Publications

@article{WOS:000812967000001,

title = {Microbiome assembly in thawing permafrost and its feedbacks to climate},

author = {Jessica G. Ernakovich and Robyn A. Barbato and Virginia I. Rich and Christina Schadel and Rebecca E. Hewitt and Stacey J. Doherty and Emily D. Whalen and Benjamin W. Abbott and Jiri Barta and Christina Biasi and Chris L. Chabot and Jenni Hultman and Christian Knoblauch and Maggie C. Y. Lau Vetter and Mary-Cathrine Leewis and Susanne Liebner and Rachel Mackelprang and Tullis C. Onstott and Andreas Richter and Ursel M. E. Schutte and Henri M. P. Siljanen and Neslihan Tas and Ina Timling and Tatiana A. Vishnivetskaya and Mark P. Waldrop and Matthias Winkel},

doi = {10.1111/gcb.16231},

issn = {1354-1013},

year  = {2022},

date = {2022-09-01},

journal = {GLOBAL CHANGE BIOLOGY},

volume = {28},

number = {17},

pages = {5007-5026},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{WOS:000842404400001,

title = {Microtopography Matters: Belowground CH4 Cycling Regulated by Differing Microbial Processes in Peatland Hummocks and Lawns},

author = {Clarice R. Perryman and Carmody K. McCalley and Jessica G. Ernakovich and Louis J. Lamit and Joanne H. Shorter and Erik Lilleskov and Ruth K. Varner},

doi = {10.1029/2022JG006948},

issn = {2169-8953},

year  = {2022},

date = {2022-08-01},

journal = {JOURNAL OF GEOPHYSICAL RESEARCH-BIOGEOSCIENCES},

volume = {127},

number = {8},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{WOS:000827458200001,

title = {We Must Stop Fossil Fuel Emissions to Protect Permafrost Ecosystems},

author = {Benjamin W. Abbott and Michael Brown and Joanna C. Carey and Jessica Ernakovich and Jennifer M. Frederick and Laodong Guo and Gustaf Hugelius and Raymond M. Lee and Michael M. Loranty and Robie Macdonald and Paul J. Mann and Susan M. Natali and David Olefeldt and Pam Pearson and Abigail Rec and Martin Robards and Verity G. Salmon and Sayedeh Sara Sayedi and Christina Schadel and Edward A. G. Schuur and Sarah Shakil and Arial J. Shogren and Jens Strauss and Suzanne E. Tank and Brett F. Thornton and Rachael Treharne and Merritt Turetsky and Carolina Voigt and Nancy Wright and Yuanhe Yang and Jay P. Zarnetske and Qiwen Zhang and Scott Zolkos},

doi = {10.3389/fenvs.2022.889428},

year  = {2022},

date = {2022-06-01},

journal = {FRONTIERS IN ENVIRONMENTAL SCIENCE},

volume = {10},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{WOS:000758703300001,

title = {Dominance of Diffusive Methane Emissions From Lowland Headwater Streams Promotes Oxidation and Isotopic Enrichment},

author = {Andrew L. Robison and Wilfred M. Wollheim and Clarice R. Perryman and Annie R. Cotter and Jessica E. Mackay and Ruth K. Varner and Paige Clarizia and Jessica G. Ernakovich},

doi = {10.3389/fenvs.2021.791305},

year  = {2022},

date = {2022-01-01},

journal = {FRONTIERS IN ENVIRONMENTAL SCIENCE},

volume = {9},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{WOS:000854608000001,

title = {Clarifying the evidence for microbial- and plant-derived soil organic matter, and the path toward a more quantitative understanding},

author = {Emily D. Whalen and A. Stuart Grandy and Noah W. Sokol and Marco Keiluweit and Jessica Ernakovich and Richard G. Smith and Serita D. Frey},

url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/gcb.16413},

doi = {10.1111/gcb.16413},

issn = {1354-1013},

year  = {2022},

date = {2022-01-01},

journal = {GLOBAL CHANGE BIOLOGY},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{WOS:000758703300001b,

title = {Dominance of Diffusive Methane Emissions From Lowland Headwater Streams Promotes Oxidation and Isotopic Enrichment},

