Digital Commons Network^™

Artifactual Orthologs And The Need For Diligent Data Exploration In Complex Phylogenomic Datasets: A Museomic Case Study From The Andean Flora, Laura A. Frost, Ana M. Bedoya, Laura P. Lagomarsino

Faculty Publications

The Andes mountains of western South America are a globally important biodiversity hotspot, yet there is a paucity of resolved phylogenies for plant clades from this region. Filling an important gap in our understanding of the World's richest flora, we present the first phylogeny of Freziera (Pentaphylacaceae), an Andean-centered, cloud forest radiation. Our dataset was obtained via hybrid-enriched target sequence capture of Angiosperms353 universal loci for 50 of the ca. 75 spp., obtained almost entirely from herbarium specimens. We identify high phylogenomic complexity in Freziera, including the presence of data artifacts. Via by-eye observation of gene trees, detailed examination of …

Assembly And Repair Of Photosystem Ii In Chlamydomonas Reinhardtii, Himanshu S. Mehra, Xiaozhuo Wang, Brandon P. Russell, Nidhi Kulkarni, Nicholas Ferrari, Brent Larson, David J. Vinyard

Faculty Publications

Oxygenic photosynthetic organisms use Photosystem II (PSII) to oxidize water and reduce plastoquinone. Here, we review the mechanisms by which PSII is assembled and turned over in the model green alga Chlamydomonas reinhardtii. This species has been used to make key discoveries in PSII research due to its metabolic flexibility and amenability to genetic approaches. PSII subunits originate from both nuclear and chloroplastic gene products in Chlamydomonas. Nuclear-encoded PSII subunits are transported into the chloroplast and chloroplast-encoded PSII subunits are translated by a coordinated mechanism. Active PSII dimers are built from discrete reaction center complexes in a process facilitated by …

Rhizobia-Legume Symbiosis Mediates Direct And Indirect Interactions Between Plants, Herbivores And Their Parasitoids, Carlos Bustos-Segura, Adrienne L. Godschalx, Lucas Malacari, Sergio Rasmann, Fanny Deiss, Daniel Ballhorn, Betty Benrey

Biology Faculty Publications and Presentations

Microorganisms associated with plant roots significantly impact the quality and quantity of plant defences. However, the bottom-up effects of soil microbes on the aboveground multitrophic interactions remain largely under studied. To address this gap, we investigated the chemically- mediated effects of nitrogen-fixing rhizobia on legume-herbivore-parasitoid multitrophic interactions. To address this, we initially examined the cascading effects of the rhizobia bean association on herbivore caterpillars, their parasitoids, and subsequently investigated how rhizobia influence on plant volatiles and extrafloral nectar. Our goal was to understand how these plant- mediated effects can affect parasitoids. Lima bean plants (Phaseoulus lunatus) inoculated with rhizobia exhibited …

Forging The Future: Strategic Approaches To Quantum Ai Integration For Industry Transformation, Meng Leong How, Sin Mei Cheah

CCX Research

The fusion of quantum computing and artificial intelligence (AI) heralds a transformative era for Industry 4.0, offering unprecedented capabilities and challenges. This paper delves into the intricacies of quantum AI, its potential impact on Industry 4.0, and the necessary change management and innovation strategies for seamless integration. Drawing from theoretical insights and real-world case studies, we explore the current landscape of quantum AI, its foreseeable influence, and the implications for organizational strategy. We further expound on traditional change management tactics, emphasizing the importance of continuous learning, ecosystem collaborations, and proactive approaches. By examining successful and failed quantum AI implementations, lessons …

Feeding Behavior Of Sweet Potato Weevil, Cylas Formicarius (Fabricius) (Coleoptera: Brentidae) On Three Sweet Potato, Ipomoea Batatas L. Cultivars Grown In Tarlac, Philippines, Jerah Mystica Novenario, Flor Ceballo-Alcantara

