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Articles 1 - 24 of 24
Full-Text Articles in Life Sciences
Considerations And Best Practices In Animal Science 16s Ribosomal Rna Gene Sequencing Microbiome Studies, Margaret D. Weinroth, Aeriel D. Belk, Chris Dean, Noelle Noyes, Dana K. Dittoe, Michael J. Rothrock Jr, Steven C. Ricke, Phillip R. Myer, Madison T. Henniger, Gustavo A. Ramírez, Brian B. Oakley, Katie Lynn Summers, Asha M. Miles, Taylor B. Ault-Seay, Zhongtang Yu, Jessica L. Metcalf, James E. Wells
Considerations And Best Practices In Animal Science 16s Ribosomal Rna Gene Sequencing Microbiome Studies, Margaret D. Weinroth, Aeriel D. Belk, Chris Dean, Noelle Noyes, Dana K. Dittoe, Michael J. Rothrock Jr, Steven C. Ricke, Phillip R. Myer, Madison T. Henniger, Gustavo A. Ramírez, Brian B. Oakley, Katie Lynn Summers, Asha M. Miles, Taylor B. Ault-Seay, Zhongtang Yu, Jessica L. Metcalf, James E. Wells
Roman L. Hruska U.S. Meat Animal Research Center: Reports
Microbiome studies in animal science using 16S rRNA gene sequencing have become increasingly common in recent years as sequencing costs continue to fall and bioinformatic tools become more powerful and user-friendly. The combination of molecular biology, microbiology, microbial ecology, computer science, and bioinformatics—in addition to the traditional considerations when conducting an animal science study—makes microbiome studies sometimes intimidating due to the intersection of different fields. The objective of this review is to serve as a jumping-off point for those animal scientists less familiar with 16S rRNA gene sequencing and analyses and to bring up common issues and concerns that arise …
Spotted Salamander Egg Masses Exhibit A Unique Internal Microbiome In Relation To Their Environment, Elizabeth Leonard
Spotted Salamander Egg Masses Exhibit A Unique Internal Microbiome In Relation To Their Environment, Elizabeth Leonard
Senior Honors Theses
Microbial studies have led to various ecological and medicinal discoveries. Amphibian eggs, like those of Ambystoma maculatum, exhibit natural resistance to bacterial invasion that may be microbiome related. The purpose of this research was to sequence the external and internal microbiome of A. maculatum egg masses and compare with the environmental microbiome. It was hypothesized that the external and internal microbiome would bear more similarity to each other than the water. A significant difference was observed between the microbiome of the inside surface of the egg mass and the water but not the outside surface of the egg and …
Developing Inside A Layer Of Germs—A Potential Role For Multiciliated Surface Cells In Vertebrate Embryos, Ryan R. Kerney
Developing Inside A Layer Of Germs—A Potential Role For Multiciliated Surface Cells In Vertebrate Embryos, Ryan R. Kerney
Biology Faculty Publications
This paper reviews current research on the microbial life that surrounds vertebrate embryos. Several clades are believed to develop inside sterile—or near-sterile—embryonic microhabitats, while others thrive within a veritable zoo of microbial life. The occurrence of embryo-associated microbes in some groups, but not others, is an under-appreciated transition (possibly transitions) in vertebrate evolution. A lack of comparable studies makes it currently impossible to correlate embryo-associated microbiomes with other aspects of vertebrate evolution. However, there are embryonic features that should instruct a more targeted survey. This paper concludes with a hypothesis for the role of multiciliated surface cells in amphibian and …
Catechin And Other Catechol-Containing Secondary Metabolites: Bacterial Biotransformation And Regulation Of Carbohydrate Metabolism, Sara Knezevic, Asma Ghafoor, Samaneh Mehri, Ali Barazi, Maksymilian Dziura, John F. Trant, Christopher A. Dieni
Catechin And Other Catechol-Containing Secondary Metabolites: Bacterial Biotransformation And Regulation Of Carbohydrate Metabolism, Sara Knezevic, Asma Ghafoor, Samaneh Mehri, Ali Barazi, Maksymilian Dziura, John F. Trant, Christopher A. Dieni