author = {Andrew L. Robison and Wilfred M. Wollheim and Clarice R. Perryman and Annie R. Cotter and Jessica E. Mackay and Ruth K. Varner and Paige Clarizia and Jessica G. Ernakovich},

doi = {10.3389/fenvs.2021.791305},

year  = {2022},

date = {2022-01-01},

journal = {FRONTIERS IN ENVIRONMENTAL SCIENCE},

volume = {9},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{WOS:000782531900001,

title = {Nutrients Alter Methane Production and Oxidation in a Thawing Permafrost Mire},

author = {N. Niloufar Kashi and Erik A. Hobbie and Ruth K. Varner and Adam S. Wymore and Jessica G. Ernakovich and Reiner Giesler},

url = {https://link.springer.com/article/10.1007/s10021-022-00758-5},

doi = {10.1007/s10021-022-00758-5},

issn = {1432-9840},

year  = {2022},

date = {2022-01-01},

journal = {ECOSYSTEMS},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{10.1111/gcb.15438,

title = {Altered microbial structure and function after thermokarst formation},

author = {Futing Liu and Dan Kou and Yongliang Chen and Kai Xue and Jessica G. Ernakovich and Leiyi Chen and Guibiao Yang and Yuanhe Yang},

doi = {10.1111/gcb.15438},

issn = {1354-1013},

year  = {2021},

date = {2021-01-01},

journal = {Global Change Biology},

volume = {27},

number = {4},

pages = {823–835},

abstract = {Permafrost thaw could induce substantial carbon (C) emissions to the atmosphere, and thus trigger a positive feedback to climate warming. As the engine of biogeochemical cycling, soil microorganisms exert a critical role in mediating the direction and strength of permafrost C-climate feedback. However, our understanding about the impacts of thermokarst (abrupt permafrost thaw) on microbial structure and function remains limited. Here we employed metagenomic sequencing to analyze changes in topsoil (0–15 cm) microbial communities and functional genes along a permafrost thaw sequence (1, 10, and 16 years since permafrost collapse) on the Tibetan Plateau. By combining laboratory incubation and a two-pool model, we then explored changes in soil labile and stable C decomposition along the thaw sequence. Our results showed that topsoil microbial α-diversity decreased, while the community structure and functional gene abundance did not exhibit any significant change at the early stage of collapse (1 year since collapse) relative to non-collapsed control. However, as the time since the collapse increased, both the topsoil microbial community structure and functional genes differed from the control. Abundances of functional genes involved in labile C degradation decreased while those for stable C degradation increased at the late stage of collapse (16 years since collapse), largely driven by changes in substrate properties along the thaw sequence. Accordingly, faster stable C decomposition occurred at the late stage of collapse compared to the control, which was associated with the increase in relative abundance of functional genes for stable C degradation. These results suggest that upland thermokarst alters microbial structure and function, particularly enhances soil stable C decomposition by modulating microbial functional genes, which could reinforce a warmer climate over the decadal timescale. Based on the metagenomic sequencing, this study analyzed the impacts of thermokarst (abrupt permafrost thaw) on topsoil microbial communities and functional genes along a thaw sequence on the Tibetan Plateau. Our results revealed that, although thermokarst-induced changes in soil environment, substrates and vegetation properties could all regulate microbes, substrate properties mainly drove the shifts in microbial structure and function. Particularly, thermokarst formation stimulated functional genes associated with soil stable carbon degradation, and enhanced soil stable carbon decomposition. These results highlight that thermokarst formation could alter microbial structure and function over the decadal timescale.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{10.1007/s10533-020-00736-w,

title = {A combined microbial and ecosystem metric of carbon retention efficiency explains land cover-dependent soil microbial biodiversity–ecosystem function relationships},

author = {Jessica G. Ernakovich and Jeff Baldock and Courtney Creamer and Jonathan Sanderman and Karsten Kalbitz and Mark Farrell},

