Life Sciences Commons^™

Soil Nitrate Prediction Using Ftir-Atr, Vis-Nir, And Raman Spectroscopy, Sabiha Ferdous

Department of Biological Systems Engineering: Dissertations and Theses

Fourier transform infrared spectroscopy (FTIR) combined with Attenuated total reflectance (ATR), Visible-Near Infrared spectroscopy (Vis-NIR), and Raman spectroscopy (RS) are non-destructive techniques for rapid determination of nitrogen compounds in soil. Leveraging FTIR-ATR and Vis-NIR spectra using partial least squares regression (PLSR) modeling, the study aims to predict soil nitrate content and explored the feasibility of Raman spectroscopy to detect nitrate (NO₃^-), nitrite (NO₂^-), and ammonium (NH₄⁺) in soil. Soil samples were collected from four different fields, dried, sieved (2mm), and then used for collecting spectra (FTIR-ATR and Vis-NIR). Laboratory analysis was …

Complete Genome Sequences Of Chop, Delrio, And Grandslam, Three Gordonia Phages Isolated From Soil In Central Arkansas, Heidi N. Mathes, Elijah I. Christenson, John H. Crum, Emme M. Edmondson, Kassidy E. Gray, Luke W. Lawson, Lauren E. Lee, Michael P. Lee, Jackson A. Lipscomb, Morgan E. Masengale, Hannah G. Matthews, Charles M. Mcclain 4th, Tuesday N. Melton, Trace H. Morrow, Alexis M. Perry, David R. Rainwater, Grace E. Renois, Maryann F. Rettig, Duncan C. Troup, Allie J. Wilson, Nathan Reyna, Ruth Plymale

Articles

Chop, DelRio, and GrandSlam are phage with a Siphoviridae morphotype isolated from soil in Arkansas using the host Gordonia terrae 3612. All three are temperate, and their genomes share at least 96% nucleotide identity. These phage are assigned to cluster DI based on gene content similarity to other sequenced actinobacteriophage.

Soil Sampling Guide For Crops, Matt Yost, Grant Cardon, Megan Baker, Jody Gale, Earl Creech, Michael Pace, Kalen Taylor, Cody Zesiger, Tiffany Evans, Rhonda Miller

All Current Publications

This fact sheet provides updated guidelines for soil sampling of various soil properties and includes why, how, what, and where to sample. It is a part of a series of updated sampling guidelines. Water, forage, plant tissue, and manure/compost will be forthcoming.

The World Of Underground Ecology In A Changing Environment, Elsa Abs, Moira Hough

Michigan Tech Publications

This special feature presents state-of-the-art soil ecological science and was sparked following the 2-day long online live event entitled “Ecology Underground” during the Ecological Society of America annual meeting of 2020. Here, we, the co-guest-editors of this special feature, present this body of research in context of the current state of the field. This issue highlights that we are currently in a hot time for microbial research in soil science. Specifically, we find that two themes emerge from this corpus as key next questions to answer to move the field forward. How do microbial processes scale up in space and …

Tree Biomass – A Fragile Carbon Storage In Old-Growth Birch And Aspen Stands In Hemiboreal Latvia, Laura Ķēniņa, Didzis Elferts, Ieva Jaunslaviete, Endijs Bāders, Guntars Šņepsts, Āris Jansons

Aspen Bibliography

Birch (Betula pendula Roth, Betula pubescens Ehrh.) and European aspen (Populus tremula L.) stands dominate the deciduous forests of Northern Europe. Due to increasing forest protections, more deciduous stands will reach the old-growth stage. Thus, data on the carbon storage potential in such areas are essential. We aimed to establish a benchmark for carbon stocks of the main carbon pools in old-growth deciduous hemiboreal stands. Carbon pools were calculated from measurements in forty old-growth (104–148 years-old) deciduous stands in forests on fertile mineral soil. The carbon stock in these stands is distributed across tree biomass (~ 60%), mineral soil (~ …

Quantifying The Relationship Between Soil Organic Carbon And Soil Color In Nebraska, Aldi J. Airori

Applied Science Program: Theses

Soil color is easily measured in the field and holds potential to be used as an indirect measurement of soil organic carbon (SOC). The main limitation to this approach is knowledge about the specific color-SOC relationship in a region, which often varies in relation to parent material, soil texture, climate, and land use. Furthermore, the Munsell color data is subjective in nature. The objectives of this study are: 1) to develop and evaluate the accuracy of pedotransfer functions (PTFs) for the prediction of SOC based on soil color and texture in the state of Nebraska and 2) to evaluate digital …

