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834 Matching Results
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A role for ascorbate conjugates of (+)-catechin in proanthocyanidin polymerization
Article describes how both biochemically and genetically, that ascorbate (AsA) is an alternative “starter unit” to flavan-3-ol monomers for leucocyanidin-derived (+)-catechin subunit extension in the Arabidopsis thaliana anthocyanidin synthase (ans) mutant. The authors' findings advance the knowledge of (+)-catechin-type PA extension and indicate that PA oligomerization does not necessarily proceed by sequential addition of a single extension unit. AsA-[C]n defines a new type of PA intermediate which we term “sub-PAs”.
Date:
June 14, 2022
Creator:
Yu, Keji; Dixon, R. A. & Duan, Changquing
Object Type:
Article
System:
The UNT Digital Library
POSMM: an efficient alignment-free metagenomic profiler that complements alignment-based profiling
Article presents POSMM, Python-Optimized Standard Markov Model classifier, which is a new incarnation of the Markov model approach to metagenomic sequence analysis. The authors claim that by combining POSMM with ultrafast classifiers such as Kraken2, their complementary strengths can be leveraged to produce higher overall accuracy in metagenomic sequence classification than by either as a standalone classifier. POSMM is a user-friendly and highly adaptable tool designed for broad use by the metagenome scientific community.
Date:
March 8, 2023
Creator:
Burks, David J.; Pusadkar, Vaidehi & Azad, Rajeev K.
Object Type:
Article
System:
The UNT Digital Library
A modified aeroponic system for growing small-seeded legumes and other plants to study root systems
Authors of the article state that various growth systems are available for studying plant root growth and plant–microbe interactions including hydroponics and aeroponics. The aim of their study is to present step-by-step instructions for fabricating an aeroponic system, also called a “caisson,” that has been in use in several legume research labs studying the development of symbiotic nitrogen fixing nodules, but for which detailed directions are not currently available.
Date:
March 3, 2023
Creator:
Cai, Jingya; Veerappan, Vijaykumar; Arildsen, Kate; Sullivan, Catrina; Piechowicz, Megan; Frugoli, Julia et al.
Object Type:
Article
System:
The UNT Digital Library
Inhaled diesel exhaust particles result in microbiome‑related systemic inflammation and altered cardiovascular disease biomarkers in C57Bl/6 male mice
Article discusses the authors' investigation the hypothesis that exposure to inhaled diesel exhaust particles alters the gut microbiome and promotes microbial-related inflammation and cardiovascular disease biomarkers. To determine whether probiotics could prevent diet or DEP exposure mediated alterations in the gut microbiome or systemic outcomes, a subset of animals on the HF diet were treated orally with 0.3 g/day (~ 7.5 × 108 CFU/day) of Winclove Ecologic® Barrier probiotics throughout the study.
Date:
February 9, 2022
Creator:
Phillippi, Danielle T.; Daniel, Sarah; Pusadkar, Vaidehi; Youngblood, Victoria L.; Nguyen, Kayla N.; Azad, Rajeev K. et al.
Object Type:
Article
System:
The UNT Digital Library
CancerNet: a unified deep learning network for pan‑cancer diagnostics
Article states that despite remarkable advances in cancer research, cancer remains one of the leading causes of death worldwide. The author's proposed framework for cancer diagnostics detects cancers and their tissues of origin using a unified model of cancers encompassing 33 cancers represented in The Cancer Genome Atlas. Their model exploits the learned features of different cancers reflected in the respective dysregulated epigenomes, holding a great promise in early cancer detection.
Date:
June 13, 2022
Creator:
Gore, Steven & Azad, Rajeev K.
Object Type:
Article
System:
The UNT Digital Library
Reconstructing horizontal gene flow network to understand prokaryotic evolution
Article says that horizontal gene transfer (HGT) is a major source of phenotypic innovation and a mechanism of niche adaptation in prokaryotes. Methods for detecting HGT can be classified into phylogenetic-based and parametric or composition-based approaches, so authors exploited the complementary strengths of both the approaches to construct a high confidence horizontal gene flow network. The scale-free horizontal gene flow network presented here provides new insights into modes of transfer for the exchange of genetic information and also illuminates differential gene flow across phyla.