The Philippine Agricultural Scientist

Sweet potato is grown in tropical countries for its edible tubers, which have become an essential food source. It is usually propagated through vine-cutting, which can be obtained from harvested plants or nurseries intended for cutting production only. The recurrent use of vines may cause increased weevil infestation. The crop is known to be infested with insect pests. More importantly, the sweet potato weevil, Cylas formicarius, targets the tubers, thus, causing the economic losses. Sweet potato farmers in Tarlac claim that only one sweet potato cultivar is being attacked by C. formicarius, however, it was found in this experiment that …

Application Of The Analytic Hierarchy Process And Geographic Information System In Selecting Sites For A Seafood Market Study, Shielameh Peralta-Milan, Osamu Baba, Severino Iii Salmo

The Philippine Agricultural Scientist

Study site selection is essential for the success of many fisheries-related programs. A thorough site selection could provide transparency in the decision-making process and optimize resources. In this research, the analytic hierarchy process (AHP) approach was used to select sites for a market study of reef-associated seafood in Alaminos City, Northwestern Philippines. Out of the 10 coastal barangays, four (Lucap, Sabangan, Telbang, and Victoria) were initially chosen, and the difference between these sites and the priority sites generated from AHP was examined. Five decision criteria and 10 alternatives (coastal barangays) were analyzed to calculate priority weights using pairwise comparisons. The …

Taxonomy Of Cassava (Manihot Esculenta Crantz) Mealybugs (Hemiptera: Pseudococcidae) - 1: Identification And Local Distribution Of The Predominant Species On Witches’ Broom-Diseased Plants In The Philippines, Ireneo L. Lit Jr., Cristian Lucañas, Joanne Langres, Lolita Dolores, Ruby Ana Laude, Merdelyn Caasi-Lit

The Philippine Agricultural Scientist

Samples of cassava (Manihot esculenta Crantz) plants infected with witches’ broom disease were gathered from 13 provinces in the Philippines. Mealybugs were observed to occur in nine out of the 13 cumulative samples. The most predominant among several mealybug species observed was identified as Pseudococcus jackbeardsleyi Gimpel and Miller. P. jackbeardsleyi is not yet known to transmit phytoplasma, especially the one causing cassava witches’ broom (CWB). However, its occurrence in almost 70% of the CWB-infected samples provides circumstantial evidence that it may be related to the spread of the pathogen. This formal report of identification is in support of the …

Effects Of Redrying Methods On The Milling Potential, Crude Protein And Total Phenolic Content, And Antioxidant Activity Of Stored Inorganic And Organically-Grown Paddy, Mary Ann Baradi, Jessica Solero, Clarence Dangcil, Gerome Corpuz, Marissa Romero

The Philippine Agricultural Scientist

This study sought to determine the effects of redrying techniques (no redrying or Control, 2-h, 4-h, and 6-h redrying with stirring every 30 min, Farmer's Practice or 6-h redrying with one stirring) on grain quality of stored inorganic and organic paddy rice as well as the redrying method that gives the best quality rice. PSB Rc82 rice harvested in October 2016 was used in the experiment conducted in February 2017. Quality parameters evaluated were moisture content, brown rice, total milled rice, crude protein content in percent, total phenolic content, and 2-2 diphenyl-1-picrylhydrazyl (DPPH) radical scavenging activity. PSB Rc82 paddy exposed …

Techno-Economic Feasibility Of Polyhydroxybutyrate (Phb) Production From Corn Stover, Jey-R Ventura, Ruby Lynn Ventura

The Philippine Agricultural Scientist

This research evaluated the techno-economic feasibility of polyhydroxybutyrate (PHB) production using corn stover as a substrate for the fermentation process. The target PHB plant production was set at 1000 t PHB per yr, with a daily production of about 3 t PHB. The required corn stover biomass was around 12 000 t per yr. The economic analysis of this study suggested that 91.13 M US$ is needed to put up the targeted plant production capacity, with 94% of the total investment to be allotted to the direct fixed capital cost. Annual operating cost was rated at 4.71 M US$ per …

Plethodon Hubrichti (Peaks Of Otter Salamander) And Plethodon Cinereus (Eastern Red-Backed Salamander). Longevity., Norman Reichenbach, Andrew Kniowski, Timothy R. Brophy, Cory Goff