Extracellular Dnases Facilitate Antagonism And Coexistence In Bacterial Competitor-Sensing Interference Competition, Aoi Ogawa, Christophe Golé, Maria Bermudez, Odrine Habarugira, Gabrielle Joslin, Taylor Mccain, Autumn Mineo, Jennifer Wise, Julie Xiong, Katherine Yan, Jan A.C. Vriezen

Biological Sciences: Faculty Publications

Over the last 4 decades, the rate of discovery of novel antibiotics has decreased drastically, ending the era of fortuitous antibiotic discovery. A better understanding of the biology of bacteriogenic toxins potentially helps to prospect for new antibiotics. To initiate this line of research, we quantified antagonists from two different sites at two different depths of soil and found the relative number of antagonists to correlate with the bacterial load and carbon-to-nitrogen (C/N) ratio of the soil. Consecutive studies show the importance of antagonist interactions between soil isolates and the lack of a predicted role for nutrient availability and, therefore, …

Bioaccumulation Of As, Cd, Cr, Cu, Pb, Zn In Ambrosia Artemisiifolia L. In The Polluted Area By Enterprise For The Production And Processing Of Batteries, Ryzhenko Nataliia, El Amrani Abdelhak, Michelle Giltrap, Furong Tian, Volodymyr Laptev

Articles

In this paper, the concentration of As, Cd, Cr, Cu, Pb, Zn was investigated in soil and Ambrosia artemisiifolia L. sampling from polluted cite near the enterprises for the production and processing of batteries in the city of Dnipro in Ukraine. The obtained results of the study provided to assess plants regarding bio-monitoring and phytoremediation. Although Ambrosia artemisiifolia L. is a weed that causes serious allergic reactions in humans, this species can also have a high bioaccumulative capacity regarding metals. The metals’ concentration in roots was scientifically higher than in inflorescence part. Zn and Cu had the highest …

Tile Drainage Flow Partitioning And Phosphorus Export In Vermont Usa, Ryan Ruggiero, Donald Ross, Joshua W. Faulkner

Lake Champlain Sea Grant Institute

Tile drainage (TD) has been identified as a potential non-point source of phosphorus (P) pollution and subsequent water quality issues. Three fields with TD in Vermont USA were monitored to characterize hydrology and P export. Fields were in corn silage and used minimal tillage and cover cropping practices. Preferential flow path (PFP) activity was explored by separating TD flow into flow pathway and source connectivity components using two hydrograph separation techniques, electrical conductivity end member unmixing, and hydrograph recession analysis. TD was the dominant P export pathway because of higher total discharge. Drought conditions during this study limited surface runoff, …

Temporal Changes In The Nutrient Content Of Cattle Dung In The Nebraska Sandhills Ecosystem, Amanda Shine, Martha Mamo, Gandura O. Abagandura, Walter Schacht, Jerry Volesky

Department of Agronomy and Horticulture: Faculty Publications

Dung excreted by cattle composes a significant portion of the nutrient inputs in a grazed ecosystem and can have wide-ranging effects on soil properties and vegetation. However, little research has been conducted on the nutrient dynamics of excreted dung in situ that has not been disturbed prior to field sampling. In this study, we analyzed 294 dung pats (1–24 days old) collected from a Nebraska Sandhills meadow to determine water-extractable organic carbon (WEOC), water-extractable nitrogen (WEN), water-extractable phosphorus (WEP), and percent dry matter (DM) changes over time. In addition, we investigated if sample handling - frozen storage – and the …

Biochar: Properties And Potential Benefits For Agricultural Soil In Rwanda, Andromede Uwase

Honors Theses

Physical and chemical soil degradation is becoming a major challenge for agricultural productivity in Rwanda, which is the most important part of the country’s economy. The wide spreading soil degradation in Rwanda is mainly a result of naturally poor soils coupled with unsustainable soil management leading to, for example, accelerated soil erosion, acidification, nutrient loss, compaction, and to decreasing yields. Biochar, as an end product of pyrolysis of biomass in the absence of oxygen, has been proposed as a soil amendment in remediation strategies because of its positive effects on soil productivity relevant parameters such as soil pH, structure, nutrient …

The Essence Of Soil Biodiversity, Loren B. Byrne

Arts & Sciences Faculty Publications

Soil ecologists and conservationists should focus on raising people’s awareness of the essence of soil biodiversity: its complex ecologicalwebs and emergent ecosystemservices that support aboveground life and human well-being. Conservation and communication efforts regarding soil biodiversity must consider local-scale ecological contexts and different audiences. Engaging educational and outreach materials and methods should be prioritized to advance preservation of soil systems and their biodiversity.

