Open Access. Powered by Scholars. Published by Universities.®
Articles 1 - 14 of 14
Full-Text Articles in Life Sciences
Long Oligodeoxynucleotides: Chemical Synthesis, Isolation Via Catching-By-Polymerization, Verification Via Sequencing, And Gene Expression Demonstration, Yipeng Yin, Reed Arneson, Alexander Apostle, Adikari M.D.N. Eriyagama, Komal Chillar, Emily Burke, Martina Jahfetson, Yinan Yuan, Shiyue Fang
Long Oligodeoxynucleotides: Chemical Synthesis, Isolation Via Catching-By-Polymerization, Verification Via Sequencing, And Gene Expression Demonstration, Yipeng Yin, Reed Arneson, Alexander Apostle, Adikari M.D.N. Eriyagama, Komal Chillar, Emily Burke, Martina Jahfetson, Yinan Yuan, Shiyue Fang
Michigan Tech Publications, Part 2
Long oligodeoxynucleotides (ODNs) are segments of DNAs having over one hundred nucleotides (nt). They are typically assembled using enzymatic methods such as PCR and ligation from shorter 20 to 60 nt ODNs produced by automated de novo chemical synthesis. While these methods have made many projects in areas such as synthetic biology and protein engineering possible, they have various drawbacks. For example, they cannot produce genes and genomes with long repeats and have difficulty to produce sequences containing stable secondary structures. Here, we report a direct de novo chemical synthesis of 400 nt ODNs, and their isolation from the complex …
Demographic History Shapes North American Gray Wolf Genomic Diversity And Informs Species' Conservation, Bridgett M. Vonholdt, Daniel R. Stahler, Kristin Brzeski, Marco Musiani, Rolf O. Peterson, Michael Phillips, John Stephenson, Kent Laudon, Erin Meredith, John Vucetich, Jennifer A. Leonard, Robert K. Wayne
Demographic History Shapes North American Gray Wolf Genomic Diversity And Informs Species' Conservation, Bridgett M. Vonholdt, Daniel R. Stahler, Kristin Brzeski, Marco Musiani, Rolf O. Peterson, Michael Phillips, John Stephenson, Kent Laudon, Erin Meredith, John Vucetich, Jennifer A. Leonard, Robert K. Wayne
Michigan Tech Publications, Part 2
Effective population size estimates are critical information needed for evolutionary predictions and conservation decisions. This is particularly true for species with social factors that restrict access to breeding or experience repeated fluctuations in population size across generations. We investigated the genomic estimates of effective population size along with diversity, subdivision, and inbreeding from 162,109 minimally filtered and 81,595 statistically neutral and unlinked SNPs genotyped in 437 grey wolf samples from North America collected between 1986 and 2021. We found genetic structure across North America, represented by three distinct demographic histories of western, central, and eastern regions of the continent. Further, …
The Role Of Governance In Rewilding The United States To Stem The Biodiversity Crisis, Shelby C. Carlson, John A. Vucetich, L Mark Elbroch, Shelby Perry, Lydia A. Roe, Tom Butler, Jeremy T. Bruskotter
The Role Of Governance In Rewilding The United States To Stem The Biodiversity Crisis, Shelby C. Carlson, John A. Vucetich, L Mark Elbroch, Shelby Perry, Lydia A. Roe, Tom Butler, Jeremy T. Bruskotter
Michigan Tech Publications, Part 2
A critical but underattended feature of the biodiversity crisis is the contraction of geographic range experienced by most studied terrestrial vertebrates. In the United States, the primary policy tool for mitigating the biodiversity crisis is a federal law, the Endangered Species Act (ESA). For the past two decades, the federal agencies that administer the ESA have interpreted the act in a manner that precludes treating this geographic element of the crisis. Therefore, the burden of mitigating the biodiversity crisis largely falls on wildlife agencies within state government, which are obligated to operate on behalf of the interests of their constituents. …
Regulation Of Regeneration In Arabidopsis Thaliana, Md Khairul Islam, Sai Teja Mummadi, Sanzhen Liu, Hairong Wei
