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Draft Genome Sequences Of Staphylococcus Species Isolated From Urine Samples From Asymptomatic Females, Sandra Jablonska, Lila Nelson, Grace Finger, Alex Kula, Catherine Putonti

Biology: Faculty Publications and Other Works

The female urinary tract is host to several different Staphylococcus species, both uropathogens and commensals. To further investigate these species, we sequenced the genomes of four isolates from voided urine samples collected from asymptomatic (“healthy”) females: Staphylococcus aureus U215, Staphylococcus haemolyticus U117, and Staphylococcus hominis strains U224 and U226.

Diazotime: A Metabolically-Resolved Reference Database Of Nitrogen-Fixing Microbial Genomes, Julian Damashek, Cody S. Sheik, Caitlin Petro, Christian F. Reeder, Subhadeep Chowdhury, Benjamin J. Kramer, Stephen E. Devilbiss, Juan J. Pierella Karlusich, Jane C. Marks, Patricia M. Valdespino-Castillo, Paula C. Furey, Megan E. Berberich, Amy M. Marcarelli, J Thad Scott, Robinson W. Fulweiler

Michigan Tech Publications

Microbial nitrogen fixation (diazotrophy) is a critical ecological process. We curated DiazoTIME (Diazotroph Taxonomic Identity and MEtabolism), a comprehensive database of diazotroph genomes including taxonomic annotation and metabolic prediction. DiazoTIME is unique among databases for classifying diazotrophs because it resolves both taxonomy and metabolic functionality.

Carbon Capture By Expanding Temperate Mangrove Forests, R. Bulmer, M. M. Palacios, P. Masqué, C. J. Lundquist, L. Schwendenmann, S. M. Trevathan-Tackett, P. Waryszak, H. Kettles, P. I. Macreadie

Research outputs 2022 to 2026

Mangrove forests provide a wide range of ecosystem services that benefit both people and nature. While many countries have lost nearly 50 % of their mangroves in the past 50 years, Aotearoa New Zealand's mangroves are rapidly expanding in many locations due to increased sediment inputs from land-use changes and urbanisation. In the Auckland region, where mangrove extent has increased 4.5-fold since 1940, we quantified the blue carbon sequestration benefits from seven mangrove expansion sites. Our results indicate that New Zealand's mangroves sequester 86,000 t CO2 annually, with an additional 3,400 t CO2 sequestered in 2020 due to mangrove expansion. …

Dynamics And Optimal Intervention Strategies In A Shigellosis Transmission Model, Mehmet Gümüs, Shewafera Wondimagegnhu Teklu, Kemal Türk

Mathematical Modelling and Numerical Simulation with Applications

This research explores how water treatment contributes to limiting the transmission of Shigellosis, an infection caused by bacteria from the Shigella genus. A mathematical framework is formulated to evaluate the influence of protective strategies and water purification on the spread of the disease. To confirm the model's biological relevance, its well-posedness is investigated. The basic reproduction number $(\mathfrak{R}_0)$, a critical indicator of disease behavior, is derived using the matrix operator method. Findings indicate that if $\mathfrak{R}_01$, the infection persists, with the endemic equilibrium exhibiting local asymptotic stability. A comprehensive cost-effectiveness analysis reveals that combining environmental protection with water treatment represents …

Htlv-1 And Atll: Epidemiology, Oncogenesis, And Opportunities For Community-Informed Research In The United States, Adrian D. Altieri, Sean P. Reilly, Abu Mansalay, Alan Khoo, Nettie Johnson, Zafar K. Khan, Amy Leader, Pooja Jain, Pierluigi Porcu

Kimmel Cancer Center Faculty Papers

Human T-cell leukemia virus type 1 (HTLV-1), the first oncogenic human retrovirus, causes adult T-cell leukemia/lymphoma (ATLL), an aggressive neoplasm of mature CD4+ T-cells that is incurable in most patients and is associated with a median survival of less than 1 year. HTLV-1 also causes inflammatory disorders, including HTLV-associated myelopathy/tropical spastic paraparesis (HAM/TSP) and uveitis. The estimated lifetime risks of ATLL and HAM/TSP in HTLV-1 carriers are 3-5% and 0.25-1.8%, respectively. Although there is uncertainty about other health effects of HTLV-1, a recent meta-analysis showed an association between HTLV-1 and cardiovascular, cerebrovascular, and metabolic diseases and a 57% increased risk …