A Method For Visualizing Water Flow Through Modified Root Zones, Dallas M. Williams

Department of Agronomy and Horticulture: Dissertations, Theses, and Student Research

As the number of impervious surfaces in urban environments increases, the ability of modified root zones to infiltrate water is becoming more important. Current methods of tracing water flow through soil profiles include excavating large pits in situ or analyzing soil cores in the laboratory with computed tomography or magnetic resonance imaging. While useful, these methods may not be suitable for urban settings or practical in every laboratory. We propose a new method that is less invasive, does not require extensive technical equipment and can reliably trace water movement through the soil profile in order to calculate flow rate based …

Decomposition Of Microbial Necromass Is Divergent At The Individual Taxonomic Level In Soil, Weiling Dong, Alin Song, Huaqun Yin, Xueduan Liu, Jianwei Li, Fenliang Fan

Agricultural and Environmental Sciences Faculty Research

The turnover of microbial biomass plays an important part in providing a significant source of carbon (C) to soil organic C. However, whether the decomposition of microbial necromass (non-living microbial biomass) in the soil varies at the individual taxa level remains largely unknown. To fill up these gaps, we compared the necromass decomposition of bacterial and archaeal taxa by separating live microbial biomass with 18O-stable isotope probing from dead microbial biomass in soil. Our results showed that most of the microbial necromass at the operational taxonomic unit level (88.51%), which mainly belong to Acidobacteria, Actinobacteria, Gemmatimonadetes, and Proteobacteria, decomposed significantly …

Does Integrating Crops With Livestock Production Impact Soil Properties And Crop Production?, Lindsey Anderson

Department of Agronomy and Horticulture: Dissertations, Theses, and Student Research

Re-integrating crop and livestock production through cover crop (CC) and corn residue grazing could efficiently utilize resources and ensure profitability while improving environmental quality, but how this integration affects soils and crops is not well understood. We conducted two studies to address this. In the first study, we evaluated the impact of cattle (1.3-3.7 head ha^-1) grazing an oat (Avena sativa L.) CC on soil and crop yields in two adjacent irrigated no-till corn (Zea mays L.)-soybean (Glycine max L.) fields on silt loam soils in eastern Nebraska. Field I was grazed twice, while Field …

Wayne E. Sabbe Arkansas Soil Fertility Studies 2020, Nathan A. Slaton

Arkansas Agricultural Experiment Station Research Series

Rapid technological changes in crop management and production require that the research efforts be presented in an expeditious manner. The contributions of soil fertility and fertilizers are major production factors in all Arkansas crops. The studies described within will allow producers to compare their practices with the university’s research efforts. Additionally, soil-test data and fertilizer sales are presented to allow comparisons among years, crops, and other areas within Arkansas.

Contamination Assessment Of Heavy Metals In Agricultural Soil, In The Liwa Area (Uae), Ahmed A. Al-Taani, Yousef Nazzal, Fares M. Howari, Jibran Iqbal, Nadine Bou Orm, Cijo Madathil Xavier, Alina Bărbulescu, Manish Sharma, Cristian Stefan Dumitriu

All Works

The Liwa area is a primary food production area in the United Arab Emirates (UAE) and has intensively been used for agriculture. This study investigates the pollution levels with heavy metals in agricultural soils from the Liwa area. Thirty-two soil samples were analyzed for Mn, Zn, Cr, Ni, Cu, Pb, Cd, Co, and As. Results revealed that heavy metal levels varied in the ranges 220.02– 311.21, 42.39–66.92, 43.43–71.55, 32.86–52.12, 10.29–21.70, 2.83–8.84, 0.46–0.69, 0.03–0.37 mg/kg for Mn, Zn, Cr, Ni, Cu, Pb, Cd, Co, and As, respectively. All samples presented low As concentrations with an average of 0.01 mg/kg. The variations …

Distinct Distribution Of Archaea From Soil To Freshwater To Estuary: Implications Of Archaeal Composition And Function In Different Environments, Hualong Wang, Raven Bier, Laura Zgleszewski, Marc Peipoch, Emmanuel Omondi, Atanu Mukherjee, Feng Chen, Chuanlun Zhang, Jinjun Kan

Agricultural and Environmental Sciences Faculty Research

In addition to inhabiting extreme territories, Archaea are widely distributed in common environments spanning from terrestrial to aquatic environments. This study investigated and compared archaeal community structures from three different habitats (representing distinct environments): agriculture soils (from farming system trials FST, PA, United States), freshwater biofilms (from White Clay Creek, PA, United States), and estuary water (Chesapeake Bay, United States). High-throughput sequencing of 16S rRNA genes indicated that Thaumarchaeota, Euryarchaeota, Nanoarchaeota, Crenarchaeota, and Diapherotrites were the commonly found dominant phyla across these three environments. Similar to Bacteria, distinct community structure and distribution patterns for Archaea were observed in soils vs. …

