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  • Single-Nucleus RNA-Seq Reveals Dysregulation of Striatal Cell Identity Due to Huntington’s Disease Mutations
    UMB Dataset

    Authors
    Sonia Malaiya
    Marcia Cortes-Gutierrez
    Brian R. Herb
    Sydney R. Coffey
    5 more author(s)...
    Description

    The involvement of specific medium spiny neuro (MSN) subtype and of other striatal cell types remains poorly understood. To gain insight into cell type-specific disease processes, researchers studied the nuclear transcriptomes of 4524 cells from the striatum of a genetically precise knock-in mouse model of the Huntington's Disease (HD) mutation, HttQ175/1. Three 14-month-old and one 15-month-old male mice were used to generate the primary dataset.

    Subject
    Sequence Analysis, RNA
    Geographic Coverage
    International
    Timeframe
    2020
    Access Rights
    Unrestricted access
  • Mutations in Diphosphoinositol-Pentakisphosphate Kinase PPIP5K2 are associated with hearing loss in human and mouse
    UMB Dataset

    Authors
    Saima Riazuddin
    Rizwan Yousaf
    Chunfang Gu
    Zubair M. Ahmed
    4 more author(s)...
    Description

    Genetically complex non-syndromic recessively inherited hearing loss (NSRHL) comprises approximately 75% of hereditary deafness. This study investigated NSRHL in two large consanguineous Pakistani families. Exome sequencing coupled with homozygosity mapping was used to identify a missense variant in PPIP5K2 gene associated with nonsyndromic, prelingual sensorineural deafness. Biochemical analysis was performed to compare wild type human PPIP5K2 with the variant. Additional research was conducted on mouse mutants to observe the effects on the outer hair cells and hearing thresholds. This dataset includes genetic, hearing function, gene expression, and histological data and images.

    Subject
    Hearing Loss
    Point Mutation
    Geographic Coverage
    International
    Access Rights
    Unrestricted access
  • mRNA booster vaccination protects aged mice against the SARS-CoV-2 Omicron variant
    UMB Dataset

    Authors
    Etsuro Nanishi
    Marisa E. McGrath
    Timothy R. O’Meara
    Soumik Barman
    17 more author(s)...
    Description

    This study investigates multiple vaccine strategies to enhance immunogenicity and protection against SARS-CoV-2 in aged mice. The study aims to determine the effect of a booster dose, with an emphasis on older age. Female three and eleven-month-old BALB/c mice were studied over the course of 38 weeks. Mice received BNT162b2 SARS-CoV-2 spike mRNA vaccine series, primary vaccination series, and mock Phosphate-buffered saline (PBS) injections. Single mouse experiments aimed to include 20 mice per group. Sample size and age criteria were chosen empirically based on the results of previous studies. Mice were randomly assigned to different treatment groups.

    Subject
    COVID-19/prevention & control
    Viral Vaccines/genetics
    Access Rights
    Unrestricted access
    Local Experts
    Matthew B. Frieman
  • An optimized protocol for single nuclei isolation from clinical biopsies for RNA-seq
    UMB Dataset

    Authors
    Thomas V. Rousselle
    Jennifer M. McDaniels
    Amol C. Shetty
    Elissa Bardhi
    2 more author(s)...
    Description

    Researchers present an optimized protocol for single nuclei RNA sequencing (snRNA-seq) that is fast, low, cost, and time effective due to the elimination of cell sorting and ultra-centrifugation. Both human and mouse tissue biopsies were assessed. Human kidney graft biopsies were collected from five kidney transplant recipients. Mouse needle biopsies were collected from heart, liver, kidney, spleen, lung, duodenum, large intestine, bone marrow and brain.

    Subject
    High-Throughput Nucleotide Sequencing
    Access Rights
    Unrestricted access
  • Refinement of a Live Attenuated Salmonella enterica Serovat Newport Vaccine with Improved Safety
    UMB Dataset

    Description

    Non-typhoidal Salmonella (NTS) is responsible for approximately 93 million cases of gastroenteritis annually. Little research has been directed towards a development of vaccines against Salmonella serogroups O:6,7 or O:8. Researchers constructed a live attenuated serogroup O:8 vaccine, CVS 1979, by deleting guaBA, htrA, and aroA from the genome of S. Newport. Over the course of 6 weeks, 6 to 8-week-old female BALB/c mice were immunized with live attenuated S. Newport vaccine CVD 1979 or sterile phosphate buffered saline (PBS) three times. Four weeks after the last immunization, mice were challenged intraperitoneally (i.p.) with wild-type Salmonella strains to assess the homologous and heterologous protection elicited by the live attenuated S. Newport vaccine CVD 1979.