Chemistry and Biochemistry Publications
Background: Catechol, 1,2-dihydroxybenzene, prepared through bacterial biotransformation from higher order polyphenols, has been proposed to regulate carbohydrate metabolism, especially in the context of type 2 diabetes. This review aims to contextualize this finding. It describes the bacterial biosynthesis of catechol both from glucose, and as a degradation product of higher order natural products through bacterial transformation. The review then considers the mechanism of action of glycemic-regulating catechol-containing materials and the complications arising from balancing their inherent activity with that of catechol, their common degradation product. It then enumerates potential dietary sources of catechin from common foods. Methods: Articles were found …
Dietary And Pharmacologic Manipulations Of Host Lipids And Their Interaction With The Gut Microbiome In Non-Human Primates, Jennifer M. Lang, Leslie R. Sedgeman, Lei Cai, Joseph D. Layne, Zhen Wang, Calvin Pan, Richard Lee, Ryan E. Temel, Aldons J. Lusis
Dietary And Pharmacologic Manipulations Of Host Lipids And Their Interaction With The Gut Microbiome In Non-Human Primates, Jennifer M. Lang, Leslie R. Sedgeman, Lei Cai, Joseph D. Layne, Zhen Wang, Calvin Pan, Richard Lee, Ryan E. Temel, Aldons J. Lusis
Physiology Faculty Publications
The gut microbiome influences nutrient processing as well as host physiology. Plasma lipid levels have been associated with the microbiome, although the underlying mechanisms are largely unknown, and the effects of dietary lipids on the gut microbiome in humans are not well-studied. We used a compilation of four studies utilizing non-human primates (Chlorocebus aethiops and Macaca fascicularis) with treatments that manipulated plasma lipid levels using dietary and pharmacological techniques, and characterized the microbiome using 16S rDNA. High-fat diets significantly reduced alpha diversity (Shannon) and the Firmicutes/Bacteroidetes ratio compared to chow diets, even when the diets had different compositions …
You Are What You Eat — Exploring The Microbiome Through Inquiry-Based Labs. Microbiome Lesson Plans, Karla S. Fuller
You Are What You Eat — Exploring The Microbiome Through Inquiry-Based Labs. Microbiome Lesson Plans, Karla S. Fuller
Open Educational Resources
If these commonly used spices have the ability to inhibit pathogenic bacterial growth, could they also potentially inhibit the growth of normal, harmless bacteria that live in your body? In this lab, we will test common bacteria for resistance to food additives.
Exploring Microbiome Functional Dynamics Through Space And Time With Trait-Based Theory, Leonora S. Bittleston, Jessica R. Bernardin
Exploring Microbiome Functional Dynamics Through Space And Time With Trait-Based Theory, Leonora S. Bittleston, Jessica R. Bernardin
Biology Faculty Publications and Presentations
Microbiomes play essential roles in the health and function of animal and plant hosts and drive nutrient cycling across ecosystems. Integrating novel trait-based approaches with ecological theory can facilitate the prediction of microbial functional traits important for ecosystem functioning and health. In particular, the yield-acquisition-stress (Y-A-S) framework considers dominant microbial life history strategies across gradients of resource availability and stress. However, microbiomes are dynamic, and spatial and temporal shifts in taxonomic and trait composition can affect ecosystem functions. We posit that extending the Y-A-S framework to microbiomes during succession and across biogeographic gradients can lead to generalizable rules for how …
Tick Saliva And The Alpha-Gal Syndrome: Finding A Needle In A Haystack, Surendra Raj Sharma, Shahid Karim
Tick Saliva And The Alpha-Gal Syndrome: Finding A Needle In A Haystack, Surendra Raj Sharma, Shahid Karim
Faculty Publications