Faculty Publications and Presentations

Salamanders have relatively long life spans, comparable to much larger endotherms, due to indefinite regenerative potential, minimal senescence, cancer resistance, and low metabolic rates (Cayuela et al. 2019. Proc. R. Soc. B 286:20191498; Yun 2021. Cell Dev. Biol. 9:689062). Plethodon species have survived from 4 to 32 years in the field or captivity (Snider and Bowler 1992. Longevity of Reptiles and Amphibians in North American Collections. 2nd ed. SSAR Herpetol. Circ. 21:1–40; Staub 2016. Copeia 2016:118–123). Methods used for determining salamander longevity include size distributions over time, capture-mark-recapture studies (CMR), skeletochronology, and direct observations in captivity (Staub 2016, op. cit.).

Diagnostic Yield Of Exome Sequencing In Prenatal Agenesis Of Corpus Callosum: Systematic Review And Meta-Analysis, H. J. Mustafa, J. P. Barbera, E. V. Sambatur, G. Pagani, Y. Yaron, C. D. Baptiste, R. J. Wapner, C. J. Brewer, A. Khalil

Department of Medicine Faculty Papers

OBJECTIVES: To determine the incremental diagnostic yield of exome sequencing (ES) after negative chromosomal microarray analysis (CMA) in cases of prenatally diagnosed agenesis of the corpus callosum (ACC) and to identify the associated genes and variants.

METHODS: A systematic search was performed to identify relevant studies published up until June 2022 using four databases: PubMed, SCOPUS, Web of Science and The Cochrane Library. Studies in English reporting on the diagnostic yield of ES following negative CMA in prenatally diagnosed partial or complete ACC were included. Authors of cohort studies were contacted for individual participant data and extended cohorts were provided …

Effect Of Sex On The Development Of Non-Alcoholic Fatty Liver Disease During The Progression Of Metabolic Syndrome, Noah C. Wallace

Electronic Theses and Dissertations Archive

Background: There is an association between sex and the prevalence of Metabolic Syndrome (MetS) and Non-Alcoholic Fatty Liver Disease (NAFLD). Objective: Determine the effects of sex and high fat/sucrose diet on the development of MetS and NAFLD. Methods: 30 male and 30 female C57BL/6 mice were place on one of three diets: High Fat (45% Fat), High Sugar (60% Sucrose), and Control. Results: Male mice on a High Fat diet showed the greatest weight gain amongst all the group as well as demonstrating earlier signs of glucose intolerance. Only those placed on a high sugar diet had indications of liver …

An Exploration Of Bereaved Black And African American Youth’S Engagement With The Meaning Making Model Of Coping, Rachel Stobbe

Electronic Theses and Dissertations Archive

The death of a parent in childhood is a profoundly distressing event, which often overshadows discussions about post-loss growth. Importantly, Black and African American youth have been historically overlooked in the grief literature, despite experiencing high rates of parental loss influenced by discriminatory systems of oppression. The current study employed reflexive thematic analysis to assess engagement with the Meaning Making Model of Coping (Park, 2010; Park & Folkman, 1997) among 15 parentally bereaved Black and African American youth (Mage = 13.07, SD = 2.22; 60% female). Six themes emerged and findings suggest that creating space for bereaved youth to openly …

“I Thought It Would Help” A Review Of Criminal Justice Undergraduate Knowledge Of Miranda Rights, Ellen Marcia Mcleod

Electronic Theses and Dissertations Archive

This study aims to better understand the levels of understanding of Miranda rights amongst college undergraduate students who are studying criminal justice. By considering many factors like race, education, exposure, and confidence in understanding, this study looks to narrow down the components of Miranda rights that are misunderstood and what could be contributing to misunderstanding. The data were collected from a vignette style survey that measured various factors that could be contributing to the understanding or misunderstanding of Miranda rights. Results indicate that there are differences in Miranda understanding across different components of Miranda. However, results show that Black students …

Impulsivity And Motivational Deficits In Rats Perinatally Exposed To Delta-9-Tetrahydrocannabinol, Monica S. Carbajal