Date:
November 30, 2022
Creator:
Sungupta, Soham & Azad, Rajeev K.
Object Type:
Article
System:
The UNT Digital Library
Insights into the Bioinformatics and Transcriptional Analysis of the Elongator Complexes (ELPs) Gene Family of Wheat: TaELPs Contribute to Wheat Abiotic Stress Tolerance and Leaf Senescence
Article states that elongator complexes (ELPs) are the protein complexes that promote transcription through histone acetylation in eukaryotic cells and interact with elongating RNA polymerase II. ELPs’ role in plant growth and development, signal transduction, and response to biotic and abiotic stresses have been confirmed in model plants, but the functions of the wheat ELP genes are not well documented. The present study identified 18 members of the ELPs from the wheat genome with a homology search.
Date:
February 20, 2023
Creator:
Guo, Feng; Islam, Md Ashraful; Lv, Chenxu; Jin, Xiujuan; Sun, Lili; Zhao, Kai et al.
Object Type:
Article
System:
The UNT Digital Library
Lipidomic Analysis of Arabidopsis T-DNA Insertion Lines Leads to Identification and Characterization of C-Terminal Alterations in FATTY ACID DESATURASE 6
Article states that mass-spectrometry-based screening of lipid extracts of wounded and unwounded leaves from a collection of 364 Arabidopsis thaliana T-DNA insertion lines produced lipid profiles that were scored on the number and significance of their differences from the leaf lipid profiles of wild-type plants. The analysis identified Salk_109175C, which displayed alterations in leaf chloroplast glycerolipid composition, including a decreased ratio between two monogalactosyldiacylglycerol (MGDG) molecular species, MGDG(18:3/16:3) and MGDG(18:3/18:3).
Date:
June 21, 2022
Creator:
Lusk, Hannah J.; Neumann, Nicholas; Colter, Madeline; Roth, Mary R.; Tamura, Pamela; Yao, Libin et al.
Object Type:
Article
System:
The UNT Digital Library
Complete Genome Sequences of the Novel Cluster BP Phages Infecting Streptomyces sanglieri, AxeJC, Cumberbatch, Eastland, Eklok, HFrancette, Ignacio, Piccadilly, and Vondra
Article describes the Streptomyces sanglieri bacteriophages AxeJC, Cumberbatch, Eastland,Eklok, HFrancette, Ignacio, Piccadilly, and Vondra form a novel actinobacteriophage cluster,BP. These siphoviruses have circularly permuted genomes with an average size of 37,700 bp and a GC content of 71%. Each genome contains approximately 58 protein-coding genes, with no tRNAs.
Date:
September 14, 2022
Creator:
Nath, Sreemoye; Sulaiman, Ahmad; Maneekul, Jindanuch; Bhuiyan, Swapan; Layton, Sonya R.; Menchaca, Carolina et al.
Object Type:
Article
System:
The UNT Digital Library
Identification of Novel Antimicrobial Resistance Genes Using Machine Learning, Homology Modeling, and Molecular Docking
Article claims antimicrobial resistance (AMR) threatens the healthcare system worldwide with the rise of emerging drug resistant infectious agents. To infer novel resistance genes, we used complete gene sets of several bacterial strains known to be susceptible or resistant to specific drugs and associated phenotypic information within a machine learning framework that enabled prioritizing genes potentially involved in resistance.
Date:
October 23, 2022
Creator:
Sunuwar, Janak & Azad, Rajeev K.
Object Type:
Article
System:
The UNT Digital Library
Habitat amount or landscape configuration: Emerging HotSpot analysis reveals the importance of habitat amount for a grassland bird in South Dakota
The authors of the article used pheasants (Phasianus colchicus) across South Dakota, USA as a model species to identify environmental factors driving spatiotemporal variation in population productivity. They found that the amount of grassland at a local spatial scale was the primary factor influencing an area being a HotSpot.
Date:
September 26, 2022
Creator:
Harsh, Sprih; Lonsinger, Robert C. & Gregory, Andrew
Object Type:
Article
System:
The UNT Digital Library
Effectiveness of a Single Prolonged Aerobic Exercise Session on Executive Function Task Performance in Physically Active Adults (21–70 Years of Age)
Authors of the article sought to examine the effectiveness of an acute prolonged exercise session on post-exercise executive function in physically active adults and to assess if age or pre-exercise cognitive performance was predictive of the magnitude of change in executive task performance. Their results support the effectiveness of a single prolonged exercise bout to augment executive function in physically active adults, irrespective of age.