Ticks and tick-borne diseases are significant public health concerns. Bioactive molecules in tick saliva facilitate prolonged blood-feeding and transmission of tick-borne pathogens to the vertebrate host. Alpha-gal syndrome (AGS), a newly reported food allergy, is believed to be induced by saliva proteins decorated with a sugar molecule, the oligosaccharide galactose-⍺-1,3-galactose (α-gal). This syndrome is characterized by an IgE antibody-directed hypersensitivity against α-gal. The α-gal antigen was discovered in the salivary glands and saliva of various tick species including, the Lone Star tick (Amblyomma americanum). The underlying immune mechanisms linking tick bites with α-gal-specific IgE production are poorly understood and are …
A Global Metagenomic Map Of Urban Microbiomes And Antimicrobial Resistance, David Danko, Daniela Bezdan, Evan E. Afshin, Sofia Ahsanuddin, Chandrima Bhattacharya, Daniel J. Butler, Kern Rei Chng, Daisy Donnellan, Jochen Hecht, Katelyn Jackson, Katerina Kuchin, Mikhail Karasikov, Abigail Lyons, Lauren Mak, Dmitry Meleshko, Harun Mustafa, Beth Mutai, Russell Y. Neches, Amanda Ng, Olga Nikolayeva, Tatyana Nikolayeva, Eileen Png, Krista A. Ryon, Jorge L. Sanchez, Heba Shaaban, Maria A. Sierra, Dominique Thomas, Ben Young, Omar O. Abudayyeh, Josue Alicea, Malay Bhattacharyya, Ran Blekhman, Eduardo Castro-Nallar
A Global Metagenomic Map Of Urban Microbiomes And Antimicrobial Resistance, David Danko, Daniela Bezdan, Evan E. Afshin, Sofia Ahsanuddin, Chandrima Bhattacharya, Daniel J. Butler, Kern Rei Chng, Daisy Donnellan, Jochen Hecht, Katelyn Jackson, Katerina Kuchin, Mikhail Karasikov, Abigail Lyons, Lauren Mak, Dmitry Meleshko, Harun Mustafa, Beth Mutai, Russell Y. Neches, Amanda Ng, Olga Nikolayeva, Tatyana Nikolayeva, Eileen Png, Krista A. Ryon, Jorge L. Sanchez, Heba Shaaban, Maria A. Sierra, Dominique Thomas, Ben Young, Omar O. Abudayyeh, Josue Alicea, Malay Bhattacharyya, Ran Blekhman, Eduardo Castro-Nallar
ISI Best Publications
We present a global atlas of 4,728 metagenomic samples from mass-transit systems in 60 cities over 3 years, representing the first systematic, worldwide catalog of the urban microbial ecosystem. This atlas provides an annotated, geospatial profile of microbial strains, functional characteristics, antimicrobial resistance (AMR) markers, and genetic elements, including 10,928 viruses, 1,302 bacteria, 2 archaea, and 838,532 CRISPR arrays not found in reference databases. We identified 4,246 known species of urban microorganisms and a consistent set of 31 species found in 97% of samples that were distinct from human commensal organisms. Profiles of AMR genes varied widely in type and …
Rhizosphere Microbiomes In A Historical Maize-Soybean Rotation System Respond To Host Species And Nitrogen Fertilization At The Genus And Subgenus Levels, Michael A. Meier, Martha G. Lopez-Guerrero, Ming Guo, Marty Schmer, Josh Herr, James Schnable, James R. Alfano, Jinliang Yang
Rhizosphere Microbiomes In A Historical Maize-Soybean Rotation System Respond To Host Species And Nitrogen Fertilization At The Genus And Subgenus Levels, Michael A. Meier, Martha G. Lopez-Guerrero, Ming Guo, Marty Schmer, Josh Herr, James Schnable, James R. Alfano, Jinliang Yang
Department of Agronomy and Horticulture: Faculty Publications
Root-associated microbes are key players in plant health, disease resistance, and nitrogen (N) use efficiency. It remains largely unclear how the interplay of biological and environmental factors affects rhizobiome dynamics in agricultural systems. In this study, we quantified the composition of rhizosphere and bulk soil microbial communities associated with maize (Zea mays L.) and soybean (Glycine max L.) in a long-term crop rotation study under conventional fertilization and low-N regimes. Over two growing seasons, we evaluated the effects of environmental conditions and several treatment factors on the abundance of rhizosphere- and soil-colonizing microbial taxa. Time of sampling, host plant species, …
