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11,548 full-text articles. Page 5 of 421.

Genetic Relationships In The Toxin-Producing Fungal Endophyte, Alternaria Oxytropis Using Polyketide Synthase And Non-Ribosomal Peptide Synthase Genes, Rebecca Creamer, Deana Baucom Hille, Marwa Neyaz, Tesneem Nusayr, Christopher L. Schardl, Daniel Cook 2021 New Mexico State University

Genetic Relationships In The Toxin-Producing Fungal Endophyte, Alternaria Oxytropis Using Polyketide Synthase And Non-Ribosomal Peptide Synthase Genes, Rebecca Creamer, Deana Baucom Hille, Marwa Neyaz, Tesneem Nusayr, Christopher L. Schardl, Daniel Cook

Plant Pathology Faculty Publications

The legume Oxytropis sericea hosts a fungal endophyte, Alternaria oxytropis, which produces secondary metabolites (SM), including the toxin swainsonine. Polyketide synthase (PKS) and non-ribosomal peptide synthase (NRPS) enzymes are associated with biosynthesis of fungal SM. To better understand the origins of the SM, an unannotated genome of A. oxytropis was assessed for protein sequences similar to known PKS and NRPS enzymes of fungi. Contigs exhibiting identity with known genes were analyzed at nucleotide and protein levels using available databases. Software were used to identify PKS and NRPS domains and predict identity and function. Confirmation of sequence for selected gene sequences ...


A Low Vitamin B12 Induced Transcriptional Mechanism That Regulates Metabolic Activity Of The Methionine/S-Adenosylmethionine Cycle In Caenorhabditis Elegans, Gabrielle E. Giese 2021 University of Massachusetts Medical School

A Low Vitamin B12 Induced Transcriptional Mechanism That Regulates Metabolic Activity Of The Methionine/S-Adenosylmethionine Cycle In Caenorhabditis Elegans, Gabrielle E. Giese

GSBS Dissertations and Theses

Cells must regulate their metabolism in order to grow, adapt to changes in nutrient availability and maintain homeostasis. Flux, or the turnover of metabolites, through the metabolic network can be regulated at the allosteric and transcriptional levels. While study of allosteric regulation is limited to biochemical examination of individual proteins, transcriptional control of metabolism can be explored at a systems level. We endeavored to elucidate transcriptional mechanisms of metabolic flux regulation in the model organism Caenorhabditis elegans (C. elegans). We also worked to create a visual tool to explore metabolic pathways that will support future efforts in the research of ...


Novel Scalable And Simplified System To Generate Microglia-Containing Cerebral Organoids From Human Induced Pluripotent Stem Cells, Brittany Bodnar, Yongang Zhang, Jinbiao Liu, Yuan Lin, Peng Wang, Zhengyu Wei, Sami Saribas, Yuanjun Zhu, Fang Li, Xu Wang, Wenli Yang, Qingsheng Li, Wen-Zhe Ho, Wenhui Hu 2021 Temple University Lewis Katz School of Medicine

Novel Scalable And Simplified System To Generate Microglia-Containing Cerebral Organoids From Human Induced Pluripotent Stem Cells, Brittany Bodnar, Yongang Zhang, Jinbiao Liu, Yuan Lin, Peng Wang, Zhengyu Wei, Sami Saribas, Yuanjun Zhu, Fang Li, Xu Wang, Wenli Yang, Qingsheng Li, Wen-Zhe Ho, Wenhui Hu

Virology Papers

Human cerebral organoid (CO) is a three-dimensional (3D) cell culture system that recapitulates the developing human brain. While CO has proved an invaluable tool for studying neurological disorders in a more clinically relevant matter, there have still been several shortcomings including CO variability and reproducibility as well as lack of or underrepresentation of certain cell types typically found in the brain. As the technology to generate COs has continued to improve, more efficient and streamlined protocols have addressed some of these issues. Here we present a novel scalable and simplified system to generate microglia-containing CO (MCO). We characterize the cell ...