Regulation Of Regeneration In Arabidopsis Thaliana, Md Khairul Islam, Sai Teja Mummadi, Sanzhen Liu, Hairong Wei
Michigan Tech Publications, Part 2
We employed several algorithms with high efficacy to analyze the public transcriptomic data, aiming to identify key transcription factors (TFs) that regulate regeneration in Arabidopsis thaliana. Initially, we utilized CollaborativeNet, also known as TF-Cluster, to construct a collaborative network of all TFs, which was subsequently decomposed into many subnetworks using the Triple-Link and Compound Spring Embedder (CoSE) algorithms. Functional analysis of these subnetworks led to the identification of nine subnetworks closely associated with regeneration. We further applied principal component analysis and gene ontology (GO) enrichment analysis to reduce the subnetworks from nine to three, namely subnetworks 1, 12, and 17. …
Demographic History Shapes North American Gray Wolf Genomic Diversity And Informs Species' Conservation, Bridgett M. Vonholdt, Daniel R. Stahler, Kristin Brzeski, Marco Musiani, Rolf O. Peterson, Michael Phillips, John Stephenson, Kent Laudon, Erin Meredith, John A. Vucetich, Jennifer A. Leonard, Robert K. Wayne
Demographic History Shapes North American Gray Wolf Genomic Diversity And Informs Species' Conservation, Bridgett M. Vonholdt, Daniel R. Stahler, Kristin Brzeski, Marco Musiani, Rolf O. Peterson, Michael Phillips, John Stephenson, Kent Laudon, Erin Meredith, John A. Vucetich, Jennifer A. Leonard, Robert K. Wayne
Michigan Tech Publications, Part 2
Effective population size estimates are critical information needed for evolutionary predictions and conservation decisions. This is particularly true for species with social factors that restrict access to breeding or experience repeated fluctuations in population size across generations. We investigated the genomic estimates of effective population size along with diversity, subdivision, and inbreeding from 162,109 minimally filtered and 81,595 statistically neutral and unlinked SNPs genotyped in 437 grey wolf samples from North America collected between 1986 and 2021. We found genetic structure across North America, represented by three distinct demographic histories of western, central, and eastern regions of the continent. Further, …
Micro-Fibrillated Cellulose In Lignin–Phenol–Formaldehyde Adhesives For Plywood Production, Sheikh Ali Ahmed, Reza Hosseinpourpia, Stergios Adamopoulos
Micro-Fibrillated Cellulose In Lignin–Phenol–Formaldehyde Adhesives For Plywood Production, Sheikh Ali Ahmed, Reza Hosseinpourpia, Stergios Adamopoulos
Michigan Tech Publications, Part 2
Petrochemical-based phenol–formaldehyde (PF) adhesives are widely used in plywood production. To substitute phenol in the synthesis of PF adhesives, lignin can be added due to its structural similarity to phenol. Moreover, micro-fibrillated cellulose (MFC) can further enhance the bond performance, mechanical properties, and toughness of adhesive systems. Thus, the aim of this study was to evaluate the adhesion performance of lignin–PF (LPF) adhesives reinforced with MFC. In LPF formulations, three levels of MFC (0, 15, and 30 wt% based on the total solid content of adhesives) were added to the homogenous adhesive mixture. Three-layer plywood panels from birch (Betula pendula …
Ecological Change And Livestock Governance In A Peruvian National Park, Kenneth R. Young, Eyner Alata, Rodney Chimner, Randall B. Boone, Gillian Bowser, Laura Bourgeau-Chavez, Beatriz Fuentealba, Jessica Gilbert, Javier A. Ñaupari, Molly H. Polk, Sigrid Resh, Cecilia Turin, Melody Zarria-Samanamud
Ecological Change And Livestock Governance In A Peruvian National Park, Kenneth R. Young, Eyner Alata, Rodney Chimner, Randall B. Boone, Gillian Bowser, Laura Bourgeau-Chavez, Beatriz Fuentealba, Jessica Gilbert, Javier A. Ñaupari, Molly H. Polk, Sigrid Resh, Cecilia Turin, Melody Zarria-Samanamud
Michigan Tech Publications, Part 2