A Research Road Map For Responsible Use Of Agricultural Nitrogen, Michael Udvardi, Frederick E. Below, Michael J. Castellano, Alison J. Eagle, Ken E. Giller, Jagdish Kumar Ladha, Xuejun Liu, Tai Mcclellan Maaz, Barbara Nova-Franco, Nandula Raghuram, G. Philip Robertson, Sonali Roy, Malay Saha, Susanne Schmidt, Mechthild Tegeder, Larry M. York, John W. Peters
A Research Road Map For Responsible Use Of Agricultural Nitrogen, Michael Udvardi, Frederick E. Below, Michael J. Castellano, Alison J. Eagle, Ken E. Giller, Jagdish Kumar Ladha, Xuejun Liu, Tai Mcclellan Maaz, Barbara Nova-Franco, Nandula Raghuram, G. Philip Robertson, Sonali Roy, Malay Saha, Susanne Schmidt, Mechthild Tegeder, Larry M. York, John W. Peters
Agricultural and Environmental Sciences Faculty Research
Nitrogen (N) is an essential but generally limiting nutrient for biological systems. Development of the Haber-Bosch industrial process for ammonia synthesis helped to relieve N limitation of agricultural production, fueling the Green Revolution and reducing hunger. However, the massive use of industrial N fertilizer has doubled the N moving through the global N cycle with dramatic environmental consequences that threaten planetary health. Thus, there is an urgent need to reduce losses of reactive N from agriculture, while ensuring sufficient N inputs for food security. Here we review current knowledge related to N use efficiency (NUE) in agriculture and identify research …
Differences In The Genital Microbiota In Women Who Naturally Clear Chlamydia Trachomatis Infection Compared To Women Who Do Not Clear; A Pilot Study, Patricia Dehon Mott, Christopher M. Taylor, Rebecca A. Lillis, Caleb M. Ardizzone, Hannah L. Albritton, Meng Luo, Kaitlyn G. Calabresi, David H. Martin, Leann Myers, Alison J. Quayle
Differences In The Genital Microbiota In Women Who Naturally Clear Chlamydia Trachomatis Infection Compared To Women Who Do Not Clear; A Pilot Study, Patricia Dehon Mott, Christopher M. Taylor, Rebecca A. Lillis, Caleb M. Ardizzone, Hannah L. Albritton, Meng Luo, Kaitlyn G. Calabresi, David H. Martin, Leann Myers, Alison J. Quayle
School of Graduate Studies Faculty Publications
In vitro studies indicate IFNγ is central to Chlamydia trachomatis (Ct) eradication, but its function may be compromised by anaerobes typically associated with bacterial vaginosis (BV), a frequent co-morbidity in women with Ct. Here we investigated the associations between natural clearance of cervical Ct infection, the vaginal microbiome, and the requirements for IFNγ by evaluating the vaginal microbial and cytokine composition of Ct treatment visit samples from women who cleared Ct infection in the interim between their Ct screening and Ct treatment visit. The pilot cohort was young, predominantly African American, and characterized by a high rate of BV that …
Evaluating The Effect Of Glyphosate On Host Survival And Microbiome, Sandro Cloiseau
Evaluating The Effect Of Glyphosate On Host Survival And Microbiome, Sandro Cloiseau
Honors Scholar Theses
Glyphosate (N-(Phosphonomethyl) glycine) is the active ingredient in Round-Up Inc. Commonly known as a weed killer, glyphosate targets the enzyme 5-enolpyruvylshikimate-3- phosphate synthase (EPSPS) in the shikimate pathway. Ultimately, glyphosate selectively induces toxicity, targeting EPSPS present in plants and selected microorganisms. Therefore, glyphosate is anticipated to be harmless to animals and humans. Our laboratory studies Drosophila melanogaster - also known as the fruit fly, in an interest to understand its gut microbiota and immune system. The comparable immune response of the model organism is similar to honey bees, fungi, and humans. To understand the effect of glyphosate on host physiology, …
Microbial Community Field Surveys Reveal Abundant Pseudomonas Population In Sorghum Rhizosphere Composed Of Many Closely Related Phylotypes, Dawn Chiniquy, Elle M. Barnes, Jinglie Zhou, Kyle Hartman, Xiaohui Li, Amy Sheflin, Ellen Marsh, Jessica Prenni, Adam M. Deutschbauer, Daniel P. Schachtman, Susannah G. Tringe