Electronic Theses and Dissertations Archive

The perception that cannabis (i.e., marijuana) use produces little to no harm is widespread, with about 70% of both pregnant and nonpregnant women believing there is slight or no risk associated with using cannabis once or twice a week. However, perinatal exposure to cannabis has been linked to externalizing behaviors in offspring, including impulsivity, hyperactivity, and substance use – behaviors associated with externalizing disorders including attention-deficit hyperactivity disorder (ADHD). In preclinical research, most studies focus on exposure to the psychoactive constituent of cannabis, delta-9-tetrahydrocannabinol (∆9-THC). ∆9-THC is lipophilic so it can cross the placental barrier and is secreted in maternal …

The Effect Of Mitochondrial Transplant Therapy On Muscle Damage And Exercise Performance, Samantha Lynn Davis

Electronic Theses and Dissertations Archive

Objective: To determine if weekly mitochondrial transplants given to animals undergoing a muscle damaging protocol will improve exercise performance and immune responses. Methods: Mitochondrial injections were given to eight-week-old C57/BL6 mice (N=7/group) for 6 weeks under a muscle damaging exercise protocol. A run-to-fatigue test was completed at baseline, 4, and 6 weeks. Blood was collected immediately after the last run; tissues and organs were harvested 24 hours later for transcription measurements and histology. Results: No significant differences were found in exercise performance in any week. Histological analysis did not show any differences between groups. PGC1-α transcripts were significantly decreased in …

Social Ecology, Preventive Intervention, And The Administrative Transformation Of The Criminal Legal System, Mark R. Fondacaro

Georgia State University Law Review

This Article outlines an administrative model of criminal justice that provides a conceptual framework and empirical justification for transforming our criminal legal system from a backward-looking, adjudicative model grounded in principles of retribution toward a forward-looking model grounded in consequentialist principles of justice aimed at crime prevention and recidivism reduction. The Article reviews the historical roots and justifications for our current system, along with recent advances in the behavioral, social, and biological sciences that inform why and how the system fuels injustice. The concept of social ecology is introduced as an organizing framework for: (1) understanding why individuals do or …

Missing The Mark: How Miranda Fails To Consider A Minor's Mind, Julia Feron

Hofstra Law Review

The article focuses on the inadequacies of the Miranda rights protections for minors during custodial interrogations. It highlights how current practices, such as deceptive interrogation techniques, disproportionately affect minors who often lack the capacity to fully understand or voluntarily waive their rights. It underscores the need for legal reforms, such as mandating attorney consultation for minors before waiving their rights.

Fair + Equitable March 2024, International Association Of Assessing Officers

Fair + Equitable

The March F+E cover story by John Lifflander looks at preparing for property tax appeals and the importance of early groundwork to present a clear, convincing case.

In addition, the issue also includes articles on:

• Career Center jobs
• IAAO celebrating its 90th anniversary in 2024, including noting its nine female presidents in 90 years
• Our library is 40 but IAAO has been providing research help for 90 years
• Conference registration opens in April; hotel block is now available
• The importance of award nominations
• Fellows Council seeking nominations
• GIS conference keynote preview
• Members approve bylaws amendments
• California’s hot housing market
• New …

A Modified Target-Netting Method Of Optimizing Capture Success Of Chuck-Will’S-Widow, Rebecca D. Bracken, Tabitha W. Olsen, Scott A. Rush

North American Bird Bander

No abstract provided.

Gene Dosage Of Independent Dynein Arm Motor Preassembly Factors Influences Cilia Assembly In Chlamydomonas Reinhardtii, Gervette M. Penny, Susan K. Dutcher

2020-Current year OA Pubs

Motile cilia assembly utilizes over 800 structural and cytoplasmic proteins. Variants in approximately 58 genes cause primary ciliary dyskinesia (PCD) in humans, including the dynein arm (pre)assembly factor (DNAAF) gene DNAAF4. In humans, outer dynein arms (ODAs) and inner dynein arms (IDAs) fail to assemble motile cilia when DNAAF4 function is disrupted. In Chlamydomonas reinhardtii, a ciliated unicellular alga, the DNAAF4 ortholog is called PF23. The pf23-1 mutant assembles short cilia and lacks IDAs, but partially retains ODAs. The cilia of a new null allele (pf23-4) completely lack ODAs and IDAs and are even shorter than cilia from pf23-1. In …

