Molecular Geomicrobiology

Fungi and viruses as important players in microbial mats

Carreira, C., Lønborg, C., Kuhl, M. E., et al. (2020) · FEMS Microbiology Ecology · doi:10.1093/femsec/fiaa187 · Cited by 20

Introduction and Overview

Kirchman, D. L. (2008) · Wiley eBooks · doi:10.1002/9780470281840.ch1 · Cited by 29

Experimental measurements of U60 nanocluster stability in aqueous solution

Flynn, S. L., Szymanowski, J. E. S., Gao, Y., et al. (2015) · Geochimica et Cosmochimica Acta · doi:10.1016/j.gca.2015.02.021 · Cited by 19

Microorganisms and Processes Linked to Uranium Reduction and Immobilization

Green, S. J. (2014) · ASM Press eBooks · doi:10.1128/9781555817190.ch7 · Cited by 20

Rapid sulfur cycling in sediments from the Peruvian oxygen minimum zone featuring simultaneous sulfate reduction and sulfide oxidation

Treude, T., Hamdan, L. J., Lemieux, S., et al. (2021) · Limnology and Oceanography · doi:10.1002/lno.11779 · Cited by 17

Reduction of pigment dispersions by Shewanella strain J18 143

Pearce, C. I., Guthrie, J. T., & Lloyd, J. R. (2007) · Dyes and Pigments · doi:10.1016/j.dyepig.2007.01.008 · Cited by 17

In situ trace metal analysis of N eoarchaean – O rdovician shallow‐marine microbial‐carbonate‐hosted pyrites

Gallagher, M., Turner, E. C., & Kamber, B. S. (2015) · Geobiology · doi:10.1111/gbi.12139 · Cited by 16

Nanoscale Observations Support the Importance of Chemical Processes in Rock Decay and Rock Coating Development in Cold Climates

Dorn, R. I., & Krinsley, D. (2019) · Geosciences · doi:10.3390/geosciences9030121 · Cited by 16

Climate Change and Anthropogenic Impact Around the Korean Coastal Ecosystems: Korean Long-term Marine Ecological Research (K-LTMER)

Hyun, J., Choi, K., Lee, K., Lee, S. H., Kim, Y. K., & Kang, C. (2020) · Estuaries and Coasts · doi:10.1007/s12237-020-00711-6 · Cited by 17

Relationships Between the Microbial Composition and the Geochemistry and Mineralogy of the Cobalt-Bearing Legacy Mine Tailings in Northeastern Ontario

Courchesne, B., Schindler, M., & Mykytczuk, N. (2021) · Frontiers in Microbiology · doi:10.3389/fmicb.2021.660190 · Cited by 16

Biogenicity of an E arly Q uaternary iron formation, M ilos I sland, G reece

Fru, E. C., Ivarsson, M., Kilias, S., Frings, P. J., Hemmingsson, C., Broman, C., Bengtson, S., & Chatzitheodoridis, E. (2015) · Geobiology · doi:10.1111/gbi.12128 · Cited by 15

Microbial Metal Cycling in Aquatic Environments

Roden, E., & Emerson, D. (2007) · Wiley eBooks · doi:10.1128/9781555815882.ch44 · Cited by 15

Gene expression of terminal oxidases in two marine bacterial strains exposed to nanomolar oxygen concentrations

Gong, X., García‐Robledo, E., Lund, M., Lehner, P., Borisov, S. M., Klimant, I., Revsbech, N. P., & Schramm, A. (2018) · FEMS Microbiology Ecology · doi:10.1093/femsec/fiy072 · Cited by 14

Quantifying Nitrogen Process Rates in a Constructed Wetland Using Natural Abundance Stable Isotope Signatures and Stable Isotope Amendment Experiments

Erler, D. V., & Eyre, B. D. (2010) · Journal of Environmental Quality · doi:10.2134/jeq2010.0067 · Cited by 14

Quick sulfide buffering in inner shelf sediments of the East China Sea impacted by eutrophication

Liu, J., Zhu, M., Yang, G., et al. (2013) · Environmental Earth Sciences · doi:10.1007/s12665-013-2454-4 · Cited by 14

