Life Sciences Commons^™

From Pixels To Plants: Remote Sensing Of California Invasive Plants, Kenneth Rangel

Master's Projects and Capstones

Invasive plants cause significant impacts to ecosystems, the economy, and human health. California has experienced significant plant invasions and is well suited to future invasion because of its Mediterranean climate and human disturbance. Eradication or control of invasive plant species requires a detailed understanding of their spatial distribution, which typically involves on the ground surveys that can be expensive or inconsistent. Remote sensing offers a potential alternative or supplement to in-person invasive plant mapping. This study performed a comparative analysis of 41 remote sensing studies that mapped the distribution of California invasive plants. I found that while high spectral resolution …

Microwave Emission Model Parameter Tuning For Surface Soil Moisture Retrieval Using Uav-Mounted Dual Polarization L-Band Radiometer, Santiago Hoyos Echeverri

Open Access Theses & Dissertations

Surface soil moisture retrieval from L-band brightness temperature has been developed for the past decades due to multiple beneficial characteristics of 1-2 GHz frequency bands for remote sensing of the environment. Numerous microwave emission models have been proposed for tower and satellite-based operations with successful retrieval of surface soil moisture and vegetation water content. As a result of the development of cost-effective and low-mass microwave L-band radiometers such as the Portable L-band Radiometer (PoLRa), surface soil moisture surveying traditionally developed by satellite missions SMOS and SMAP can now be developed at local scales, bringing these operations to commercial small unmanned …

Classification Of Lakebed Geologic Substrate In Autonomously Collected Benthic Imagery Using Machine Learning, Joseph K. Geisz, Phillipe A. Wernette, Peter C. Esselman

Michigan Tech Publications, Part 2

Mapping benthic habitats with bathymetric, acoustic, and spectral data requires georeferenced ground-truth information about habitat types and characteristics. New technologies like autonomous underwater vehicles (AUVs) collect tens of thousands of images per mission making image-based ground truthing particularly attractive. Two types of machine learning (ML) models, random forest (RF) and deep neural network (DNN), were tested to determine whether ML models could serve as an accurate substitute for manual classification of AUV images for substrate type interpretation. RF models were trained to predict substrate class as a function of texture, edge, and intensity metrics (i.e., features) calculated for each image. …

Predicting Forage Provision Of Grasslands Across Climate Zones By Hyperspectral Measurements, F. A. Männer, J. Muro, J. Ferner, S. Schmidtlein, A. Linstädter

IGC Proceedings (1997-2023)

The potential of grasslands’ fodder production is a crucial management measure, while its quantification is still laborious and costly. Remote sensing technologies, such as hyperspectral field measurements, enable fast and non-destructive estimation. However, such methods are still limited in transferability to other locations or climatic conditions. With this study, we aim to predict forage nutritive value, quantity, and energy yield from hyperspectral canopy reflections of grasslands across three climate zones. We took hyperspectral measurements with a field spectrometer from grassland canopies in temperate, tropical and semi-arid grasslands, and analyzed corresponding biomass samples for their quantity (BM), metabolizable energy content (ME) …

Drone And Digital Camera Imagery Estimate C3 And C4 Grass Ratios In Pastures, J. A. Bush, C. D. Teutsch, S. R. Smith, J. C. Henning

IGC Proceedings (1997-2023)

The following study investigates the accuracy and practicality of exploiting the color dichotomy present between C3 and C4 grass species to estimate their respective proportions from drone or camera captured imagery. Understanding the proportions of C3 and C4 grasses in pastures is vital to sound decision making for livestock production. The ability to monitor these proportions remotely will also allow for large scale monitoring as well as detection of changes in botanical composition over time and in response to weather events, management, or climate change. A free green canopy cover (GCC) analyzing software, Canopeo, was used to quantify green plants …

Prospects For Improving Alfalfa Yield Using Genomic- And Phenomic-Based Breeding, M. W. Francis, D. Pap, A. Krill-Brown, E. C. Brummer

IGC Proceedings (1997-2023)