Lenalidomide In The Treatment Of Anti-Myelin-Associated Glycoprotein Neuropathy: A Phase 1 Study To Identify The Maximum Tolerated Dose., Amro M Stino, Naresh Bumma, Rachel Smith, Long Davalos, Jeff Allen, Jing Christine Ye, Matthew Pianko, Erica Campagnaro, Cassandra Fierro, Abdelrahman Awad, Ben Murdock, Maciej Pietrzak, Gerard Loszanski, David M Kline, Yvonne Efebera, Bakri Elsheikh

Neuroscience Articles

BACKGROUND: Anti-myelin-associated glycoprotein (MAG) neuropathy is a debilitating demyelinating polyneuropathy with no approved therapies. Our primary objective was to ascertain lenalidomide safety and maximum tolerated dose (MTD) in anti-MAG neuropathy.

METHODS: This phase 1b, open-label, single-arm, dose-finding trial was conducted from 2019 through 2022. The original design included a dose-escalation/extension phase followed by a dose-expansion phase. Three doses of lenalidomide were evaluated: 10, 15, and 25 mg. The main outcome was the MTD.

RESULTS: Eleven patients enrolled (10 men), with a mean age of 67.6 years (SD = 6.18, range 58-77 years) and mean disease duration of 8.5 years (SD …

Born To Equality: Minor Children, Equal Protection, And State Laws Targeting Lgbtq+ Youth, Nicholas Serafin

UC Law Journal

States throughout the country are targeting LGBTQ+ youth, singling out transgender youth in particular. Part I of this Article provides an overview of laws targeting LGBTQ+ youth, and argues that many of these laws express animus towards and impose a stigma upon LGBTQ+ minor children. Though they are distinct doctrines, the Court has interwoven animus and stigma- based arguments throughout its gay rights jurisprudence to protect LGBTQ+ individuals from state action that imposes dignitary harm. Laws targeting LGBTQ+ youth often evince the same irrational hostility and stigmatizing purpose that the Court rejected decades ago.

Historically the Court’s LGBTQ+ jurisprudence has …

Maternal Gestational Diabetes And Childhood Adiposity Risk From 6 To 8 Years Of Age, Weiqin Li, Leishen Wang, Huikun Liu, Shuang Zhang, Wei Li, Junhong Leng, Xilin Yang, Zhijie Yu, Amanda E. Staiano, Gang Hu

Population and Public Health Science Faculty Publications

Background/objective: Previous studies found conflicting results on the association between maternal gestational diabetes mellitus (GDM) and childhood overweight/obesity. This study was to assess the association between maternal GDM and offspring’s adiposity risk from 6 to 8 years of age. Methods: The present study longitudinally followed 1156 mother-child pairs (578 GDM and 578 non-GDM) at 5.9 ± 1.2 years postpartum and retained 912 mother-child pairs (486 GDM and 426 non-GDM) at 8.3 ± 1.6 years postpartum. Childhood body mass index (BMI), waist circumference, body fat and skinfold were measured using standardized methods. Results: Compared with the counterparts born to mothers with …

Interactive Effects Of Gestational Diabetes And High Pre-Pregnancy Body Mass Index On Adverse Growth Patterns Of Offspring, Weihan Cao, Ninghua Li, Rui Zhang, Weiqin Li, Ming Gao, Hui Wang, Leishen Wang, Yijuan Qiao, Jing Li, Zhijie Yu, Gang Hu, Junhong Leng, Xilin Yang

Population and Public Health Science Faculty Publications

Aims: To examine the independent and interactive effects of maternal gestational diabetes mellitus (GDM) and high pre-pregnancy body mass index (BMI) on the risk of offspring adverse growth patterns. Materials and Methods: One thousand six hundred and eighty one mother-child pairs were followed for 8 years in Tianjin, China. Group-based trajectory modelling was used to identify offspring growth patterns. Logistic regression was performed to obtain odds ratios (ORs) and 95% confidence intervals (CIs) of GDM and high pre-pregnancy BMI for offspring adverse growth patterns. Restricted cubic spline was used to identify cut-off points. Additive interactions and multiplicative interactions were used …