Microbial Community Field Surveys Reveal Abundant Pseudomonas Population In Sorghum Rhizosphere Composed Of Many Closely Related Phylotypes, Dawn Chiniquy, Elle M. Barnes, Jinglie Zhou, Kyle Hartman, Xiaohui Li, Amy Sheflin, Ellen Marsh, Jessica Prenni, Adam M. Deutschbauer, Daniel P. Schachtman, Susannah G. Tringe
Department of Agronomy and Horticulture: Faculty Publications
While the root-associated microbiome is typically less diverse than the surrounding soil due to both plant selection and microbial competition for plant derived resources, it typically retains considerable complexity, harboring many hundreds of distinct bacterial species. Here, we report a time-dependent deviation from this trend in the rhizospheres of field grown sorghum. In this study, 16S rRNA amplicon sequencing was used to determine the impact of nitrogen fertilization on the development of the root-associated microbiomes of 10 sorghum genotypes grown in eastern Nebraska. We observed that early rhizosphere samples exhibit a significant reduction in overall diversity due to a high …
The Role Of Glutamine In Supporting Gut Health And Neuropsychiatric Factors, Brett J. Deters, Mir Saleem
The Role Of Glutamine In Supporting Gut Health And Neuropsychiatric Factors, Brett J. Deters, Mir Saleem
Biology Faculty Articles
Recent research has shown that the amino acid glutamine can positively affect gut health by supporting the gut microbiome, gut mucosal wall integrity, and by modulating inflammatory responses. As modulated by the vagus nerve, via the enteric nervous system, the gut-brain connection can impact the brain's neurochemical environment. Poor gut health can disrupt the balance of neurotransmitters, which can result in neuropsychiatric based conditions such as depression. Glutamine supplementation may provide significant adjunctive nutritional support in cases of depression by promoting proper gut health and function.
Microbial Functional Responses In Marine Biofilms Exposed To Deepwater Horizon Spill Contaminants, Rachel L. Mugge, Jennifer L. Salerno, Leila J. Hamdan
Microbial Functional Responses In Marine Biofilms Exposed To Deepwater Horizon Spill Contaminants, Rachel L. Mugge, Jennifer L. Salerno, Leila J. Hamdan
Faculty Publications
Marine biofilms are essential biological components that transform built structures into artificial reefs. Anthropogenic contaminants released into the marine environment, such as crude oil and chemical dispersant from an oil spill, may disrupt the diversity and function of these foundational biofilms. To investigate the response of marine biofilm microbiomes from distinct environments to contaminants and to address microbial functional response, biofilm metagenomes were analyzed from two short-term microcosms, one using surface seawater (SSW) and the other using deep seawater (DSW). Following exposure to crude oil, chemical dispersant, and dispersed oil, taxonomically distinct communities were observed between microcosms from different source …
Sensitivity Of Wild-Type And Rifampicin-Resistant O157 And Non-O157 Shiga Toxin-Producing Escherichia Coli To Elevated Hydrostatic Pressure And Lactic Acid In Ground Meat And Meat Homogenate, Abimbola Allison, Aliyar Cyrus Fouladkhah
Sensitivity Of Wild-Type And Rifampicin-Resistant O157 And Non-O157 Shiga Toxin-Producing Escherichia Coli To Elevated Hydrostatic Pressure And Lactic Acid In Ground Meat And Meat Homogenate, Abimbola Allison, Aliyar Cyrus Fouladkhah
Agricultural and Environmental Sciences Faculty Research
Various serogroups of Shiga toxin-producing Escherichia coli have been epidemiologically associated with foodborne disease episodes in the United States and around the globe, with E. coli O157: H7 as the dominant serogroup of public health concern. Serogroups other than O157 are currently associated with about 60% of Shiga toxin-producing E. coli related foodborne illness episodes. Current study evaluated sensitivity of the O157 and epidemiologically important non-O157 serogroups of the pathogen to elevated hydrostatic pressure and 1% lactic acid. Pressure intensity of 250 to 650 MPa were applied for 0 to 7 min for inactivation of strain mixtures of …