Review On Exploring The Potential Of Black Soldier Fly (Hermetia Illucens) As A Novel Feed Ingredient For Poultry, Muhammad Naeem Jan, Nasir Rajput, Muhammad Naeem, Sher Ali, Ghulam Shabir Barham, Tehseen Fatima Miano

Journal of Bioresource Management

Poultry provides both direct and indirect employment opportunities to individuals. Every farm owner desires a reduced investment with more earnings. Over 50 % of the overall cost of chicken rearing is allocated to feed stuff. Among all feed ingredients, protein sources are the most expensive, yet protein is essential for production and growth. This exorbitant price cannot be sustained by the small-scale farmers. Consequently, contemporary scientists are attempting to substitute the protein supply with black soldier fly in their formulations. This review study examines the advantageous effect of utilizing Black Soldier Fly powder, larvae or oil, as demonstrated in scientific …

A Review On The Ethnozoological Remedies With The Help Of Animal Body Parts And Its Impact On Their Conservation Status, Minahal Fatima, Bushra Nisar Khan, Mudasser Hasan, Amina Tufail, Farhat Batool, Majida Maqbool, Fakhra Nazir

Journal of Bioresource Management

The use of wildlife in biomedical science has had a long history as it has been used as experimental animals, Sources of unusual physiology, and of bioactive compounds on which life-saving medicines are based. Amphibians are a Source of antimicrobial peptides, analgesic alkaloids, and regeneration. Immune adaptations and venoms of reptiles have produced cardiovascular medications, anti-clotting solutions and diabetes treatment. Birds serve as models of zoonotic diseases and provide immunological tools e.g. IgY antibodies and support embryology and neurobiology. Advanced studies on human disease, vaccines, cancer resistance and hypoxia tolerance have been facilitated by mammals such as rodents, primates, bats, …

Decorin Evokes A Pro-Lysosomal Pathway In Lymphatic Endothelial Cells, Gabriel J. Pascal, Dipon K. Mondal, Sadie Kim, Christopher Xie, Devanarayanan Siva Sankar, Jörn Dengjel, Renato V. Iozzo

Department of Pathology, Anatomy, and Cell Biology Faculty Papers

The lymphatic system is critical to the body's immune and circulatory system, and lymphangiogenesis, the development of new lymphatic vessels from pre-existing ones, is a significant process capitalized upon by cancer during tumorigenesis. Decorin is a small leucine-rich proteoglycan which we have previously shown to be anti-tumorigenic and a suppressor of lymphangiogenesis. We have also shown that decorin exercises its anticancer properties through its ability to evoke autophagy. Through a comprehensive and unbiased proteomic analysis, we explored the implications of decorin exposure on protein expression within mouse lymphatic endothelial cells. We discovered that decorin enriches several protein pathways, notably proteasomal …

Contributing To Acari Knowledge: The First Report Of Trombidium Grandissimum From The Soils Of Cholistan Desert, Rahim Yar Khan, Punjab, Pakistan, Muhammad Adnan Bodlah, Alishbah Mohsin, Ayesha Younas, Aleena Kanwal, Imran Bodlah, Yasir Niaz, Shumaila Khan, Shabbir Hussain

Journal of Bioresource Management

Trombidium grandissimum is also known by names, red velvet mite, real velvet mite, giant red velvet mite and rain bug, belongs to the family Trombidiidae and subclass Acari. Red velvet mite has four life stages: egg, larva, nymph, and adult. Adult red velvet mites were collected from agricultural farm area of Khwaja Fareed University of Engineering & Information Technology. Important taxonomic features were revealed by morphological study, including a body length of around half of an inch, velvety, unridged skin with dense hairs, stalked eyes, and specialized organs on the anterior legs including sensilla and claws. Carotene-induced bright red coloring …

Seroprevalence, Risk Factors, And Diagnostic Accuracy Of Brucellosis In Upper Dir District, Khyber Pakhtunkhwa, Pakistan, Sidra Sanam, Kamran Khan