A Review of Analytical Techniques to Characterise Nanomaterial Associations with Minerals, Organic Matter and Organisms

Schindler, M., Alavijeh, M. A., Oliveira, M. L. S., & Silva, L. F. O. (2024) · Geostandards and Geoanalytical Research · doi:10.1111/ggr.12583 · Cited by 13

Effects of Ferrous Iron and Hydrogen Sulfide on Nitrate Reduction in the Sediments of an Estuary Experiencing Hypoxia

Jäntti, H., Aalto, S. L., & Paerl, H. W. (2020) · Estuaries and Coasts · doi:10.1007/s12237-020-00783-4 · Cited by 14

Disruption of photoautotrophic intertidal mats by filamentous fungi

Carreira, C., Staal, M., Falkoski, D. L., et al. (2015) · Environmental Microbiology · doi:10.1111/1462-2920.12835 · Cited by 13

Microbial Life in Extreme Environments: Linking Geological and Microbiological Processes

Dong, H. (2008) · Modern approaches in solid earth sciences · doi:10.1007/978-1-4020-8306-8_8 · Cited by 14

Variable Oxygen Levels Lead to Variable Stoichiometry of Benthic Nutrient Fluxes in a Hypertrophic Estuary

Bartoli, M., Benelli, S., Lauro, M., et al. (2020) · Estuaries and Coasts · doi:10.1007/s12237-020-00786-1 · Cited by 11

Prokaryotic Microbial Synthesis of Nanomaterials (The World of Unseen)

Omran, B. A. (2020) · Nanotechnology in the life sciences · doi:10.1007/978-3-030-46071-6_2 · Cited by 14

DOE genomics: Applications to in situ subsurface bioremediation

Anderson, R. T. (2006) · Remediation Journal · doi:10.1002/rem.20110 · Cited by 11

Microbiological Controls on Geochemical Kinetics 2: Case Study on Microbial Oxidation of Metal Sulfide Minerals and Future Prospects

Roden, E. (2007) · Springer eBooks · doi:10.1007/978-0-387-73563-4_9 · Cited by 11

Reductive Reactivity of Iron(III) Oxides in the East China Sea Sediments: Characterization by Selective Extraction and Kinetic Dissolution

Chen, L.-J., Zhu, M., Yang, G., et al. (2013) · PLoS ONE · doi:10.1371/journal.pone.0080367 · Cited by 10

Fossil Lipids for Life-Detection: A Case Study from the Early Earth Record

Eigenbrode, J. L. (2008) · Space sciences series of ISSI · doi:10.1007/978-0-387-77516-6_12 · Cited by 13

Greenhouse Gas Emissions from Agricultural Land Before and After Permanent Flooding with Seawater or Freshwater

Petersen, S. G. G., Kristensen, E. S., & Quintana, C. O. (2023) · Estuaries and Coasts · doi:10.1007/s12237-023-01218-6 · Cited by 9

An Object-Based Supervised Nearest Neighbor Method for Extraction of Rhizophora in Mangrove Forest from LiDAR Data and Orthophoto

Alon, A. S., Festijo, E. D., & Juanico, D. E. (2019) · IEEE International Conference on System Engineering and Technology (ICSET) · doi:10.1109/icsengt.2019.8906397 · Cited by 9

Biotechnology of Cr(VI) transformation into Cr(III) complexes

Tsibakhashvili, N. Y., Kalabegishvili, T., Mosulishvili, L. M., et al. (2008) · Journal of Radioanalytical and Nuclear Chemistry · doi:10.1007/s10967-008-1006-y · Cited by 9

Biominerals at the nanoscale: transmission electron microscopy methods for studying the special properties of biominerals

Pósfai, M., Kasama, T., & Dunin-Borkowski, R. (2013) · Mineralogical Society of Great Britain and Ireland eBooks · doi:10.1180/emu-notes.14.11 · Cited by 16

Biomodulation of Nitrogen Cycle in Suspended Sediment

Tang, F. H. M., & Maggi, F. (2018) · Journal of Geophysical Research Biogeosciences · doi:10.1002/2017jg004165 · Cited by 8