    Subject
    Salmonella Vaccines
    Vaccine Development
    Access Rights
    Unrestricted access
  • The optic nerve lamina region is a neural progenitor cell niche
    UMB Dataset

    Authors
    Steven L. Bernstein
    Yan Guo
    Rebecca Fawcett
    Candace Kerr
    3 more author(s)...
    Description

    Tissue from the optic nerve lamina region (ONLR), were dissected from both mice and humans. Immunohistochemistry (IHC) was then performed on tissue sections, and Ki67 mitosis assays assessed cell proliferation. Cell cultivation techniques isolated and cultured cells from ONLR and optic nerve tissues. Further experiments induced cell differentiation and neurosphere formation. Transgenic animal studies explored gene effects, while interventions included AAV-DTA construct injections and TAM/4OHT treatments. RNA isolation and qPCR analyzed gene expression, while imaging techniques visualized tissue morphology and axonal myelination.

    Subject
    Optic Nerve
    Access Rights
    Unrestricted access
    Approval required
  • Comparison of In Vivo Expression Levels of IL-4 and IL-4d2 in Mouse Lung Tissue
    UMB Dataset

    Alternate Title(s)
    Comparison of In Vivo Expression Levels of IL-4 and IL-4 delta2 in Mouse Lung Tissue
    Authors
    Sergei P. Atamas
    Irina G. Luzina
    Virginia Lockatell
    Nevins W. Todd
    3 more author(s)...
    Description

    The primary goal of this project was to compare in vivo gene expression levels of the cytokine, IL-4, and its natural splice variant, IL-4δ2, in the lungs of mice. Intratracheal replication-deficient adenovirus-mediated gene delivery of mouse IL-4 or IL-4δ2 was utilized to create three mice overexpressing IL-4 and three overexpressing IL-4δ2 in their lungs. An additional three mice were similarly infected with control AdV-NULL virus not encoding a cytokine. 14 days postinfection, lung tissue was homogenized, total RNA extracted, and results analyzed. The data demonstrate that IL-4 and its splice variant differentially affect global gene expression which has implications for the use of targeted therapy for various diseases. The dataset consists of 9 microarray data tables corresponding to each of the samples. Additionally, a supplementary TAR file of the raw data is also available to download.

    Subject
    Gene Expression Profiling
    Microarray Analysis
    Timeframe
    2010
    Access Rights
    Unrestricted access
  • Tip60- and Sirtuin 2-Regulated MARCKS Acetylation and Phosphorylation Are Required for Diabetic Embryopathy
    UMB Dataset

    Authors
    Penghua Yang
    Cheng Xu
    E. Albert Reece
    Xi Chen
    5 more author(s)...
    Description

    A high glucose level associated with maternal diabetes has been identified as a risk factor for fetal neural tube defects (NTD). The failure to successfully complete the complex neurulation process is possibly related to the loss of protection for cellular homeostasis resulting in organelle stress. Mitochondrial dysfunction and endoplasmic reticulum stress in the developing endothelium have been identified as significant components in diabetic embryopathy. Myristoylated Alanine-Rich C Kinase Substrate (MARCKS) is a critical protein involved in fetal neural development. This study investigated the regulation and biological activity of MARCKS and its role in protecting neuroepithelial cell organelles during neurulation. Furthermore, the effects of the acetylation/phosphorylation/deacetylation of MARCKs by Tip60 and sirtuin 2 were examined with respect to the protein’s protective functionality. The dataset includes immunoblot/immunofluorescent/electronmicroscopy images and graphs.

    Subject
    Neurulation
    Pregnancy in Diabetics
    Access Rights
    Unrestricted access
  • Region-Specific Response of Astrocytes to Prion Infection
    UMB Dataset

    Authors
    Natallia Makarava
    Jennifer Chen-Yu Chang
    Rajesh Kushwaha
    Ilia V. Baskakov
    Description

    Chronic neuroinflammation is a common pathological hallmark of neurodegenerative diseases such as Alzheimer’s, Parkinson’s, ALS, and prion disorders. Both reactive microgliosis and astrogliosis have been identified as having a role in the neuroinflammatory process. Studies of prion diseases of animals and humans have demonstrated activation and proliferation of microglia at the very early subclinical stages. Less is known about the role of reactive astrocytes. This research investigated the changes in normal functions of astrocytes over the course of chronic neuroinflammation including their region-specific responses in the brain. Studies of brain tissue of mice infected with 22L mouse-adapted prion strain include histological, immunofluorescence, and qRT-PCR. Prion deposition and reactive microgliosis and astrogliosis were examined across regions of the whole brain with particular focus on the thalamus and hippocampus.

    Subject
    Neurodegenerative Diseases
    Prion Diseases
    Access Rights
    Unrestricted access
  • Strain-specific alterations in gut microbiome and host immune responses elicited by tolerogenic Bifidobacterium pseudolongum
    UMB Dataset

    Authors
    Bing Ma
    Samuel J. Gavzy
    Vikas Saxena
    Yang Song
    12 more author(s)...
    Description

    To determine strain-specific driving mechanisms of B. pseudolongum UMB-MBP-01, researchers compared it to porcine tropic strain B. pseudolongum ATCC25526 using cell culture and in vivo experimentation and comparative genomic approaches. The data demonstrates that these two strains possess distinct genetic repertoires in carbohydrate assimilation, differential activation signatures and cytokine responses signatures in innate immune cells, and differential effects on lymph node morphology with unique local and systemic leukocyte distribution.

    Subject
    Immunity
    Access Rights
    Unrestricted access