Date:
February 4, 2023
Creator:
Yates, Brandon A.; Armstrong, Lawrence E.; Lee, Elaine C.; Unverzagt, Frederick W.; Dadzie, Ekow Jr.; Williamson, Keith et al.
Object Type:
Article
System:
The UNT Digital Library
Multi-omic characterization of bifunctional peroxidase 4-coumarate 3-hydroxylase knockdown in Brachypodium distachyon provides insights into lignin modification associated pleiotropic effects
Article discusses how a bifunctional peroxidase enzyme, 4-coumarate 3-hydroxylase (C3H/APX), provides a parallel route to the shikimate shunt pathway for the conversion of 4-coumarate to caffeate in the early steps of lignin biosynthesis. Here, a multi-omic approach was used to characterize molecular changes resulting from C3H/APX-KD associated lignin modification and negative growth phenotype in Brachypodium distachyon.
Date:
September 28, 2022
Creator:
Shrestha, Him K.; Fichman, Yosef; Engle, Nancy L.; Tschaplinski, Timothy J.; Mittler, Ron; Dixon, R. A. et al.
Object Type:
Article
System:
The UNT Digital Library
Editorial: Lipid metabolism and membrane structure in plant biotic interactions
Article discusses how Lipid bilayers represent the interface between cells (or organelles) and their environment. Authors claim that this special topic brings together new reports on several of these lipid classes to shed light on the impacts of plant lipid metabolism and membrane organization on plant immunity.
Date:
December 6, 2022
Creator:
Goggin, Fiona L.; Shah, Jyoti & Gillaspy, Glenda
Object Type:
Article
System:
The UNT Digital Library
A lipidomics platform to analyze the fatty acid compositions of non-polar and polar lipid molecular species from plant tissues: Examples from developing seeds and seedlings of pennycress (Thlaspi arvense)
Article describes a stepwise targeted lipidomics approach to characterize the polar and non-polar lipid classes using complementary LC-MS methods. This lipidomics workflow was applied to developing, mature, and germinated pennycress seeds/seedlings and found unexpected changes among several lipid molecular species.
Date:
November 9, 2022
Creator:
Romsdahl, Trevor B.; Cocuron, Jean-Christophe; Pearson, Mackenzie J.; Alonso, Ana Paula & Chapman, Kent Dean
Object Type:
Article
System:
The UNT Digital Library
Manipulating plasma thyroid hormone levels alters development of endothermy and ventilation in nestling red-winged blackbirds
Authors of the article propose that thyroid hormones play an important role in regulating development of endothermy during the nestling period in altricial birds. Their data suggests plasma thyroid hormone levels play an active role in the systemic development of endothermic capacity and the development of ventilatory control.
Date:
November 29, 2022
Creator:
Sirsat, Tushar S.; Sirsat, Sarah K. G.; Price, Edwan R.; Pineda, Megan & Dzialowski, Edward M. (Edward Michael)
Object Type:
Article
System:
The UNT Digital Library
Sustainable nutrition: a spatially explicit modeling approach for urban land use planning
Article describes how rapid urbanization has influenced the transformation of local and global food systems, altering the availability, access to, and distribution of healthy food. Micronutrient deficiency and hunger have been exacerbated worldwide. The author's research proposes a simulation strategy to evaluate the impact of agricultural land use and crop choices on nutritional production in rapidly growing urban areas.
Date:
October 14, 2022
Creator:
Torres, Angélica Torres; Tiwari, Chetan & Atkinson, Samuel F.
Object Type:
Article
System:
The UNT Digital Library
Evaluation of pathways to the C-glycosyl isoflavone puerarin in roots of kudzu (Pueraria montana lobata)
Article describes how kudzu produces both O- and C-glycosylated isoflavones, with puerarin (C-glucosyl daidzein) as an important bioactive compound. The authors go on to explain how expression of recombinant UGTs in Escherichia coli and candidate C-glycosyltransferases in Medicago truncatula were used to explore substrate specificities, and gene silencing of UGT and key isoflavone biosynthetic genes in kudzu hairy roots employed to test hypotheses concerning the substrate(s) for C-glycosylation.