A 2,000-Year Record Of Eelgrass (Zostera Marina L.) Colonization Shows Substantial Gains In Blue Carbon Storage And Nutrient Retention, Martin Dahl, Martin Gullström, Irene Bernabeu, Oscar Serrano, Carmen Leiva-Dueñas, Hans W. Linderholm, Maria E. Asplund, Mats Björk, Tinghai Ou, J. Robin Svensson, Elinor Andrén, Thomas Andrén, Sanne Bergman, Sara Braun, Anneli Eklöf, Zilvinas Ežerinskis, Andrius Garbaras, Petter Hällberg, Elin Löfgren, Malin E. Kylander, Pere Masqué, Justina Šapolaitė, Rienk Smittenberg, Miguel A. Mateo

Research outputs 2022 to 2026

Assessing historical environmental conditions linked to habitat colonization is important for understanding long-term resilience and improving conservation and restoration efforts. Such information is lacking for the seagrass Zostera marina, an important foundation species across cold-temperate coastal areas of the Northern Hemisphere. Here, we reconstructed environmental conditions during the last 14,000 years from sediment cores in two eelgrass (Z. marina) meadows along the Swedish west coast, with the main aims to identify the time frame of seagrass colonization and describe subsequent biogeochemical changes following establishment. Based on vegetation proxies (lipid biomarkers), eelgrass colonization occurred about 2,000 years ago after geomorphological changes …

School Pronouns And The Compelled-Speech Objection, Phillip Seaver-Hall

Mercer Law Review

America’s transgender youth are entrenched in a nationwide mental health crisis. A majority of transgender teenage boys have attempted suicide at least once, and roughly a third of transgender teenage girls have done the same. To mitigate this national emergency, many public school districts have begun requiring their teachers to use transgender students’ preferred names and pronouns. Many conservatives, however, insist that such rules violate the First Amendment’s prohibition of compelled speech.

This article thoroughly dissects that argument and exposes its flaws. It examines the compelled‑speech objection through the lens of the government speech doctrine, weighs countervailing academic‑freedom concerns, proposes …

Kansas City Municipal Court's Domestic Violence Court Programming, Courtney A. Wachal, Gerald Sorensen, Jenna Phelps, Nephateri Hill

UMKC Law Review

The Kansas City Municipal Domestic Violence Court identifies cases as domestic violence if they involve intimate partner violence, violations of protective order, interfamily violence, or cases where there is a child witness. This court manages a large caseload of domestic violence violations that vary widely in the severity of the charges and the levels of violence.

The Kansas City Municipal Domestic Violence Court has prioritized their probation resources by focusing services on those cases that are most in need of supervision and on those cases most likely to be receptive to services. This article will discuss The Compliance Docket and …

Iiaas And The Montreal Protocol: The Legal Minefield Inside The Most Successful Environmental Treaty In History, Jackson Elder

UMKC Law Review

The most successful environmental treaty in history might break international law's core principle, and it all depends on who you ask. International law consists of rules and principles relating to states, international organizations, and individuals. The source of all international law is the consent of nations, and each nation is governed by the treaties they consent to. Provisions that force states to behave according to its text and do not satisfy international law's traditional consent standard are consequential. As no term exists for these provisions currently, these clauses have been termed as international imposed axiomatic alterations ("IIAA"s). IIAAs, for this …

Ptsd As Bodily Injury: Perspectives From Neuroscience And Medical Psychology, Jennifer Sweeton

UMKC Law Review

This Comment proposes that PTSD be reconceptualized, and reclassified, as a bodily injury in personal injury cases. In Part II, this Comment reviews the way courts describe PTSD in personal injury cases. Part III examines psychiatric literature and discusses the symptoms and classification of PTSD as both an emotional and medical condition. It also identifies several structural and functional brain alterations associated with PTSD, in addition to physiological changes that occur as a result of PTSD. Part IV asserts that the brain processes physical and emotional pain almost identically, and that most injuries include both emotional and physical components. In …