Alfalfa (Medicago sativa L.) is a perennial outcrossing legume that is cultivated as an important forage crop in many parts of the world. Yield is the most important trait for profitable alfalfa production, yet over the last 30 years yield improvement in California has stagnated. Current breeding methods focus on recurrent phenotypic selection; however, alternatives incorporating genomic- and phenomic-based information may enhance genetic gain and help to address the lack of yield improvement. Here we attempt to increase the yield potential of alfalfa using genomic selection (GS) in combination with high throughput phenotyping (HTP). A total of 193 families …

Integrating Remote Sensing With Ground-Based Observations To Quantify The Effects Of An Extreme Freeze Event On Black Mangroves (Avicennia Germinans) At The Landscape Scale, Melinda Martinez, Michael J. Osland, James B. Grace, Nicholas M. Enwright, Camille L. Stagg, Camille L. Stagg, Simen Kaalstad, Gordon H. Anderson, Elena A. Flores, Alejandro Fierro-Cabo

School of Earth, Environmental, and Marine Sciences Faculty Publications and Presentations

Climate change is altering the frequency and intensity of extreme weather events. Quantifying ecosystem responses to extreme events at the landscape scale is critical for understanding and responding to climate-driven change but is constrained by limited data availability. Here, we integrated remote sensing with ground-based observations to quantify landscape-scale vegetation damage from an extreme climatic event. We used ground- and satellite-based black mangrove (Avicennia germinans) leaf damage data from the northern Gulf of Mexico (USA and Mexico) to examine the effects of an extreme freeze in a region where black mangroves are expanding their range. The February 2021 …

Enhancing Urban Water Quality Through Biological-Chemical Treatment: Aquatic Macroinvertebrate Community And Temporal Chlorophyll-A Response, Matthew Chaffee

Department of Biological Systems Engineering: Dissertations and Theses

With a growing human population, urbanization is impeding a plethora of natural waterways. Of these, urban ponds play a vital role in nutrient sequestration, flood prevention, and habitat sanctuaries. However, nutrient loading can reduce habitat effectiveness and promote harmful algae blooms. To reduce internal nutrient loads, a biological-chemical treatment strategy consisting of floating treatment wetlands (FTWs) and lanthanum were applied to two urban retention ponds, Densmore and Wilderness Ridge Ponds. To measure effectiveness, chlorophyll-a samples were collected and correlated with Sentinel-2. A novel band algorithm termed 3BR1 produced a strong correlation (R² = 0.72) to physical chlorophyll-a …

Critical Use Of Noaa Coastwatch Great Lakes Node Remote Sensing Of Sea Ice For Uscg Mission Planning, Merrie Beth Neely

Benefits of Ocean Observing Catalog (BOOC)

Timestamp: 44823.3273319444 Email Address: merrie.neely@noaa.gov Name: Merrie Beth Neely Affiliation: Global Science and Technology, Inc. Program Office/Division: NESDIS/STAR/SOCD/NOAA CoastWatch Position Title: Research Scientist (contractor) Title of use case: Critical Use of NOAA CoastWatch Great Lakes Node Remote Sensing of Sea Ice for USCG mission planning Authors or Creators: Neely, M.B. and Lance, V. Affiliations of Authors or Creators: GST, Inc. (Neely) and NOAA Federal (Lance) Contributors: VanderWoude, A and Liu, S. Affiliation of Contributors: NOAA Federal (VanderWoude), CIGLR - University of Michigan (Liu) Description: USCG uses NOAA CoastWatch-supplied true-color imagery, the RADARSAT ice classification, and ice extent imagery when selecting …

Integrating Forest Structural Diversity Measurement Into Ecological Research, Jeff W. Atkins, Parth Bhatt, Luis Carrasco, Emily Francis, James E. Garabedian, Christopher R. Hakkenberg, Brady S. Hardiman, Jinha Jung, Anil Koirala, Elizabeth A. Larue, Sungchan Oh, Gang Shao, Guofan Shao, H. H. Shugart, Anna Spiers, Atticus E.L. Stovall, Thilina D. Surasinghe, Xiaonan Tai, Lu Zhai, Tao Zhang, Keith Krause