Microbiome Analyses Demonstrate Specific Communities Within Five Shark Species, Rachael Storo, Cole Easson, Mahmood S. Shivji, Jose V. Lopez
Microbiome Analyses Demonstrate Specific Communities Within Five Shark Species, Rachael Storo, Cole Easson, Mahmood S. Shivji, Jose V. Lopez
Biology Faculty Articles
Profiles of symbiotic microbial communities (“microbiomes”) can provide insight into the natural history and ecology of their hosts. Using high throughput DNA sequencing of the 16S rRNA V4 region, microbiomes of five shark species in South Florida (nurse, lemon, sandbar, Caribbean reef, and tiger) have been characterized for the first time. The microbiomes show species specific microbiome composition, distinct from surrounding seawater. Shark anatomical location (gills, teeth, skin, cloaca) affected the diversity of microbiomes. An in-depth analysis of teeth communities revealed species specific microbial communities. For example, the genus Haemophilus, explained 7.0% of the differences of the teeth microbiomes …
Temporal Dynamics Of Chronic Inflammation On The Cecal Microbiota In Il-10-/- Mice, Anne-Marie C. Overstreet, Amanda Ramer-Tait, Jan S. Suchodolski, Jesse M. Hostetter, Chong Wang, Albert E. Jergens, Gregory J. Phillips, Michael J. Wannemeuhler
Temporal Dynamics Of Chronic Inflammation On The Cecal Microbiota In Il-10-/- Mice, Anne-Marie C. Overstreet, Amanda Ramer-Tait, Jan S. Suchodolski, Jesse M. Hostetter, Chong Wang, Albert E. Jergens, Gregory J. Phillips, Michael J. Wannemeuhler
Department of Food Science and Technology: Faculty Publications
The intestinal microbiota is a critical component of mucosal health as evidenced by the fact that alterations in the taxonomic composition of the gastrointestinal microbiota are associated with inflammatory bowel diseases. To better understand how the progression of inflammation impacts the composition of the gastrointestinal microbiota, we used culture independent taxonomic profiling to identify temporal changes in the cecal microbiota of C3Bir IL-10-/- mice concomitantly with the onset and progression of colitis. This analysis revealed that IL-10-/- mice displayed a biphasic progression in disease severity, as evidenced by histopathological scores and cytokine production. Beginning at 4 weeks of age, pro-inflammatory …
Targeted Manipulation Of Abundant And Rare Taxa In The Daphnia Magna Microbiota With Antibiotics Impacts Host Fitness Differentially, Reilly O. Cooper, Janna M. Vavra, Clayton E. Cressler
Targeted Manipulation Of Abundant And Rare Taxa In The Daphnia Magna Microbiota With Antibiotics Impacts Host Fitness Differentially, Reilly O. Cooper, Janna M. Vavra, Clayton E. Cressler
School of Biological Sciences: Faculty Publications
Host-associated microbes contribute to host fitness, but it is unclear whether these contributions are from rare keystone taxa, numerically abundant taxa, or interactions among community members. Experimental perturbation of the microbiota can highlight functionally important taxa; however, this approach is primarily applied in systems with complex communities where the perturbation affects hundreds of taxa, making it difficult to pinpoint contributions of key community members. Here, we use the ecological model organism Daphnia magna to examine the importance of rare and abundant taxa by perturbing its relatively simple microbiota with targeted antibiotics. We used sublethal antibiotic doses to target either rare …
Microbiome Integrity Of Unprocessed Canis Familiaris Stool Samples Prior To Storage For Fecal Microbiota Transplants, Biyar Ahmed
Microbiome Integrity Of Unprocessed Canis Familiaris Stool Samples Prior To Storage For Fecal Microbiota Transplants, Biyar Ahmed
Biology: Student Scholarship & Creative Works