A Synthesis Of The Effects Of Cheatgrass Invasion On Us Great Basin Carbon Storage, R. Chelsea Nagy, Emily J. Fusco, Jennifer K. Balch, John T. Finn, Adam Mahood, Jenica M. Allen, Bethany A. Bradley

Articles

1. Non-native, invasive Bromus tectorum (cheatgrass) is pervasive in sagebrush ecosystems in the Great Basin ecoregion of the western United States, competing with native plants and promoting more frequent fires. As a result, cheatgrass invasion likely alters carbon (C) storage in the region. Many studies have measured C pools in one or more common vegetation types: native sagebrush, invaded sagebrush and cheatgrass-dominated (often burned) sites, but these results have yet to be synthesized.
2. We performed a literature review to identify studies assessing the consequences of invasion on C storage in above-ground biomass (AGB), below-ground biomass (BGB), litter, organic soil and total …

Vegetative And Edaphic Responses In A Northern Mixed Conifer Forest Three Decades After Harvest And Fire: Implications For Managing Regeneration And Carbon And Nitrogen Pools, R. Kasten Dumroese, Martin Jurgensen, Deborah S. Page-Dumroese

Michigan Tech Publications

Research Highlights: This experiment compares a range of combinations of harvest, prescribed fire, and wildfire. Leveraging a 30-year-old forest management-driven experiment, we explored the recovery of woody species composition, regeneration of the charismatic forest tree species Larix occidentalis Nutt., and vegetation and soil carbon (C) and nitrogen (N) pools. Background and Objectives: Initiated in 1967, this experiment intended to explore combinations of habitat type phases and prescribed fire severity toward supporting regeneration of L. occidentalis. At onset of the experiment, a wildfire affected a portion of the 60 research plots, allowing for additional study. Our objective was to better understand …

Shotgun Metagenomic Sequencing Data Of Sunflower Rhizosphere Microbial Community In South Africa, Olubukola Oluranti Babalola, Temitayo Tosin Alawiye, Carlos M. Rodriguez Lopez, Ayansina Segun Ayangbenro

Horticulture Faculty Publications

This dataset presents shotgun metagenomic sequencing of sunflower rhizosphere microbiome in Bloemhof, South Africa. Data were collected to decipher the structure and function in the sunflower microbial community. Illumina HiSeq platform using next generation sequencing of the DNA was carried out. The metagenome comprised 8,991,566 sequences totaling 1,607,022,279 bp size and 66% GC content. The metagenome was deposited into the NCBI database and can be accessed with the SRA accession number SRR10418054. An online metagenome server (MG RAST) using the subsystem database revealed bacteria had the highest taxonomical representation with 98.47%, eukaryote at 1.23%, and archaea at 0.20%. The most …

Urban Garden Soils: Testing And Management, Melanie Stock, Tiffany Maughan, Paul R. Grossl

All Current Publications

This fact sheet provides step-by-step instructions on selecting appropriate soil tests, sampling, and interpreting results. Soil tests measure plant nutrient needs and soil contamination, both important aspects of sustainable urban gardening. Although many garden centers sell home soil test kits, these tests are not recommended because they were developed outside of the Intermountain West with soils that have nearly opposite conditions. Soil tests conducted in local labs may cost more initially, but will provide results specific to Utah soils and management recommendations that balance long-term soil productivity, human health, and environmental sustainability. The Utah State University Analytical Labs (USUAL) is …

Utah Visual Farm Guide: What Is Healthy Soil?, Amanda Pratt, Katherine Wagner, Melanie Stock

All Current Publications

The Utah Visual Farm Guide uses a pictorial format to teach farming basics. This fact sheet illustrates the components of soil and the difference between healthy and unhealthy soils in Utah.

Utah Visual Farm Guide: Year-Round Soil Care, Amanda Pratt, Katherine Wagner, Melanie Stock

All Current Publications

The Utah Visual Farm Guide uses a pictorial format to teach farming basics. This fact sheet illustrates soil management practices for each season.