Michigan Tech Publications, Part 2

The measurement of forest structure has evolved steadily due to advances in technology, methodology, and theory. Such advances have greatly increased our capacity to describe key forest structural elements and resulted in a range of measurement approaches from traditional analog tools such as measurement tapes to highly derived and computationally intensive methods such as advanced remote sensing tools (e.g., lidar, radar). This assortment of measurement approaches results in structural metrics unique to each method, with the caveat that metrics may be biased or constrained by the measurement approach taken. While forest structural diversity (FSD) metrics foster novel research opportunities, understanding …

Object-Detection From Multi-View Remote Sensing Images: A Case Study Of Fruit And Flower Detection And Counting On A Central Florida Strawberry Farm, Caiwang Zheng, Tao Liu, Amr Abd-Elrahman, Vance M. Whitaker, Benjamin Wilkinson

Michigan Tech Publications, Part 2

Object detection in remote sensing images is one of the most critical computer vision tasks for various earth observation applications. Previous studies applied object detection models to orthomosaic images generated from the SfM (Structure-from-Motion) analysis to perform object detection and counting. However, some small objects that are occluded from the vertical view but observable in raw images from the oblique views cannot be detected in the orthomosaic image, leading to an occlusion issue that cannot be resolved with the traditional orthophoto-based approach. Taking strawberry detection as a case study, the objective of this study is to detect small objects directly …

"The Trees Act Not As Individuals"--Learning To See The Whole Picture In Biology Education And Remote Sensing Research, Rebeka A.F. Greenall

Theses and Dissertations

To increase equity and inclusion for underserved and excluded Indigenous students, we must make efforts to mitigate the unique barriers they face. As their knowledge systems have been historically excluded and erased in Western science, we begin by reviewing the literature on the inclusion of Traditional Ecological Knowledge (TEK) in biology education and describe best practices. Next, to better understand how Native Hawaiian and other Pacific Islander (NHPI) students integrate into the scientific community, we used Social Influence Theory as a framework to measure NHPI student science identity, self-efficacy, alignment with science values, and belonging. We also investigated how students …

Using Landsat Imagery To Analyse Land Cover Change In The Njoro Watershed, Kenya, T. J. Baldyga, S. N. Miller, K. L. Driese, C. Maina-Gichaba

IGC Proceedings (1997-2023)

In developing nations where resources are scarce and increased population pressures create stress on available resources, methods are needed to examine effects of human migration and resultant changes in land cover. Widespread availability and low cost of remotely sensed imagery and Geographic Information Systems (GIS) are making such methods a reality to develop quantitative resource mapping and land cover change detection in developing nations (Sheng et al., 1997). However, difficulties arise in tropical regions when trying to analyse traditional vegetation bands (Bands 3 and 4), or indices such as NDVI because saturated pixels limit spectral distinction.

Analyzing The Adoption, Cropping Rotation, And Impact Of Winter Cover Crops In The Mississippi Alluvial Plain (Map) Region Through Remote Sensing Technologies, Zobaer Ahmed

Graduate Theses and Dissertations

This dissertation explores the application of remote sensing technologies in conservation agriculture, specifically focusing on identifying and mapping winter cover crops and assessing voluntary cover crop adoption and cropping patterns in the Arkansas portion of the Mississippi Alluvial Plain (MAP). In the first chapter, a systematic review using the PRISMA methodology examines the last 30 years of thematic research, development, and trends in remote sensing applied to conservation agriculture from a global perspective. The review uncovers a growing interest in remote sensing-based research in conservation agriculture and emphasizes the necessity for further studies dedicated to conservation practices. Among the 68 …

Characterization Of Boreal-Arctic Vegetation Growth Phases And Active Soil Layer Dynamics In The High-Latitudes Of North America: A Study Combining Multi-Year In Situ And Satellite-Based Observations, Michael G. Brown