doi = {10.1007/s10533-020-00736-w},

issn = {0168-2563},

year  = {2021},

date = {2021-01-01},

journal = {Biogeochemistry},

volume = {153},

number = {1},

pages = {1–15},

abstract = {While soil organic carbon (C) is the foundation of productive and healthy ecosystems, the impact of the ecology of microorganisms on C-cycling remains unknown. We manipulated the diversity, applied here as species richness, of the microbial community present in similar soils on two contrasting land-covers—an adjacent pasture and forest—and observed the transformations of plant detritus and soil organic matter (SOM) using stable isotope (13C) tracing coupled with a novel nuclear magnetic resonance (NMR) experiment. The amount of detritus-C degraded was not affected by the microbial diversity (p > 0.05), however the fate of detritus- and SOM-C across the diversity gradient was complex and land cover-dependent. For example, in the pasture soil, higher diversity led to lower CO2 production (p = 0.001), a trend driven solely by SOM-C mineralization. There was no relationship between diversity and detritus-C mineralization or production of new mineral-associations after one year (p > 0.05). In contrast, in the forest soil higher diversity resulted in increased detritus-C (p = 0.01) and SOM-C (p = 0.0008) mineralization and decreased mineral-associated organic matter formation (p = 0.02). In both land cover types, retention efficiency—a measure that integrates both microbial physiology and the ability of the ecosystem to retain C—explained C loss and transformation trends. Overall, this demonstrates that the trajectory of C gained and lost is altered by land management-induced changes to microbial communities, soil structure, and chemical characteristics underlying SOM persistence.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{10.1029/2020ef001865,

title = {Is A Common Goal A False Hope in Convergence Research?: Opportunities and Challenges of International Convergence Research to Address Arctic Change},

author = {J. G. Ernakovich and N. Eklund and R. K. Varner and N. Kirchner and J. Jeuring and K. Duderstadt and A. Granebeck and E. Golubeva and ASIAQ participants},

doi = {10.1029/2020ef001865},

issn = {2328-4277},

year  = {2021},

date = {2021-01-01},

journal = {Earth’s Future},

volume = {9},

number = {5},

abstract = {The Arctic faces multiple pressures including climate change, shifting demographics, human health risks, social justice imbalances, governance issues, and expanding resource extraction. A convergence of academic disciplines—such as natural and social sciences, engineering and technology, health and medicine—and international perspectives is required to meaningfully contribute to solving the challenges of Arctic peoples and ecosystems. However, successfully carrying out convergent, international research and education remains a challenge. Here, lessons from the planning phase of a convergence research project concerned with the health of Arctic waters developed by the Arctic Science IntegrAtion Quest (ASIAQ) are discussed. We discuss our perspective on the challenges, as well as strategies for success, in convergence research as gained from the ASIAQ project which assembled an international consortium of researchers from disparate disciplines representing six universities from four countries (Sweden, Japan, Russia, and the United States) during 2018–2020. Bringing together scientists from across multiple disciplines is required to solve societal and ecological issues resulting from a changing Arctic. However, working together across disciplinary, international, and cultural boundaries poses challenges. We describe our efforts to overcome these challenges to bring about meaningful understanding of the vulnerability of Arctic peoples and ecosystems, where we applied particular focus to Arctic waters. Over three years, we brought together researchers from six universities and four countries across many disciplines, from sociologists to human health specialists to oceanographers to permafrost microbiologists to engineers. Here, we chronicle our successes and hurdles, and outline strategies for successful future collaborations. Convergence across disciplines and nations is required to address the complex impacts of a changing Arctic on society and ecosystems Convergence research requires consensus-building, cross-disciplinary relationship building, and new institutional reward structures Challenges and benefits of purpose-driven, societally relevant research in the Arctic are discussed, and strategies for success are shared Convergence across disciplines and nations is required to address the complex impacts of a changing Arctic on society and ecosystems Convergence research requires consensus-building, cross-disciplinary relationship building, and new institutional reward structures Challenges and benefits of purpose-driven, societally relevant research in the Arctic are discussed, and strategies for success are shared},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{10.3389/fmicb.2020.596589,

title = {The Transition From Stochastic to Deterministic Bacterial Community Assembly During Permafrost Thaw Succession},