The Differences Of Prokaryotic Pan-Genome Analysis On Complete Genomes And Simulated Metagenome-Assembled Genomes, Tang Li 2021 University of Nebraska-Lincoln

The Differences Of Prokaryotic Pan-Genome Analysis On Complete Genomes And Simulated Metagenome-Assembled Genomes, Tang Li

Dissertations, Theses, & Student Research in Food Science and Technology

Metagenomic assembly is often used in microbiome research. In metagenomic assembly, contigs are binned based on the shared nucleotide composition. These contig bins are called metagenome-assembled genomes (MAGs), each representing a unique bacterial genome recovered from metagenome sequencing. Hundreds of thousands of high-quality MAGs of various ecological environments have been published since 2017, and increasingly more MAGs are being used in pan-genome analyses where unculturable species or species without reference genomes are studied in microbiome research. However, compared to the traditional pan-genome analysis that uses isolate genomes (from a pure strain isolated from a mixed bacterial population), it is not ...


Sensitive And Specific Detection Of Sars-Cov-2 In Saliva Using Reverse Transcriptase Loop-Mediated Isothermal Amplification, Casey Juntila 2021 Northern Michigan University

Sensitive And Specific Detection Of Sars-Cov-2 In Saliva Using Reverse Transcriptase Loop-Mediated Isothermal Amplification, Casey Juntila

All NMU Master's Theses

A novel coronavirus called SARS-CoV-2 has caused the emergency release of the most well-known molecular assay, the CDC N1 RT-PCR assay, causing reports of poor analytical performance resulting in false-negative results (20, 26), and inconsistent testing kits received (23, 32). An immediate and dire need for a rapid and reliable SARS-CoV-2 testing workflow specifically designed for a university setting is the purpose this project is aiming and intended to fulfill. The workflow design uses a less invasive saliva sample for rapid screening using colorimetric RT-LAMP detection of three SARS-CoV-2 gene regions for Orf1ab, envelope, and nucleocapsid. Purified SARS-CoV-2 genomic RNA ...


The Genetics Of Aggression In Unique Three-Spined Stickleback Populations, Megan Tucker, Colby Behrens, Alison M. Bell 2021 City Colleges of Chicago - Malcolm X College

The Genetics Of Aggression In Unique Three-Spined Stickleback Populations, Megan Tucker, Colby Behrens, Alison M. Bell

PRECS student works

No abstract provided.


Evaluation Of Horizontal Gene Transfer Between Genetically Engineered Cyanobacteria And Gram-Negative Bacteria, Andriana Chrysovalanti Zourou 2021 Old Dominion University

Evaluation Of Horizontal Gene Transfer Between Genetically Engineered Cyanobacteria And Gram-Negative Bacteria, Andriana Chrysovalanti Zourou

Chemistry & Biochemistry Theses & Dissertations

As the world population is increasing and societies become more technology driven, there is an imperative to develop ‘green energy’ sources to protect our planet. Cyanobacteria that have been genetically engineered to produce organic compounds that may be burnt as fuels show great potential, as they are an environmentally friendly and self-renewable, net carbon-neutral option. However, there are potential risks in the development and use of genetically modified organisms (GMOs). We need to understand in advance the risks that GMOs may pose to our environment and to animal and human health. This will enable experimental procedures, containment strategies and policies ...


Host-Induced Gene Silencing Of A Sclerotinia Sclerotiorum Oxaloacetate Acetylhydrolase Using Bean Pod Mottle Virus As A Vehicle Reduces Disease On Soybean, Megan McCaghey, Dandan Shao, Jake Kurcezewski, Ally Lindstrom, Ashish Ranjan, Steven Whitham, Shawn P. Conley, Brett Williams, Damon L. Smith, Mehdi Kabbage 2021 University of Wisconsin-Madison

Host-Induced Gene Silencing Of A Sclerotinia Sclerotiorum Oxaloacetate Acetylhydrolase Using Bean Pod Mottle Virus As A Vehicle Reduces Disease On Soybean, Megan Mccaghey, Dandan Shao, Jake Kurcezewski, Ally Lindstrom, Ashish Ranjan, Steven Whitham, Shawn P. Conley, Brett Williams, Damon L. Smith, Mehdi Kabbage