Journal of Bioresource Management

Brucellosis is a zoonotic disease caused by the gram-negative, intracellular bacterium Brucella. Although it is endemic in Pakistan, comprehensive data on its prevalence, risk factors, and diagnostic accuracy remain limited. Therefore, this study aimed to assess these parameters in local communities of District Dir Upper, Khyber Pakhtunkhwa, Pakistan. A total of 345 individuals suspected of brucellosis were investigated. Blood samples and structured questionnaires were collected to determine prevalence and identify associated risk factors. Additionally, 50 culture-confirmed positive cases and 50 negative controls were used to evaluate the diagnostic performance of Enzyme-Linked Immunosorbent Assay (ELISA) and Serum Plate Agglutination Test …

Trophic Niche Overlap Between Native And Alien Fish Species: A Challenge For The Aquatic Ecosystems, Rana Manzoor Ahmad, Abdul Majid Khan, Mariya Basharat, Muhammad Rizwan, Neelam Shahzadi, Muhammad Imran

Journal of Bioresource Management

The different physiological and biological challenges are introduced not only on land but also in aquatic ecosystems due to increasing climatic changes and human needs. One of these challenges is the introduction of invasive alien species to the native freshwater ichthyofauna. These species not only disturb the ecological balance of the native water bodies but can also be a vector for parasitic diseases. The current study is designed to disclose the trophic niche overlap among exotic (Cyprinus carpio and Oreochromis mozambicus) and indigenous fish species (Labeo calbasu and Cirrhinus mrigala) from Head Baloki (Ravi River), Punjab, …

Hawthorn (Crataegus Spp.): Unlocking Its Potential For Health And Environmental Sustainability – A Comprehensive Review, Abdelhak Maghchiche

Journal of Bioresource Management

Hawthorn (Crataegus spp.), traditionally regarded as an important medicinal plant and frequently cited in the literature, presents significant potential for sustainable development and medical biotechnology. This review looks at several areas of Hawthorn that can be explored in response to current healthcare and environmental sustainability issues. Bioactive compounds from hawthorn, including active compounds primarily comprised of flavonoids, procyanidins, and triterpenoids, are responsible for potent antioxidant, anti-inflammatory, cardio-protective, and antimicrobial activities, potentially providing a source of potent therapeutic alternatives. Moreover, hawthorn has a well-documented record as a source of cardiovascular benefits to address arterial hypertension, congestive heart failure, and arrhythmias. In …

Diversity Of Butterflies (Lepidoptera) In Kanju, District Swat, Khyber Pakhtunkhwa, Pakistan, Said Miraj Ud Din, Khushbakht Asad, Hamid Ur Rahman, Attiya Iqbal

Journal of Bioresource Management

Butterflies are one of the most beautiful creatures on earth. They belong to the phylum Arthropoda, class Insecta, and order Lepidoptera. Butterflies play an important role in the ecosystem, contributing significantly to pollen transfer. They play an important role in pollination, and their foraging behavior enhances the genetic diversity. Additionally, they also play an important role in the food chain and serve as prey for birds, reptiles, and other insectivore organisms. The current study was conducted to find out the diversity and distribution of butterflies in Kanju district Swat, Khyber Pakhtunkhwa, Pakistan. A total 203 specimens were collected from August …

The Phenology Of Nine Native Tree Species In Gera Moist Afromontane Forest, Southwest Ethiopia, Dereje Egeta, Giche Yadesa, Abeje Eshete, Hailu Belay, Urge Charu, Tensay Teshome

Journal of Bioresource Management

Phenology is the study of the time series of biological phenomena of plants, such as flowering, fruiting, and leaflessness, related to seasonal change. Ethiopia is rich in vascular plant species. However, the tree phenology of selected species has been less studied. Therefore, the study aimed to document the phenology of nine native tree species in the Gera moist Afromontane forest in southwest Ethiopia. Forty-five mature trees (five of each species) were selected and numbered according to their species. The intensity of flowering and fruiting was assigned to four different classes. PAST software (version 4.03) and Microsoft Excel (version 2016) mapped …

Observational Activation Of Anterior Cingulate Cortical Neurons Coordinates Hippocampal Replay In Social Learning, Xiang Mou, Daoyun Ji

Faculty, Staff and Students Publications

Social learning enables a subject to make decisions by observing the actions of another. How neural circuits acquire relevant information during observation to guide subsequent behavior is unknown. Utilizing an observational spatial working memory task, we show that neurons in the rat anterior cingulate cortex (ACC) associated with spatial trajectories during self-running in a maze are reactivated when observing another rat running the same maze. The observation-induced ACC activities are reduced in error trials and are correlated with activities of hippocampal place cells representing the same trajectories. The ACC activities during observation also predict subsequent hippocampal place cell activities during …