author = {Stacey Jarvis Doherty and Robyn A. Barbato and A. Stuart Grandy and W. Kelley Thomas and Sylvain Monteux and Ellen Dorrepaal and Margareta Johansson and Jessica G. Ernakovich},

doi = {10.3389/fmicb.2020.596589},

issn = {1664-302X},

year  = {2020},

date = {2020-01-01},

journal = {Frontiers in Microbiology},

volume = {11},

pages = {596589},

abstract = {The Northern high latitudes are warming twice as fast as the global average, and permafrost has become vulnerable to thaw. Changes to the environment during thaw leads to shifts in microbial communities and their associated functions, such as greenhouse gas emissions. Understanding the ecological processes that structure the identity and abundance (i.e., assembly) of pre- and post-thaw communities may improve predictions of the functional outcomes of permafrost thaw. We characterized microbial community assembly during permafrost thaw using in situ observations and a laboratory incubation of soils from the Storflaket Mire in Abisko, Sweden, where permafrost thaw has occurred over the past decade. In situ observations indicated that bacterial community assembly was driven by randomness (i.e., stochastic processes) immediately after thaw with drift and dispersal limitation being the dominant processes. As post-thaw succession progressed, environmentally driven (i.e., deterministic) processes became increasingly important in structuring microbial communities where homogenizing selection was the only process structuring upper active layer soils. Furthermore, laboratory-induced thaw reflected assembly dynamics immediately after thaw indicated by an increase in drift, but did not capture the long-term effects of permafrost thaw on microbial community dynamics. Our results did not reflect a link between assembly dynamics and carbon emissions, likely because respiration is the product of many processes in microbial communities. Identification of dominant microbial community assembly processes has the potential to improve our understanding of the ecological impact of permafrost thaw and the permafrost–climate feedback.},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{essd-12-1511-2020,

title = {Decomposability of soil organic matter over time: the Soil Incubation Database (SIDb, version 1.0) and guidance for incubation procedures},

author = {C. Schädel and J. Beem-Miller and M. Aziz Rad and S. E. Crow and C. E. Hicks Pries and J. Ernakovich and A. M. Hoyt and A. Plante and S. Stoner and C. C. Treat and C. A. Sierra},

url = {https://essd.copernicus.org/articles/12/1511/2020/},

doi = {10.5194/essd-12-1511-2020},

year  = {2020},

date = {2020-01-01},

journal = {Earth System Science Data},

volume = {12},

number = {3},

pages = {1511–1524},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{20320,

title = {Assessing the sensitivity and repeatability of permanganate oxidizable carbon as a soil health metric: An interlab comparison across soils},

author = {Jordon Wade and Gabriel Maltais-Landry and Dawn E Lucas and Giulia Bongiorno and Timothy M Bowles and Francisco J Calderón and Steve W Culman and Rachel Daughtridge and Jessica G Ernakovich and Steven J Fonte},

isbn = {0016-7061},

year  = {2020},

date = {2020-01-01},

journal = {Geoderma},

volume = {366},

pages = {114235},

publisher = {Elsevier},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{20326,

title = {Heavy metals in the Arctic: Distribution and enrichment of five metals in Alaskan soils},

author = {Clarice R Perryman and Jochen Wirsing and Kathryn A Bennett and Owen Brennick and Apryl L Perry and Nicole Williamson and Jessica G Ernakovich},

isbn = {1932-6203},

year  = {2020},

date = {2020-01-01},

journal = {PloS one},

volume = {15},

number = {6},

pages = {e0233297},

publisher = {Public Library of Science San Francisco, CA USA},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{20323,

title = {Long-term effects of copper exposure to agricultural soil function and microbial community structure at a controlled and experimental field site},

author = {JLA Shaw and J G Ernakovich and JD Judy and M Farrell and M Whatmuff and J Kirby},

isbn = {0269-7491},

year  = {2020},

date = {2020-01-01},

journal = {Environmental Pollution},

pages = {114411},

publisher = {Elsevier},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Rocca:2019ii,

title = {The Microbiome Stress Project: Toward a Global Meta-Analysis of Environmental Stressors and Their Effects on Microbial Communities},

author = {Jennifer D Rocca and Marie Simonin and Joanna R Blaszczak and Jessica G Ernakovich and Sean M Gibbons and Firas S Midani and Alex D Washburne},