Plant Pathology and Microbiology Publications

A lack of complete resistance in the current germplasm complicates the management of Sclerotinia stem rot (SSR) caused by Sclerotinia sclerotiorum in soybean. In this study, we used bean pod mottle virus (BPMV) as a vehicle to down-regulate expression of a key enzyme in the production of an important virulence factor in S. sclerotiorum, oxalic acid (OA). Specifically, we targeted a gene encoding oxaloacetate acetylhydrolase (Ssoah1), because Ssoah1 deletion mutants are OA deficient and non-pathogenic on soybean. We first established that S. sclerotiorum can uptake environmental RNAs by monitoring the translocation of Cy3-labeled double-stranded and small interfering RNA (ds/siRNAs ...


Can In Vitro Phenotypes Of Fusarium Graminearum Indicate In Planta Aggressiveness?, Harrison Hall, Santiago Mideros 2021 Parkland College

Can In Vitro Phenotypes Of Fusarium Graminearum Indicate In Planta Aggressiveness?, Harrison Hall, Santiago Mideros

PRECS student works

What is Fusarium graminearum and what does it do? Fusarium graminearum (F. graminearum), causes Fusarium Head Blight (FHB) in wheat and barley. FHB results in crop destruction and toxins that are harmful for human and animal consumption. There are several populations of F. graminearum present in North America and rates of in planta aggressiveness and toxin levels vary by Population. Visually, it is difficult to determine the aggression or toxin levels of an infection. However, it may be possible to determine this through in vitro growth. By using in vitro growth, it may be possible to determine in planta aggressiveness ...


Bioinformatics Protocol For Assessing Contamination Level And Quality On Genomics Data Of Ensifer Meliloti, Soohyun Lee, Mario Ceròn Romero, Katy Heath 2021 Parkland College

Bioinformatics Protocol For Assessing Contamination Level And Quality On Genomics Data Of Ensifer Meliloti, Soohyun Lee, Mario Ceròn Romero, Katy Heath

PRECS student works

Nitrogen (N) fixing bacteria have a symbiotic relationship with host plants. The legume plants provide sugar, a product of its photosynthesis, to rhizobacteria. Rhizobacteria, one of the various N fixing bacteria, utilize the sugar for its energy source needed for conversion of N2into NH4+. The rhizobacteria would provide fixed nitrogen to legume plant for its growth in exchange of energy source. There are various symbiotic relationships between microbes and plants, and the Heath Lab is especially interested in relationship between rhizobacteria and legume plants. Various genomic methods to study rhizobacteria require sequence data in Heath Lab. However, there is high ...


Determining The Causal Link Of Honey Bee Gut Microbial Composition On Behavioral Maturation, Thi Lan Anh Nguyen, Cassondra L. Vernier, Gene E. Robinson 2021 Triton College

Determining The Causal Link Of Honey Bee Gut Microbial Composition On Behavioral Maturation, Thi Lan Anh Nguyen, Cassondra L. Vernier, Gene E. Robinson

PRECS student works

Emerging studies have supported the association between gut microbiome and host behaviors. However, it is unclear whether changes in the gut microbiome cause changes in host behaviors or vice versa. The European honey bee, Apis mellifera, is an excellent animal model for identifying the causal link between microbiome and behavioral changes over the lifetime of the host as the honey bee gut contains a simple microbiome composed of only nine bacterial taxa clusters. In honey bees, division of labor occurs through behavioral maturation where age determines what task a bee does. For example, older bees forage while younger bees perform ...