Western Australian And South Australian Grain Enterprise Emission Intensities And Gross Margins: A Review, Christophe D'Abbadie, Ross Kingwell

Farm Systems and Economics research articles

Drawing on various datasets, crop enterprise emission intensities and gross margins are reported for the main broadacre crops grown in Western Australia and South Australia. Values are reported for various rainfall regions and across time, and for different farm performance groupings. As a generalisation, in each region, wheat and canola production display marked increases in emissions intensity across the study period whilst legume crops’ emission intensities increase far less. Wheat crops display upward emission intensity trajectories across time whilst displaying different rates of increase in emissions intensity according to regional rainfall. Canola demonstrates higher emissions intensities per tonne compared to …

09.29.2025 Ored Connect, Liz Williamson

ORED Newsletter

• Contest for Biosafety and Biosecurity Month
• ORED Website Walk Through training
• MIG Applications
• Field Fest

Uncovering The Pml::Rara Fusion In Cytogenetically Cryptic And Fish-Negative Acute Promyelocytic Leukemia-A Case Report And Comprehensive Literature Review, Busra Delikkaya, Jaime Eberle-Singh, Arianna Morton, Jerald Gong, Jinglan Liu

Department of Pathology, Anatomy, and Cell Biology Faculty Papers

The PML::RARA fusion resulting from t(15;17) is the genetic hallmark of acute promyelocytic leukemia (APL), typically detected by cytogenetics and/or fluorescence in situ hybridization (FISH) studies. Rarely, APL patients present with normal cytogenetics and FISH findings, complicating diagnosis and delaying life-saving therapy. We report a 23-year-old male with clinical, morphologic and immunophenotypic features consistent with APL but negative for FISH studies. Despite prompt initiation of all-trans retinoic acid (ATRA) based on clinical suspicion, the patient succumbed to intracranial hemorrhage. Quantitative reverse transcriptase PCR (qRT-PCR) confirmed a long isoform PML::RARA fusion. A review of 34 published cytogenetics- and FISH-negative cases since …

Genome-Wide Association Study And Genome Prediction Of Tallness Trait In Spinach Phenotyping, Ibtisam Alatawi, Haizheng Xiong, Hanan Alkabkabi, Kenani Chiwina, Beiquan Mou, Qun Luo, Yuejun Qu, Renjie Du, Awais Riaz, Derrick J. Harrison

Horticulture Faculty Publications and Presentations

Plant height is a critical agronomic trait in spinach (Spinacia oleracea L.), influencing both mechanical harvesting efficiency and overall yield. In this study, plant height variation was evaluated in 307 United States Department of Agriculture (USDA) germplasm accessions, which were phenotyped and genotyped using 15,058 single-nucleotide polymorphisms (SNPs) obtained from whole-genome resequencing. A genome-wide association study (GWAS) was conducted using the General Linear Model (GLM), Mixed Linear Model (MLM), Multiple Loci Mixed Model (MLMM), Fixed and Random Model Circulating Probability Unification (FarmCPU), and Bayesian-information and Linkage-disequilibrium Iteratively Nested Keyway (BLINK) models implemented in the Genomic Association and Prediction Integrated Tool …

Structural Variation Of The Right Coronary Ostium And Its Implications To Cardiac Medicine, Jessica L. Hensley, Joseph X. Anders, Timothy Robinson, William Srinivasan, Donald G. Matz, Ethan L. Snow

The Journal of Integrative Physiology

Introduction: The high oxygen demand of the heart’s myocardium is met via perfusion through the coronary arterial system. During embryological development, the right (RCA) and left (LMCA) coronary arteries fuse onto the aortic root, creating right (RCO) and left (LCO) ostial openings respectively to join the closed circulatory system. Regardless of their widely variable branching patterns, the ability of the RCA and LMCA to perfuse the myocardium initially relies on the functional patency of the coronary ostia. The objective of this study is to examine a unique extra-ostial tissue structure found overlying an RCO and provide a literature-based discussion of …

