusivities and electrical and thermal conductivities in variably saturated porous media},
author={Hamamoto, Shoichiro and Moldrup, Per and Kawamoto, Ken and Komatsu, Toshiko},
journal={Water Resources Research},
volume={46},
Expand All @@ -405,7 +405,7 @@ @article{bailey2017differences
}

@article{davidson2012d,
title={The Dual Arrhenius and Michaelis--Menten kinetics model for decomposition of soil organic matter at hourly to seasonal time scales},
title={The dual {Arrhenius} and {Michaelis}--{Menten} kinetics model for decomposition of soil organic matter at hourly to seasonal time scales},
author={Davidson, Eric A and Samanta, Sudeep and Caramori, Samantha S and Savage, Kathleen},
journal={Global change biology},
volume={18},
Expand All @@ -417,7 +417,7 @@ @article{davidson2012d
}

@article{moyano2018diffusion,
title={Diffusion limitations and Michaelis--Menten kinetics as drivers of combined temperature and moisture effects on carbon fluxes of mineral soils},
title={Diffusion limitations and {Michaelis}--{Menten} kinetics as drivers of combined temperature and moisture effects on carbon fluxes of mineral soils},
author={Moyano, Fernando Esteban and Vasilyeva, Nadezda and Menichetti, Lorenzo},
journal={Biogeosciences},
volume={15},
Expand Down