Microbial biomass response to different quantities and sources of organic matter in B razilian coastal sediments

Quintana, C. O., de Moraes, P. C., Yoshinaga, M. Y., et al. (2014) · Marine Ecology · doi:10.1111/maec.12182 · Cited by 8

Bacterially facilitated rock-coating formation as a component of the geochemical budget in cold climates: An example from Kärkevagge, Swedish Lapland

Marnocha, C. L., & Dixon, J. C. (2013) · Geomorphology · doi:10.1016/j.geomorph.2013.07.013 · Cited by 8

Spatial variability of the rate of organic carbon mineralization in a sewage-impacted mangrove forest, Mikindani, Kenya

Kamau, J. N., Ngila, J. C., Kirui, B., et al. (2015) · Journal of Soils and Sediments · doi:10.1007/s11368-015-1271-7 · Cited by 8

Characteristics of aquatic biospheres on temperate planets around Sun-like stars and M dwarfs

Lingam, M., & Loeb, A. (2021) · Monthly Notices of the Royal Astronomical Society · doi:10.1093/mnras/stab611 · Cited by 7

Free Iron and Iron-Reducing Microorganisms in Permafrost and Permafrost-Affected Soils of Northeastern Siberia

Rivkina, E., Fedorov-Davydov, D. G., Геннадьевна, З. А., Shcherbakova, V. A., & Vishnivetskaya, T. A. (2020) · Eurasian Soil Science · doi:10.1134/s1064229320100166 · Cited by 7

Nitrogen and phosphorus dynamics in a large river estimated by an in situ Lagrangian tracking approach

Kobayashi, Y., & Iwata, T. (2017) · Freshwater Biology · doi:10.1111/fwb.13044 · Cited by 6

The Molecular Basis for Understanding the Impacts of Ocean Warming

Brewer, P. G. (2019) · Reviews of Geophysics · doi:10.1029/2018rg000620 · Cited by 7

What is Geobiology?

Knoll, A. H., Canfield, D. E., & Konhauser, K. O. (2012) · doi:10.1002/9781118280874.ch1 · Cited by 6

Characterization of iron, sulfur, and phosphorus diagenesis in muddy sediments of the South Yellow Sea using the diffusive gradients in thin films (DGT) technique

Xu, Z., Sun, W., Li, Q., et al. (2023) · Aquatic Sciences · doi:10.1007/s00027-023-00967-7 · Cited by 5

Regulation of CO2 fluxes along gradients of water saturation in irrigation canal sediments

Palmia, B., Leonardi, S., Viaroli, P., & Bartoli, M. (2021) · Aquatic Sciences · doi:10.1007/s00027-020-00773-5 · Cited by 6

Gold particle geomicrobiology: Using viable bacteria as a model for understanding microbe–mineral interactions

Sanyal, S. K., & Shuster, J. (2021) · Mineralogical Magazine · doi:10.1180/mgm.2021.19 · Cited by 5

Genes involved in carbon, nitrogen, and sulfur cycling in an important estuarine ecosystem show coherent shifts in response to changes in environmental conditions

Preheim, S. P., Morris, S., Zhang, Y., Holder, C., Arora‐Williams, K., Gensbigler, P. A., Hinton, A., Jin, R., Pradal, M., Buchanan, M., et al. (2024) · Limnology and Oceanography · doi:10.1002/lno.12731 · Cited by 4

Characterization of authigenic carbonates from Huoshaogang landfill, Guangzhou, China: implication for microbial metabolism

Feng, J., & Chen, D. (2015) · Environmental Earth Sciences · doi:10.1007/s12665-015-4485-5 · Cited by 4

Characterization of iron diagenesis in marine sediments using refined iron speciation and quantized iron(III)-oxide reactivity: a case study in the Jiaozhou Bay, China

Tao, J., Ma, W., Zhu, M., et al. (2017) · Acta Oceanologica Sinica · doi:10.1007/s13131-016-1083-2 · Cited by 3