The Evaluation Of Variants Within Eight Collagen Genes Col1a1, Col1a2, Col3a1, Col5a1, Col11a1, Col15a1, Col22a1, And Col27a1 And A Risk Of Non-Contact Knee Ligament Rupture In Elite Handball Players: A Case-Control Study, Katarzyna Krawczak-Wójcik, Andrzej Mastalerz, Aleksandra Bojarczuk, Monika Johne, Alison V. September, Aleksandra Garbacz, Katarzyna Komar, Ewelina Maculewicz

Baltic Journal of Health and Physical Activity

Introduction: Knee ligament ruptures are common injuries among athletes. While most previous studies examined single collagen gene polymorphisms, few have investigated haplotype-level associations across multiple genes, particularly in elite handball players. Materials and methods: This case-control study analyzed variants in eight collagen genes (COL1A1, COL1A2, COL3A1, COL5A1, COL11A1, COL15A1, COL22A1, and COL27A1) in 103 elite Polish handball players with non-contact knee ligament rupture and 226 matched controls. Results: The COL22A1 rs11784270 CC genotype was associated with an increased risk (OR = 2.88, p = 0.01), with the strongest effect in the …

Scaling Symmetry Of The Hodgkin-Huxley Mathematical Model, Vladimir Valerievich Galanin

Progress in Scale Modeling, an International Journal

A computational method based on the application of a scaling transformation to the Hodgkin-Huxley mathematical model of the biological neuron and its generalizations to the case of various neural systems is proposed. The method makes it possible: 1) to obtain invariants of the scaling transformation of the Hodgkin-Huxley model; 2) to find self-similarity regions corresponding to the modes of neural activity; 3) to determine the conditions for the similarity of models of various types of biological neurons; 4) to reduce the order of the system of differential equations of the Hodgkin-Huxley model for neural systems with synchronous activity. The capabilities …

Comparative Transcriptomics Reveals Novel And Differential Circular Rna Responses Underlying Interferon-Mediated Antiviral Regulation In Porcine Alveolar Macrophages, Jiuyi Li, Oluwaseun Adeyemi, Laura C. Miller, Yongming Sang

Food and Animal Sciences Faculty Research

Porcine Reproductive and Respiratory Syndrome (PRRS) causes significant economic losses in the swine industry. Circular RNAs (circRNAs), a class of stable non-coding RNAs, are increasingly recognized as regulators in immune responses and host–virus interactions. This study investigated the genome-wide circRNA responses in porcine alveolar macrophages (PAMs), key cell targets of PRRSV, following treatment with a modified live virus (MLV) vaccine or two interferon (IFN) subtypes (IFN-α1, IFN-ω5). Using RNA sequencing, we identified over 1000 differentially expressed circRNAs across treatment groups, revealing both conserved and distinct expression profiles. Gene Ontology and KEGG pathway analyses indicated that circRNA-associated genes are significantly enriched …

Genomic Prediction And Association Mapping Of Early Season Flood Tolerance In Soybean, Caio Canella Vieira, Chengjun Wu, Derrick Harrison, Rafael Marmo, Liliana Florez-Palacios, Andrea Acuna, Daniel Rogers, Samuel B. Fernandes, Igor Fernandes, Grover Shannon, Heng Ye, Henry T. Nguyen

Crop, Soil and Environmental Sciences Faculty Publications and Presentations

Flooding has become a major threat to soybean [Glycine max (L.) Merr.] production as the frequency and intensity of extreme precipitations have been increasing due to climate change. While advances have been made in identifying soybean genetic resources and genomic regions associated with mid-season flood tolerance, there is limited understanding of early season flood tolerance at the vegetative growth stages V2/V4. This study aimed to identify genomic regions associated with early season flood tolerance using a diverse panel of 254 soybean accessions, as well as investigate the viability of implementing genomic prediction models for flood tolerance. Field trials were conducted …

Early-Life Exposure To Organic Chemical Pollutants As Assessed In Primary Teeth And Cardiometabolic Risk In Mexican American Children: A Pilot Study, Vidya S. Farook, Feroz Akhtar, Rector Arya, Alice Yau, Srinivas Mummidi, Juan Lopez Alvarenga, Alvaro Diaz-Badillo, Roy G. Resendez, John Blangero