Dissertations, Theses, and Capstone Projects

This dissertation examined the seasonal freeze/thaw activity in boreal-Arctic soils and vegetation physiology in Alaska, USA and Alberta, Canada, using in situ environmental measurements and passive microwave satellite observations. The boreal-Arctic high-latitudes have been experiencing ecosystem changes more rapidly in comparison to the rest of Earth due to the presently warming climatic conditions having a magnified effect over Polar Regions. Currently, the boreal-Arctic is a carbon sink; however, recent studies indicate a shift over the next century to become a carbon source. High-latitude vegetation and cold soil dynamics are influenced by climatic shifts and are largely responsible for the regions …

Identifying Sources Of Landscape Variation To Improve Predictions Of Post-Fire Sagebrush Steppe Recovery, Cara Applestein

Boise State University Theses and Dissertations

Sagebrush steppe ecosystems are endangered landscapes, threated by the annual grass-fire cycle where invasion by annual grasses drives larger fires and larger fires drive invasion. Despite extensive input of resources by land management agencies, restoration of these ecosystems is notoriously variable and difficult to predict. Understanding and accounting for variation is key to effectively allocating limited resources and having success in restoring burned sagebrush landscapes. I utilized Bayesian modeling to assess how variation in weather, seed dispersal, and topography/slope/landscape position affects understanding of post-fire sagebrush-steppe recovery and how we can best incorporate sources of variation into models predicting where plant …

Evapotranspiration And Energy Balance Of Irrigated Urban Turfgrass, Matthew D. Miksch

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Water usage for irrigation is a big consumer of water resources in urban areas in Utah and other parts of the Intermountain Region of the Western United States. As populations continue to increase in these states, it is important to understand how much water is being used by urban landscapes in order to plan and manage future water resources. Evapotranspiration (ET), or the amount of water leaving a surface over a certain timeframe due to both transpiration from plants and evaporation from the soil, is a key variable in understanding how much water urban landscapes are really using to grow …

Landscape Genetics Of The Gulf Coast Tick, Amblyomma Maculatum, Sara Simmons Benham

Biological Sciences Theses & Dissertations

Connectivity among populations helps to maintain genetic diversity, population stability, and resilience. The Gulf Coast tick, Amblyomma maculatum, is a vector of the pathogen Rickettsia parkeri. Persistence of tick populations with high rates of R. parkeri infection poses health risks to humans and animals. Mitochondrial haplotypes were characterized by sequencing a fragment of the mitochondrial 16S rRNA gene. A comparative study of A. maculatum and Amblyomma americanum was conducted to identify similar and unique patterns between the species within the same region. Next, I compared A. maculatum sites across three different regions of the United States. This work …

Remote Sensing In Mapping Biodiversity – A Case Study Of Epiphytic Lichen Communities, Ida Palmroos, Veera Norros, Sarita Keski-Saari, Janne Mäyrä, Topi Tanhuanpää, Sonja Kivinen, Juha Pykälä, Peter Kullberg, Timo Kumpula, Petteri Vihervaara

Aspen Bibliography

In boreal forests, European aspen (Populus tremula L.) is a keystone species that hosts a variety of accompanying species including epiphytic lichens. Forest management actions have led to a decrease in aspen abundance and subsequent loss of suitable habitats of epiphytic lichens. In this study, we evaluate the environmental responses of epiphytic lichen species richness and community composition on aspen, focusing on the potential of remote sensing by combined hyperspectral imaging and airborne laser scanning to identify suitable habitats for epiphytic lichens. We measured different substrate and habitat parameters in the field (e.g., aspen diameter and bark pH) …

Characterization Of Physical And Biochemical Traits In Wheat And Corn Plants Using High Throughput Image Analysis, Kantilata Thapa

Department of Biological Systems Engineering: Dissertations and Theses

Plant phenotyping has been recognized as a rapidly growing field of research due to the labor-intensive, destructive, and time-consuming nature of traditional phenotyping methods. These phenotyping bottlenecks can be addressed by advancements in image-based phenotyping like RGB and hyperspectral imaging for the assessment of plant traits important for breeding purposes. This study aims (1) to characterize the physical and biochemical traits of wheat and corn plants using RGB and hyperspectral imaging in the greenhouse, and (2) to estimate leaf nitrogen (N), phosphorus (P), and potassium (K) content using hyperspectral imaging and an analytical spectral device (ASD spectrometer) and compare the …