A Review Of Plant-Soil Feedbacks And Their Importance For Palouse Prairie Restoration And Management, Rachael Sv Pentico

2020 Symposium Posters

A plant-soil feedback (PSF) is the process in which plants alter both the biotic and abiotic characteristics of the soil they grow in. These changes in the soil composition alter which plants can grow and survive there in the future. Negative PSFs occur when plants struggle to grow in soil that was previously inhabited, due to a buildup of soil pathogens. Positive PSFs, however, provide benefits to the plants due to an abundance of soil microbes, such as AMF. Understanding the effects that PSFs have on plant communities and dynamics could be vital for restoring damaged ecosystems, like the Palouse …

Wayne E. Sabbe Arkansas Soil Fertility Studies 2019, Nathan A. Slaton

Arkansas Agricultural Experiment Station Research Series

Rapid technological changes in crop management and production require that the research efforts be presented in an expeditious manner. The contributions of soil fertility and fertilizers are major production factors in all Arkansas crops. The studies described within will allow producers to compare their practices with the university’s research efforts. Additionally, soil-test data and fertilizer sales are presented to allow comparisons among years, crops, and other areas within Arkansas.

Escherichia Coli Antimicrobial Resistance Variability In Water Runoff And Soil From A Remnant Native Prairie, And Improved Pasture, And A Cultivated Agricultural Watershed, Maitreyee Mukherjee, Terry Gentry, Heidi Mjelde, John P. Brooks, Daren Harmel, Lucas Gregory, Kevin Wagner

Faculty Publications

Although many previous studies have examined patterns of antimicrobial resistance (AMR) and multidrug resistance (MDR) from domestic animals and farm environments, comparatively little is known about the environmental sources and natural reservoirs of AMR and MDR. In this study, we collected stormwater runoff and soil samples from three watersheds in Texas. Escherichia coli (E. coli) were enumerated, isolated, and analyzed for resistance patterns. E. coli from all sites, irrespective of land use, displayed the presence of AMR/MDR. Higher levels of AMR/MDR were observed in water compared to soil. More isolates were resistant to cephalothin than other antibiotics. For …

Invasive Vegetation Affects Amphibian Skin Microbiota And Body Condition, Obed Hernandez-Gomez, Allison Q. Byrne, Alex R. Gunderson, Thomas S. Jenkinson, Clay F. Noss, Andrew P. Rothstein, Molly C. Womack, Erica B. Rosenblum

Natural Sciences and Mathematics | Faculty Scholarship

Invasive plants are major drivers of habitat modification and the scale of their impact is increasing globally as anthropogenic activities facilitate their spread. In California, an invasive plant genus of great concern is Eucalyptus. Eucalyptus leaves can alter soil chemistry and negatively affect underground macro- and microbial communities. Amphibians serve as excellent models to evaluate the effect of Eucalyptus invasion on ground-dwelling species as they predate on soil arthropods and incorporate soil microbes into their microbiotas. The skin microbiota is particularly important to amphibian health, suggesting that invasive plant species could ultimately affect amphibian populations. To investigate the potential for …

Remediating Soil For Successful Vegetation Establishment Along Nebraska Highways, Shad Mills, Martha Mamo, Walt Schacht, Humberto Blanco-Canqui

Nebraska Department of Transportation: Research Reports

Vegetation along roadsides is important to prevent soil erosion, provide habitat, and filter water running off the road. Vegetation close to the pavement along highways in Nebraska does not readily establish and persist. It is thought that the sodium and bulk density are the driving factors behind the lack of vegetation. After a construction project the shoulder is seeded into the compacted soil, and during winter salts can accumulate in the soil because of deicing agents being used. The purpose of our study was to determine if the sodium and bulk density are the driving factors of the vegetation cover. …

Soil Net Nitrogen Mineralisation Across Global Grasslands, A. C. Risch, S. Zimmerman, R. Ochoa-Hueso, M. Schütz, B. Frey, J. L. Firn, P. A. Fay, F. Hagedorn, E. T. Borer, E. W. Seabloom, W. S. Harpole, J. M. H. Knops, Rebecca L. Mcculley, A. A. D. Broadbent, C. J. Stevens, M. L. Silveria, P. B. Adler, S. Báez, L. A. Biederman, J. M. Blair

Plant and Soil Sciences Faculty Publications

Soil nitrogen mineralisation (N_min), the conversion of organic into inorganic N, is important for productivity and nutrient cycling. The balance between mineralisation and immobilisation (net N_min) varies with soil properties and climate. However, because most global-scale assessments of net N_min are laboratory-based, its regulation under field-conditions and implications for real-world soil functioning remain uncertain. Here, we explore the drivers of realised (field) and potential (laboratory) soil net N_min across 30 grasslands worldwide. We find that realised N_min is largely explained by temperature of the wettest quarter, microbial biomass, clay content and bulk density. …