The Effects Of Forest Management Practices On Wild Bee Abundance And Functional Traits, Harvey Vela, Marissa H. Chase, Alexandra Harmon-Threatt 2021 Illinois Valley Community College

The Effects Of Forest Management Practices On Wild Bee Abundance And Functional Traits, Harvey Vela, Marissa H. Chase, Alexandra Harmon-Threatt

PRECS student works

Both wild and managed bees are in decline due to the combined and interactive effects of anthropogenic disturbances such as habitat loss and pesticide use. This is concerning because bees are important not only for the pollination of agricultural lands, but also for plants in both natural and managed landscapes. North America is home to about 4000 native species of bees, all of which can be further classified by various characteristics such as body size, nesting strategy, diet breadth, and sociality. These traits are considered functional traits because they can impact the function – pollination – bees contribute to an ecosystem. The ...


Effects Of Color Polymorphism And Lighting Environments On Male Bluefin Killifish Behavior, Elijah Davis, Ratna Karatgi, Becky Fuller 2021 Black Hawk College

Effects Of Color Polymorphism And Lighting Environments On Male Bluefin Killifish Behavior, Elijah Davis, Ratna Karatgi, Becky Fuller

PRECS student works

Polymorphism occurs when multiple, discrete phenotypes exist for a trait within the same species. Polyphenism, a form of phenotypic plasticity, occurs when the environment in which animals develop determines which discrete, morph is expressed. Color polymorphism occurs in male killifish anal fins where red, yellow, and blue color morphs are observed. Populations are found in both spring and swamp habitats. A polyphenism is present where males develop blue anal fins when raised in tea-stained water, which mimics swamps. My goal was to determine whether this plasticity is adaptive. Do blue males have an advantage in swamp water? Previous research involving ...


Behavioral Plasticity In Response To Environmental Cues In Poison Frog Tadpoles, Samta Oza, Lisa Surber, Eva K. Fischer 2021 Las Positas College

Behavioral Plasticity In Response To Environmental Cues In Poison Frog Tadpoles, Samta Oza, Lisa Surber, Eva K. Fischer

PRECS student works

Behavioral plasticity is the ability of an organism to detect cues in their environment and respond by modifying behavior. In the wild, dyeing poison frog (Dendrobates tinctorius) tadpoles are delivered by their dads to pools that vary in predation risk, resource availability, con-and hetero-specific density. Conspecific density is especially important as these tadpoles are aggressive and often cannibalistic. Behavioral plasticity in response to environmental cues may help tadpoles to compete for resources and survival.


Evaluating The Efficiency In The Application Of Transformation And Crispr/Cas9 Gene-Editing Technique On Pumpkins, Min Rung (Nicole) Hsu, Maria Malvino, Sarah R. Hind 2021 Cerritos College

Evaluating The Efficiency In The Application Of Transformation And Crispr/Cas9 Gene-Editing Technique On Pumpkins, Min Rung (Nicole) Hsu, Maria Malvino, Sarah R. Hind

PRECS student works

With the simplicity of a unique genome engineering mechanism, CRISPR/Cas9 gene-editing technique has amazed scholars with its effectiveness and efficiency in manipulating gene sequences.[1] As this advanced technique develops, its applications on different species arise as prominent subjects yet to be determined. Due to the great economic value of pumpkins and the need for examining CRISPR/Cas9 gene-editing efficiency, Casperita pumpkin (Cucurbita pepo) is chosen as the subject to be investigated on. Through introducing CRISPR/Cas9 system —for modifying phytoene desaturase (PDS) gene— into pumpkin seeds with Agrobacterium-mediated transformation, we regenerate transgenic pumpkins and expect to observe albino ...


Mapping Traits In A Soybean Recombinant Inbred Line Population, Gabriela Ortiz, Chris Montes, Lisa Ainsworth 2021 University of Missouri-St. Louis

Mapping Traits In A Soybean Recombinant Inbred Line Population, Gabriela Ortiz, Chris Montes, Lisa Ainsworth

PRECS student works

What is SoyFACE?

  • Soybean Free Air Concentration Enrichment
  • Field conditions mimic the future's atmosphere, temperature, and soil
  • Connect physiological responses of crops under these conditions to their genes (aka mapping)

What is a recombinant inbred line population?