Seasonally Recurring Water Column Hypoxia Tightly Controls Manganese Distribution, Flux, and Carbonate Precipitation in Sediments of the Eutrophic Coastal Ocean

Mok, J., Baek, S. B., Lee, G., et al. (2025) · Environmental Science & Technology · doi:10.1021/acs.est.5c06676 · Cited by 2

Nachweis von Natural Attenuation mittels Isotopenuntersuchungen an einem ehemaligen Kokereistandort

Nagel, A., Strauß, H., Stephan, M., et al. (2011) · Grundwasser · doi:10.1007/s00767-011-0174-9 · Cited by 2

Life in the Anoxic Sub-Seafloor Environment: Linking Microbial Metabolism and Mega Reserves of Methane Hydrate

Honkalas, V. S., Dabir, A. P., & Dhakephalkar, P. K. (2016) · Advances in biochemical engineering, biotechnology · doi:10.1007/10_2015_5004 · Cited by 2

A mechanistic model of metabolic symbioses in microbes recapitulates experimental data and identifies a continuum of symbiotic interactions

Fischer, M. M. (2020) · Theory in Biosciences · doi:10.1007/s12064-020-00318-2 · Cited by 1

Widespread deep-sea microorganisms in subseafloor geochemical cycling

Hageman, R. L., Bauer, S. L. M., Thorseth, I. H., Brendryen, J., Møller, T. E., Böröcz, R., Babel, H. R., Hannisdal, B., & Jørgensen, S. L. (2026) · Frontiers in Microbiology · doi:10.3389/fmicb.2026.1790163 · Cited by 3

Diurnal Variations of Nutrients in Burrows of the Mud shrimp Laomedia astacina (Crustacea, Laomediidae)

Koo, B. J. (2018) · Journal of the Korean Society for Marine Environment & Energy · doi:10.7846/jkosmee.2018.21.4.281 · Cited by 1

Pulses of labile carbon cause transient decoupling of fermentation and respiration in permeable sediments

Nauer, P. A., Kessler, A. J., Hall, P., et al. (2023) · Limnology and Oceanography · doi:10.1002/lno.12411 · Cited by 1

Fe(II)-Oxidizing Prokaryotes

Straub, K. L. (2011) · Encyclopedia of earth sciences series/Encyclopedia of earth sciences · doi:10.1007/978-1-4020-9212-1_88 · Cited by 3

Fe(III)-Reducing Prokaryotes

Straub, K. L. (2011) · Encyclopedia of earth sciences series/Encyclopedia of earth sciences · doi:10.1007/978-1-4020-9212-1_89 · Cited by 1

From Geocycles to Genomes and Back

Kopf, S., & Newman, D. K. (2014) · ASM Press eBooks · doi:10.1128/9781555817190.ch2

Minerale

Okrusch, M., & Matthes, S. (2013) · Springer-Lehrbuch · doi:10.1007/978-3-642-34660-6_2

Climate-friendly rice - characterisation of rice varieties associated with low-methane emissions and improved bioenergy properties

Hu, J. H. (2023) · Acta universitatis agriculturae Sueciae · doi:10.54612/a.15563tkcnt

Spatial-Temporal Impacts of Invasive Spartina Anglica on the Rates and Pathways of Organic Carbon Mineralization and Resulting C-Fe-S Cycles in the Intertidal Wetland of the Han River Estuary, Yellow SeaPreprint

An, S., Choi, A., Baek, J.-W., et al. (2024) · SSRN Electronic Journal · doi:10.2139/ssrn.4766638

Impacts of Anthropogenic Resuspension on Sediment Organic Matter: An Experimental ApproachPreprint

Lønborg, C., Markager, S., Herzog, S. D., et al. (2024) · SSRN Electronic Journal · doi:10.2139/ssrn.4890208

The nrfA-type microbial communities are widespread in hot springs of the Tibet-Yunnan geothermal zone

Chen, X., Wu, G., Yu, Z., et al. (2025) · Frontiers in Microbiology · doi:10.3389/fmicb.2025.1540611