year  = {2019},

date = {2019-01-01},

journal = {Frontiers in Microbiology},

volume = {9},

pages = {933–14},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Ernakovich:2017fe,

title = {Redox and temperature-sensitive changes in microbial communities and soil chemistry dictate greenhouse gas loss from thawed permafrost},

author = {Jessica G Ernakovich and Laurel M Lynch and Paul E Brewer and Francisco J Calderón and Matthew D Wallenstein},

year  = {2017},

date = {2017-01-01},

journal = {Biogeochemistry},

pages = {1–18},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Schadel:2016is,

title = {Potential carbon emissions dominated by carbon dioxide from thawed permafrost soils},

author = {Christina Schädel and Martin K F Bader and Edward A G Schuur and Christina Biasi and Rosvel Bracho and Petr Capek and Sarah De Baets and Katev rina Diáková and Jessica Ernakovich and Cristian Estop-Aragones and David E Graham and Iain P Hartley and Colleen M Iversen and Evan Kane and Christian Knoblauch and Massimo Lupascu and Pertti J Martikainen and Susan M Natali and Richard J Norby and Jonathan A O’Donnell and Taniya Roy Chowdhury and Hana cková and Gaius Shaver and Victoria L Sloan and Claire C Treat and Merritt R Turetsky and Mark P Waldrop and Kimberly P Wickland},

year  = {2016},

date = {2016-06-01},

journal = {Nature Climate Change},

pages = {1–5},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Ernakovich:2016wa,

title = {The effect of ecosystem engineers on N cycling in an arid agroecosystem},

author = {J G Ernakovich and T A Evans and B Macdonald and M Farrell},

year  = {2016},

date = {2016-01-01},

journal = {Proceedings of the International Nitrogen Initiative Conference, Solutions to improve nitrogen use efficiency for the world},

pages = {4–8},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Ernakovich:2015dk,

title = {Chemical Indicators of Cryoturbation and Microbial Processing throughout an Alaskan Permafrost Soil Depth Profile},

author = {Jessica G Ernakovich and Matthew D Wallenstein and F J Calderón},

year  = {2015},

date = {2015-01-01},

journal = {Soil Science Society of America Journal},

volume = {79},

number = {3},

pages = {783–793},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Treat:2015knb,

title = {A pan-Arctic synthesis of CH4 and CO$_2$ production from anoxic soil incubations},

author = {Claire C Treat and Susan M Natali and Jessica Ernakovich and Colleen M Iversen and Massimo Lupascu and Anthony David McGuire and Richard J Norby and Taniya Roy Chowdhury and Andreas Richter and Hana cková and Christina Schädel and Edward A G Schuur and Victoria L Sloan and Merritt R Turetsky and Mark P Waldrop},

year  = {2015},

date = {2015-01-01},

journal = {Global Change Biology},

volume = {21},

number = {7},

pages = {2787–2803},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Ernakovich:2015dy,

title = {Permafrost microbial community traits and functional diversity indicate low activity at in situ thaw temperatures},

author = {Jessica G Ernakovich and Matthew D Wallenstein},

year  = {2015},

date = {2015-01-01},

journal = {Soil Biology & Biochemistry},

volume = {87},

number = {c},

pages = {78–89},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Ernakovich:2014ic,

title = {Predicted responses of arctic and alpine ecosystems to altered seasonality under climate change},

author = {Jessica G Ernakovich and Kelly A Hopping and Aaron B Berdanier and Rodney T Simpson and Emily J Kachergis and Heidi Steltzer and Matthew D Wallenstein},

year  = {2014},

date = {2014-01-01},

journal = {Global Change Biology},

volume = {20},

number = {10},

pages = {3256–3269},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Wallenstein:2010fo,

title = {Controls on the temperature sensitivity of soil enzymes: a key driver of in situ enzyme activity rates},

author = {M Wallenstein and S D Allison and J Ernakovich and J M Steinweg},

year  = {2010},

date = {2010-01-01},

journal = {Soil enzymology},

keywords = {},

pubstate = {published},

tppubtype = {article}

}