Fecal microbiota transplants (FMT) are used for patients with dysbiosis of their gut microbiome or with endogenous pathogens. While FMTs are promising, it has become apparent that the gut microbiome varies between individuals and in the same individuals with diet and age. Therefore, it is difficult to establish a microbiome baseline and assess the compatibility of donor stool since the gut microbiome contains numerous bacteria that facilitate metabolic processes as well as prevent the growth of exogenous pathogens. A recent approach to address this issue is the storage of an individual’s stool samples for later. This storage would prove useful …
Exploring Microbiome Functional Dynamics Through Space And Time With Trait-Based Theory, Leonora S. Bittleston, Zachary B. Freedman, Jessica R. Bernardin, Jacob J. Grothjan, Erica B. Young, Sydne Record, Benjamin Baiser, Sarah M. Gray
Exploring Microbiome Functional Dynamics Through Space And Time With Trait-Based Theory, Leonora S. Bittleston, Zachary B. Freedman, Jessica R. Bernardin, Jacob J. Grothjan, Erica B. Young, Sydne Record, Benjamin Baiser, Sarah M. Gray
Biology Faculty Research and Scholarship
Microbiomes play essential roles in the health and function of animal and plant hosts and drive nutrient cycling across ecosystems. Integrating novel trait-based approaches with ecological theory can facilitate the prediction of microbial functional traits important for ecosystem functioning and health. In particular, the yield-acquisition-stress (Y-A-S) framework considers dominant microbial life history strategies across gradients of resource availability and stress. However, microbiomes are dynamic, and spatial and temporal shifts in taxonomic and trait composition can affect ecosystem functions. We posit that extending the Y-A-S framework to microbiomes during succession and across biogeographic gradients can lead to generalizable rules for how …
Differential Patterns Of Microbiota Recovery In Symbiotic And Aposymbiotic Corals Following Antibiotic Disturbance, Shavonna M. Bent, Carolyn A. Miller, Koty H. Sharp, Colleen M. Hansel, Amy Apprill
Differential Patterns Of Microbiota Recovery In Symbiotic And Aposymbiotic Corals Following Antibiotic Disturbance, Shavonna M. Bent, Carolyn A. Miller, Koty H. Sharp, Colleen M. Hansel, Amy Apprill
Arts & Sciences Faculty Publications
Microbial relationships are critical to coral health, and changes in microbiomes are often exhibited following environmental disturbance. However, the dynamics of coral-microbial composition and external factors that govern coral microbiome assembly and response to disturbance remain largely uncharacterized. Here, we investigated how antibiotic-induced disturbance affects the coral mucus microbiota in the facultatively symbiotic temperate coral Astrangia poculata, which occurs naturally with high (symbiotic) or low (aposymbiotic) densities of the endosymbiotic dinoflagellate Breviolum psygmophilum. We also explored how differences in the mucus microbiome of natural and disturbed A. poculata colonies affected levels of extracellular superoxide, a reactive oxygen species thought to …
Fecal Sample Collection Methods And Time Of Day Impact Microbiome Composition And Short Chain Fatty Acid Concentrations, Jacquelyn Jones, Stacey N. Reinke, Alishum Ali, Debra J. Palmer, Claus T. Christophersen
Fecal Sample Collection Methods And Time Of Day Impact Microbiome Composition And Short Chain Fatty Acid Concentrations, Jacquelyn Jones, Stacey N. Reinke, Alishum Ali, Debra J. Palmer, Claus T. Christophersen
Research outputs 2014 to 2021
Associations between the human gut microbiome and health outcomes continues to be of great interest, although fecal sample collection methods which impact microbiome studies are sometimes neglected. Here, we expand on previous work in sample optimization, to promote high quality microbiome data. To compare fecal sample collection methods, amplicons from the bacterial 16S rRNA gene (V4) and fungal (ITS2) region, as well as short chain fatty acid (SCFA) concentrations were determined in fecal material over three timepoints. We demonstrated that spot sampling of stool results in variable detection of some microbial members, and inconsistent levels of SCFA; therefore, sample homogenization …