Diagenese – Ein biogeochemisches Experiment

Strauß, H. (2025) · Springer eBooks · doi:10.1007/978-3-662-71284-9_5

Bacterial Biomineralization: A Review and X-ray Diffraction Determination Table for Bacterial Biominerals

Kôno, T., Sakae, T., Tsuzukibashi, O., Zen, H., Sakai, T., Takahashi, Y., Saito, M., Shinozaki‐Kuwahara, N., Nakada, H., Sato, K., et al. (2025) · Journal of Hard Tissue Biology · doi:10.2485/jhtb.34.181

Seasonally recurring water column hypoxia impacts the partitioning of organic carbon mineralization and resultant manganese–iron–sulfur–phosphorus dynamics in coastal sediments

Mok, J., Baek, S. B., Kim, H., et al. (2025) · Limnology and Oceanography · doi:10.1002/lno.70288

Desulfatiglans- related bacteria associated with conductive mineral particles in marine subsurface sediments

Henkel, J. V., Røy, H., Jørgensen, B. B., et al. (2026) · mBio · doi:10.1128/mbio.00838-26

Carbon Cycle II

Kirchman, D. L., & Shade, A. L. (2026) · Oxford University Press eBooks · doi:10.1093/9780197831632.003.0010

Carbon Cycle I

Kirchman, D. L., & Shade, A. L. (2026) · Oxford University Press eBooks · doi:10.1093/9780197831632.003.0009

Elements, Biochemicals, and Cellular Structures

Kirchman, D. L., & Shade, A. L. (2026) · Oxford University Press eBooks · doi:10.1093/9780197831632.003.0002

Biomass and Growth

Kirchman, D. L., & Shade, A. L. (2026) · Oxford University Press eBooks · doi:10.1093/9780197831632.003.0004

The Physical-Chemical Environment

Kirchman, D. L., & Shade, A. L. (2026) · Oxford University Press eBooks · doi:10.1093/9780197831632.003.0003

Preface

Kirchman, D. L., & Shade, A. L. (2026) · Oxford University Press eBooks · doi:10.1093/9780197831632.002.0004

Community Structure

Kirchman, D. L., & Shade, A. L. (2026) · Oxford University Press eBooks · doi:10.1093/9780197831632.003.0005

Introduction

Kirchman, D. L., & Shade, A. L. (2026) · Oxford University Press eBooks · doi:10.1093/9780197831632.003.0001

Genomes and Meta-Omics

Kirchman, D. L., & Shade, A. L. (2026) · Oxford University Press eBooks · doi:10.1093/9780197831632.003.0006

Geomicrobiology

Kirchman, D. L., & Shade, A. L. (2026) · Oxford University Press eBooks · doi:10.1093/9780197831632.003.0013

Glossary

Kirchman, D. L., & Shade, A. L. (2026) · Oxford University Press eBooks · doi:10.1093/9780197831632.003.0015

The Nitrogen Cycle

Kirchman, D. L., & Shade, A. L. (2026) · Oxford University Press eBooks · doi:10.1093/9780197831632.003.0012

Susquehanna Chorale Spring Concert "Roots and Wings"

Hawkins, D. (2017)

Cloning and Characterization of Rat BAT3 cDNA

Ozaki, T., Hanaoka, E., Naka, M., et al. (1999) · DNA and Cell Biology · doi:10.1089/104454999315222 · Cited by 22

EFFECT OF THE NEMATODE PHASMARHABDITIS HERMAPHRODITA ON YOUNG STAGES OF THE PEST SLUG ARION LUSITANICUS

Grimm, B. (2002) · Journal of Molluscan Studies · doi:10.1093/mollus/68.1.25 · Cited by 41

HLA-B-associated transcript 3 (Bat3)/Scythe is essential for p300-mediated acetylation of p53Preprint

Sasaki, T., Gan, E. C., Wakeham, A. C., Kornbluth, S. A., Mak, T. W., & Okada, H. (2007) · Genes & Development · doi:10.1101/gad.1534107 · Cited by 130

Anthoxanthum Mosaic Virus

Catherall, P. L. (1970) · Plant Pathology · doi:10.1111/j.1365-3059.1970.tb00999.x · Cited by 6