Human Genetics Publications

Early-life exposure to organic chemicals (OCs) may influence childhood obesity and associated cardiometabolic risk. These conditions have been shown to disproportionately affect minority populations such as Mexican Americans (MAs). However, information on the impact of organic chemicals on cardiometabolic risk in MA children is limited. Therefore, we conducted a pilot study to assess the extent to which exposure to organic chemicals influences cardiometabolic traits (CMTs) in MA children. We recalled 25 children from a previous study and collected 25 primary teeth from them. Chemical analyses of the teeth were performed using established protocols. Target analytes included acetaminophen (APAP); 3,5,6-trichloro-2-pyridinol (TCPy), …

A Previously Unrecognized Species Of Celastrina From The Southeastern Coastal Plain Region Of The United States (Lycaenidae: Polyommatinae) Named In Honor Of The Memory Of Iryna Zarutska, Harry Pavulaan

The Taxonomic Report of the International Lepidoptera Survey

New species Celastrina iryna is described from the southeastern coastal plain of the United States. This species is most similar to C. neglecta but differs by possession of the unique dorsal overlay of clear wing scales found in C. ladon males. It is hypothesized that this may be a hybrid species. Some aspects of its life history remain unknown and call for further field research. The species name is a tribute to Iryna Zarutska, of Charlotte, North Carolina.

A Multifaceted Analysis Of The Genetic Origins, Growth, And Invasive Potential Of Introduced Floridian Sugarcane, Indy Hughes

Student Theses and Dissertations

Saccharum spontaneum L., wild sugarcane, is an aggressive invasive species, listed by the USDA as a Federal Noxious Weed (FNW). Despite this, S. spontaneum is used to create hardy, pest-resistant cultivars of domestic sugarcane. All cultivars have a small percentage of wild parentage, but the dosage is low to lessen the chance of inheriting undesirable traits. Saccharum spontaneum’s naturalized presence in Florida has been reported since 1993 and likely escaped from regulated sugarcane breeding facilities. The proximity of S. spontaneum populations to modern cultivars, grown intensively in the state, could potentially increase the risk of invasion. It is imperative to …

The Inherent Values Of Observation And Description: A Case Study In The Spiny Solanums Of Australia, Christopher T. Martine

Faculty Journal Articles

The basic exploratory effort of doing descriptive biology is an avenue by which we can deepen our knowledge about taxa and the natural phenomena that drive their diversification. As Conniff (2011) wrote in The species seekers, “we still live in the great age of discovery”, and much like that historically recognized period of the eighteenth and nineteenth centuries there remains today a distinct need for the sort of work that might have been attributable to the naturalists of that time. The careful observation of how organisms go about their lives, including how they interact with one another …

Unraveling Crop Nitrogen-Water Dynamics With Hyperspectral-Thermal Sensing In Northern Central Valley, California, Shahryar Fazli, Surendra Maharjan, Wenzhao Li, Joshua B. Fisher, Rejoice Thomas, Fernando Romero Galvan, Gabriela Shirkey, Hesham El-Askary

Mathematics, Physics, and Computer Science Faculty Articles and Research

Ensuring global food security in the face of climate change requires optimizing crop water use and nutrient management. This study investigates the relationship between canopy nitrogen (N) and evapotranspiration (ET) across sunflower, rice, walnut, alfalfa, and plum crops using advanced remote sensing technologies. High-resolution hyperspectral data from NASAs Earth Surface Mineral Dust Source Investigation (EMIT) and thermal multispectral data from the Landsat-based OpenET system were analyzed over 1,135 km² in California. Regression analysis revealed strong spatial association between canopy N and ET for sunflower (R² = 0.82), rice (R² = 0.71), and walnut (R² = 0.68), …

Streptococcus Anginosus Of The Urogenital Tract: Evidence Of The Same Strain Across Anatomical Sites Of The Same Females, Helen Appleberry, Jennifer Garcia-Israel, Leah Boger, Swarnali Banerjee, Alan J. Wolfe, Catherine Putonti

Biology: Faculty Publications and Other Works

Background: Streptococcus anginosus has been found to colonize multiple anatomical sites of the human body, including the oral cavity, gastrointestinal tract, skin, vagina, blood, and urinary tract. It is frequently isolated from catheterized urine samples obtained from adult females most often with lower urinary tract symptoms, but also on occasion from those without symptoms. Our prior genome analysis of 166 S. anginosus genomes identified two distinct groups, one – which we here call group Urinae – exhibits a tropism for the urinary tract. Results: Here we sequenced 100 isolates collected from different urogenital sites, including isolates from urine (both catheterized …