A Decision Support System For Rangeland Management In Degrading Environments, R. G. Bennett, F. J. Mitchell

IGC Proceedings (1997-2023)

The continued viability and productivity of commercial and emerging agriculture in KwaZulu-Natal Province, South Africa, depends on the accurate assessment and sustainable utilization of available natural resources. Sustainability implies that growth and development must take place, and be maintained over time, within the limits set by natural ecosystems. Utilizing an extensive GIS database, field surveys and remote sensing technology, a land assessment decision support system (LADSS) has been developed in an attempt to define these limits for the Province. This system has been developed to assess the appropriate use of existing resources as well as the suitability of current land …

Detecting Fauna Habitat In Semi-Arid Grasslands Using Satellite Imagery, N. A. Bruce, Ian D. Lunt, M. Abuzar, M. Mitchell

IGC Proceedings (1997-2023)

Managing grasslands for biodiversity conservation is a relatively recent phenomenon and there is uncertainty over the most effective strategy. Past research has found that intermediate levels of disturbance (e.g. burning or grazing) may be required to maintain the natural mosaic of small-scale patterning required for a diverse range of flora and fauna species. For sustainable grassland management, appropriate methods of spatial assessment and temporal monitoring are required, to facilitate understanding of how past and present climate, land management and landscape features influence vegetation structure. Due to the expense and time-consuming nature of conventional ground-based monitoring, satellite remote-sensing techniques offer a …

A Comparison Of Ground And Remote Sensing Methods For Estimating Big Sagebrush ( Artemisia Tridentata Nutt.) Cover, Eliza Cash, April Hulet, Keegan Hammond, Steve Peterson, Ryan Jensen

Library/Life Sciences Undergraduate Poster Competition 2023

Habitat monitoring and management for sagebrush obligate species are often based on sagebrush cover estimates

Remote sensing methods, including object based image analyses (OBIA), may be a good method to estimate sagebrush cover over large landscapes.

Research Objective: Compare traditional ground measurements used to estimate sagebrush cover with OBIA using high resolution imagery.

Increased Floodplain Inundation In The Amazon Since 1980, Ayan Fleischmann, Fabrice Papa, Stephen K. Hamilton, Alice Fassoni-Andrade, Sly Wongchuig, Jhan Carlo Espinoza, Rodrigo Paiva, John Melack, Etienne Fluet-Chouinard, Rafael M. Almeida

School of Earth, Environmental, and Marine Sciences Faculty Publications and Presentations

Extensive floodplains throughout the Amazon basin support important ecosystem services and influence global water and carbon cycles. A recent change in the hydroclimatic regime of the region, with increased rainfall in the northern portions of the basin, has produced record-breaking high water levels on the Amazon River mainstem. Yet, the implications for the magnitude and duration of floodplain inundation across the basin remain unknown. Here we leverage state-of-the-art hydrological models, supported by in situ and remote sensing observations, to show that the maximum annual inundation extent along the central Amazon increased by 26% since 1980. We further reveal increased flood …

Characterizing The Vegetation And Effects Of Climate Change On Parris Island, A Sea Island Ecosystem, Cody Hart Goodson

Theses, Dissertations and Capstones

Coastal habitats provide many ecosystem services, protecting coastlines from storm surges and erosion, diminishing the effects of eutrophication, sequestering large amounts of carbon, and acting as vital wildlife habitat. Sea-level rise and increased storm surge intensity associated with climate change are increasingly disrupting coastal habitats. These disturbances can shift environmental gradients that drive the zonation of coastal vegetation types, driving habitat conversion. Monitoring coastal habitat conversion can improve our understanding of the dynamic effects of climate change on these landscapes. Therefore, our objectives for chapter 1 were to identify and describe the distributions of vegetation types present on Marine Corps …