While the grazing of livestock has occurred for millennia in the Andes, current sustainability debates center on concerns with co-managing climate change and pastoralism. These discussions have special resonance in places protected by the state for biodiversity, scenery, and sustainable and traditional land uses, such as those found in protected areas and biosphere reserves. For this article, we integrate data from a social-ecological research project on the land use systems that affect high-elevation ecosystems in Peru’s Huascarán National Park, with special emphasis on the wetlands. We used land cover and land use data and insights from interactions with pastoralists to …
A Haplotype-Resolved Chromosome-Scale Genome For Quercus Rubra L. Provides Insights Into The Genetics Of Adaptive Traits For Red Oak Species, Beant Kapoor, Jerry Jenkins, Jeremy Schmutz, Tatyana Zhebentyayeva, Carsten Kulheim, Mark Coggeshall, Chris Heim, Jesse R. Lasky, Laura Leites, Nurul Islam-Faridi, Jeanne Romero-Severson, Victoria L. Deleo, Sarah M. Lucas, Desanka Lazic, Oliver Gailing, John Carlson, Margaret Staton
A Haplotype-Resolved Chromosome-Scale Genome For Quercus Rubra L. Provides Insights Into The Genetics Of Adaptive Traits For Red Oak Species, Beant Kapoor, Jerry Jenkins, Jeremy Schmutz, Tatyana Zhebentyayeva, Carsten Kulheim, Mark Coggeshall, Chris Heim, Jesse R. Lasky, Laura Leites, Nurul Islam-Faridi, Jeanne Romero-Severson, Victoria L. Deleo, Sarah M. Lucas, Desanka Lazic, Oliver Gailing, John Carlson, Margaret Staton
Michigan Tech Publications, Part 2
Northern red oak (Quercus rubra L.) is an ecologically and economically important forest tree native to North America. We present a chromosome-scale genome of Q. rubra generated by the combination of PacBio sequences and chromatin conformation capture (Hi-C) scaffolding. This is the first reference genome from the red oak clade (section Lobatae). The Q. rubra assembly spans 739 Mb with 95.27% of the genome in 12 chromosomes and 33,333 protein-coding genes. Comparisons to the genomes of Quercus lobata and Quercus mongolica revealed high collinearity, with intrachromosomal structural variants present. Orthologous gene family analysis with other tree species revealed that gene …
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
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
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 …
Evaluating Impacts Of R3 Workshops For First-Time Hunters At Universities Across The United States, Richard Von Furstenberg, Victoria R. Vayer, Lincoln R. Larson, M. Nils Peterson, Kangjae Jerry Lee, Kathryn Stevenson, Adam A. Ahlers, Christine Anhalt-Depies, Taniya Bethke, Brian Clark, Kiley M. Davan, Ashley A. Dayer, Todd E. Fisher, Benjamin Ghasemi, Larry Gigliotti, Kris Irwin, Samuel J. Keith, Matt Kelly, Gerard Kyle, Elizabeth Metcalf, Mark D. Needham, Neelam C. Poudyal, Michael Quartuch, Shari L. Rodriguez, Chelsie Romulo, Ryan L. Sharp, William Siemer, Matthew T. Springer, Richard Stedman, Taylor Stein, Timothy R. Van Deelen
Evaluating Impacts Of R3 Workshops For First-Time Hunters At Universities Across The United States, Richard Von Furstenberg, Victoria R. Vayer, Lincoln R. Larson, M. Nils Peterson, Kangjae Jerry Lee, Kathryn Stevenson, Adam A. Ahlers, Christine Anhalt-Depies, Taniya Bethke, Brian Clark, Kiley M. Davan, Ashley A. Dayer, Todd E. Fisher, Benjamin Ghasemi, Larry Gigliotti, Kris Irwin, Samuel J. Keith, Matt Kelly, Gerard Kyle, Elizabeth Metcalf, Mark D. Needham, Neelam C. Poudyal, Michael Quartuch, Shari L. Rodriguez, Chelsie Romulo, Ryan L. Sharp, William Siemer, Matthew T. Springer, Richard Stedman, Taylor Stein, Timothy R. Van Deelen
Michigan Tech Publications, Part 2
Declines in hunter numbers across the United States make hunter recruitment, retention, and reactivation (R3) a high priority for wildlife management. As wildlife management agencies and nongovernmental organizations seek to reach new audiences, college campuses present a unique opportunity to cultivate nontraditional path hunters. Despite recent proliferation of R3 initiatives, little research has evaluated effects of hunting programs on knowledge, attitudes, and behaviors of new hunters. We designed and implemented Getting Started Outdoors: Hunting 101 workshops specifically targeting college students without previous hunting experience, and we assessed workshop efficacy with a theoretically-grounded approach to workshop evaluation. Using quantitative and qualitative …