Method for mapping traits

  • Two parents with variance in a certain trait (in this case, response to elevated carbon dioxide)
  • The parents used: HS93-4118 and Loda
  • Allows understanding of what regions (quantitative trait loci) respond to atmospheric change


Sometimes, When It Rains It Pours: How Does Flooding Alter Plant-Herbivore Relationships?, Lauren R. Urie, Erinn Dady, Esther N. Ngumbi 2021 Eastern Illinois University

Sometimes, When It Rains It Pours: How Does Flooding Alter Plant-Herbivore Relationships?, Lauren R. Urie, Erinn Dady, Esther N. Ngumbi

PRECS student works

Flooding, an under-studied abiotic stressor, creates hostile soil conditions, including hypoxia, which hinder the growth and development of plants. Plants respond to abiotic and biotic stressors. A common response is the production of volatile organic compounds (VOCs), which modulate stress responses and mediate plant and insect interactions. Flooding causes significant losses in crops of agricultural and economic importance including tomato. Understanding how flooding impacts plant growth, plant chemistry, caterpillar performance and chemical mediated plant-herbivore interactions will create fundamental knowledge to an emerging challenge brought about by climate change and inform pest management decisions post flooding events. This study investigated how ...


Gems Student: Biofilm Production In Rhizobia Influences Clover Drought Response, Faith Smith, Kevin Ricks, Anthony Yannarell 2021 Parkland College

Gems Student: Biofilm Production In Rhizobia Influences Clover Drought Response, Faith Smith, Kevin Ricks, Anthony Yannarell

PRECS student works

Rhizobia serve as model system for examining how phenotypic changes in rhizobia influence the plant. Rhizobium-legume symbioses result in the formation of nodules on the root systems of host plants. Compositional and functional changes in microbial communities facilitate the host plants’ response to environmental stressors (i.e.; drought stress). Physiological effects of soil moisture on microbial communities result in specialized communities that can tolerate much low soil-moisture habitats while others are limited to high soil-moisture environments. This suggests microbial communities can assist in maintaining plant fitness when exposed to nonideal environmental conditions.


Gems Student: Can Improved Diet Quality Alleviate Harmful Effects Of Pesticides And Viruses In Honey Bees?, Brittney Bailey, Ed Hsieh, Adam Dolezal 2021 Parkland College

Gems Student: Can Improved Diet Quality Alleviate Harmful Effects Of Pesticides And Viruses In Honey Bees?, Brittney Bailey, Ed Hsieh, Adam Dolezal

PRECS student works

This study investigates interacting effects of viruses and pesticides within honey bees and how improved diet quality can mitigate these effects. This experiment allows a multivariate problem which exists in natural conditions of the honey bee community to be observed in a controlled cage bioassay. • The virus used in this study is the Israeli acute-paralysis virus (IAPV). Neonicotinoid thiamethoxam is the pesticide used in both trials shown in the ‘Results’ section. This experiment has not begun the use of the pyrethroid at this time.


Characterizing Long Covid: Deep Phenotype Of A Complex Condition [Preprint], Rachel R. Deer, Feifan Liu, Melissa Haendel, Peter N. Robinson 2021 University of Texas

Characterizing Long Covid: Deep Phenotype Of A Complex Condition [Preprint], Rachel R. Deer, Feifan Liu, Melissa Haendel, Peter N. Robinson

University of Massachusetts Medical School Faculty Publications

Importance Since late 2019, the novel coronavirus SARS-CoV-2 has given rise to a global pandemic and introduced many health challenges with economic, social, and political consequences. In addition to a complex acute presentation that can affect multiple organ systems, there is mounting evidence of various persistent long-term sequelae. The worldwide scientific community is characterizing a diverse range of seemingly common long-term outcomes associated with SARS-CoV-2 infection, but the underlying assumptions in these studies vary widely making comparisons difficult. Numerous publications describe the clinical manifestations of post-acute sequelae of SARS-CoV-2 infection (PASC or “long COVID”), but they are difficult to integrate ...


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