Biophysical Interactions Control The Progression Of Harmful Algal Blooms In Chesapeake Bay: A Novel Lagrangian Particle Tracking Model With Mixotrophic Growth And Vertical Migration, Jilian Xiong, Jian Shen, Qubin Qin, Michelle C. Tomlinson, Yinglong J. Zhang, Xun Cai, Fei Yi, Linlin Cui, Margaret R. Mulholland

OES Faculty Publications

Climate change and nutrient pollution contribute to the expanding global footprint of harmful algal blooms. To better predict their spatial distributions and disentangle biophysical controls, a novel Lagrangian particle tracking and biological (LPT-Bio) model was developed with a high-resolution numerical model and remote sensing. The LPT-Bio model integrates the advantages of Lagrangian and Eulerian approaches by explicitly simulating algal bloom dynamics, algal biomass change, and diel vertical migrations along predicted trajectories. The model successfully captured the intensity and extent of the 2020 Margalefidinium polykrikoides bloom in the lower Chesapeake Bay and resolved fine-scale structures of bloom patchiness, demonstrating a reliable …

The Vulnerability And Resilience Of Seagrass Ecosystems To Marine Heatwaves In New Zealand: A Remote Sensing Analysis Of Seascape Metrics Using Planetscope Imagery, Ken Joseph E. Clemente, Mads S. Thomsen, Richard C. Zimmerman

OES Faculty Publications

Seagrasses are foundation species that provide ecosystem functions and services, including increased biodiversity, sediment retention, carbon sequestration, and fish nursery habitat. However, anthropogenic stressors that reduce water quality, impose large-scale climate changes, and amplify weather patterns, such as marine heatwaves, are altering seagrass meadow configurations. Quantifying large-scale trends in seagrass distributions will help evaluate the impacts of climate drivers on their functions and services. Here, we quantified spatiotemporal dynamics in abundances and configurations of intertidal and shallow subtidal seagrass (Zostera muelleri) meadows in 20 New Zealand (NZ) estuaries that span a 5-year period (mid/late 2016–early 2022) just before, …

Remote Sensing Of Georgia Tidal Marsh Habitats Using Aerial Photography And Planetscope Satellite Imagery, Harrison M. Currin

Electronic Theses and Dissertations

Globally, tidal marshes cover about 90,800 km. Within the state of Georgia tidal marshes are primarily located behind the barrier islands and total 1,619 km². The combination of high salinity environments and daily inundation, and being dependent on river output, make these dynamic systems. Tidal marshes provide numerous ecosystem services such as carbon and nitrogen sequestration, flood control, coastal protection, and numerous biogeochemical processes. Due to their unique position, tidal marshes are under threat from sea level rise, drought, coastal development, and large-scale disturbance events. Tidal freshwater marshes are especially susceptible to these threats due to their geographic …

Animal Husbandry In The 21st Century: Application Of Ecological Theory And Precision Technology To Inform Understanding Of Modern Grazing Systems, Ira Lloyd Parsons

Theses and Dissertations

Ruminant animals comprise the greatest proportion of herbivores around the world, provide essential ecosystem services and human consumable protein by consuming grass and human inedible dietary fiber. Herbivory pressure alters plant communities and species diversity, effectively making grazing animals ecosystem engineers in dynamic ecosystems. Development of advanced computer processing power coupled with biometric and ecosystem sensors may be employed in the internet of things framework to create an integrated information system designed to inform understanding of grazing system function and animal energy balance. Towards this end, I utilized Bos indicus / Bos taurus crossbred steers (n = 20) across two …

Mapping Forest Structure In Mississippi Using Lidar Remote Sensing, Nitant Rai

Theses and Dissertations

This study aimed at evaluating the agreement of spaceborne Light Detection and Ranging (lidar) ICESat-2 canopy height with Airborne Laser Scanning (ALS) derived canopy height to inform about the performance of ICESat-2 canopy height metrics and understand its uncertainties and utilities. The agreement was assessed for different forest types, physiographic regions, a range of percent canopy cover, and diverse disturbance histories. Results of this study suggest that best agreements are found using strong beam data collected at night for canopy height retrieval using ICESat-2. The ICESat-2 showed great potential for estimating canopy heights, particularly in evergreen forests with high canopy …