Reconstructing 42 Years (1979–2020) Of Great Lakes Surface Temperature Through A Deep Learning Approach, Miraj Kayastha, Tao Liu, Daniel Titze, Timothy C. Havens, Chenfu Huang, Pengfei Xue
Reconstructing 42 Years (1979–2020) Of Great Lakes Surface Temperature Through A Deep Learning Approach, Miraj Kayastha, Tao Liu, Daniel Titze, Timothy C. Havens, Chenfu Huang, Pengfei Xue
Michigan Tech Publications, Part 2
Accurate estimates for the lake surface temperature (LST) of the Great Lakes are critical to understanding the regional climate. Dedicated lake models of various complexity have been used to simulate LST but they suffer from noticeable biases and can be computationally expensive. Additionally, the available historical LST datasets are limited by either short temporal coverage (<30 >years) or lower spatial resolution (0.25° × 0.25°). Therefore, in this study, we employed a deep learning model based on Long Short-Term Memory (LSTM) neural networks to produce a daily LST dataset for the Great Lakes that spans an unparalleled 42 years (1979–2020) at …
The Far-Reaching Effects Of Genetic Process In A Keystone Predator Species, Grey Wolves, Sarah Hoy, Philip W. Hedrick, Rolf O. Peterson, Leah Vucetich, Kristin Brzeski, John A. Vucetich
The Far-Reaching Effects Of Genetic Process In A Keystone Predator Species, Grey Wolves, Sarah Hoy, Philip W. Hedrick, Rolf O. Peterson, Leah Vucetich, Kristin Brzeski, John A. Vucetich
Michigan Tech Publications, Part 2
Although detrimental genetic processes are known to adversely affect the viability of populations, little is known about how detrimental genetic processes in a keystone species can affect the functioning of ecosystems. Here, we assessed how changes in the genetic characteristics of a keystone predator, grey wolves, affected the ecosystem of Isle Royale National Park over two decades. Changes in the genetic characteristic of the wolf population associated with a genetic rescue event, followed by high levels of inbreeding, led to a rise and then fall in predation rates on moose, the primary prey of wolves and dominant mammalian herbivore in …
Burned Area And Carbon Emissions Across Northwestern Boreal North America From 2001-2019, Stefano Potter, Sol Cooperdock, Sander Veraverbeke, Xanthe Walker, Michelle C. Mack, Scott J. Goetz, Jennifer Baltzer, Laura Bourgeau-Chavez, Arden Burrell, Catherine Dieleman, Nancy French, Stijn Hantson, Elizabeth E. Hoy, Liza Jenkins, Jill F. Johnstone, Evan S. Kane, Susan M. Natali, James T. Randerson, Merritt R. Turetsky, Ellen Whitman, Elizabeth Wiggins, Brendan M. Rogers
Burned Area And Carbon Emissions Across Northwestern Boreal North America From 2001-2019, Stefano Potter, Sol Cooperdock, Sander Veraverbeke, Xanthe Walker, Michelle C. Mack, Scott J. Goetz, Jennifer Baltzer, Laura Bourgeau-Chavez, Arden Burrell, Catherine Dieleman, Nancy French, Stijn Hantson, Elizabeth E. Hoy, Liza Jenkins, Jill F. Johnstone, Evan S. Kane, Susan M. Natali, James T. Randerson, Merritt R. Turetsky, Ellen Whitman, Elizabeth Wiggins, Brendan M. Rogers
Michigan Tech Publications, Part 2
Fire is the dominant disturbance agent in Alaskan and Canadian boreal ecosystems and releases large amounts of carbon into the atmosphere. Burned area and carbon emissions have been increasing with climate change, which have the potential to alter the carbon balance and shift the region from a historic sink to a source. It is therefore critically important to track the spatiotemporal changes in burned area and fire carbon emissions over time. Here we developed a new burned-area detection algorithm between 2001-2019 across Alaska and Canada at 500 m (meters) resolution that utilizes finer-scale 30 m Landsat imagery to account for …