Date:
September 2, 2022
Creator:
Adolfo, Laci M.; Burks, David J.; Rao, Xiaolan; Alvarez-Hernandez, Anislay & Dixon, R. A.
Object Type:
Article
System:
The UNT Digital Library
Finding new friends and revisiting old ones – how plant lipid droplets connect with other subcellular structures
Article talks about how the number of described contact sites between different subcellular compartments and structures in eukaryotic cells has increased dramatically in recent years, which has substantially reinforced the well-known premise that these kinds of connections are essential for overall cellular organization. The authors discuss contact sites involving plant lipid droplets (LDs), including LD-endoplasmic reticulum (ER) connections that mediate the biogenesis of new LDs at the ER, LD-peroxisome connections.
Date:
July 18, 2022
Creator:
Scholz, Patricia; Chapman, Kent Dean; Mullen, Robert T. & Ischebeck, Till
Object Type:
Article
System:
The UNT Digital Library
Environmental filtering of macroinvertebrate traits influences ecosystem functioning in a large river floodplain
Article describes how the biodiversity–ecosystem function hypothesis postulates that higher biodiversity is correlated with faster ecosystem process rates and increased ecosystem stability in fluctuating environments. The authors examined linkages among floodplain wetland habitats, invertebrate communities and their associated traits, and ecosystem function across 60 sites within the floodplain wetlands of the lower Wolastoq, Saint John River, New Brunswick.
Date:
August 20, 2022
Creator:
Rideout, Natalie K.; Compson, Zacchaeus Greg; Monk, Wendy A.; Brunce, Meghann R.; Hajibabaei, Mehrdad; Porter, Teresita M. et al.
Object Type:
Article
System:
The UNT Digital Library
Recurrent urinary tract infection and estrogen shape the taxonomic ecology and function of the postmenopausal urogenital microbiome
Article describes how postmenopausal women are severely affected by recurrent urinary tract infection (rUTI). The authors perform shotgun metagenomics and advanced culture on urine from a controlled cohort of postmenopausal women to identify urogenital microbiome compositional and function changes linked to rUTI susceptibility.
Date:
October 18, 2022
Creator:
Neugent, Michael D.; Kumar, Ashwani; Hulyalkar, Neha V.; Lutz, Kevin C.; Nguyen, Vivian H.; Fuentes, Jorge L. et al.
Object Type:
Article
System:
The UNT Digital Library
Encroachment order and spatial patterns of broad-leaf tree species in the naturalization of a Cunninghamia lanceolata plantation
Authors of the article state that the aim of this study was to understand the encroachment order, spatial patterns, interspecific associations, and species diversity of a Cunninghamia lanceolata plantation and to provide context for how to improve the spatial structure of C. lanceolata plantations. Their results show that the encroachment of broad-leaf trees into the C. lanceolata plantation followed a clear successional sequence of tree community assembly: intolerant tree species encroachment first, such as Alniphyllum fortunei and Liquidambar formosana, encroached; neutral tree species then encroachment, such as Daphniphyllum oldhamii and Schima superba, and shade-tolerant tree species encroachment last, such as Castanopsis eyrei and Castanopsis tibetana.
Date:
August 3, 2022
Creator:
Zeng, Xiaoxia; Chen, Lin; Compson, Zacchaeus Greg; Li, Jiejun; Peng, Qiaohua; Gong, Chao et al.
Object Type:
Article
System:
The UNT Digital Library
Proteomic and metabolic disturbances in lignin-modified Brachypodium distachyon
This article investigates global metabolic responses to lignin pathway perturbations in the model grass Brachypodium distachyon using a systems biology approach.
Date:
June 7, 2022
Creator:
Barros, Jaime; Shrestha, Him K.; Serrani-Yarce, Juan C.; Engle, Nancy L.; Abraham, Paul E.; Tschaplinski, Timothy J. et al.
Object Type:
Article
System:
The UNT Digital Library
The flexibility of proanthocyanidin biosynthesis in plants
Article presents research that explores proanthocyanidin (PA) biosynthesis routes in plants. The data suggests that different species have evolved different routes for PA biosynthesis.
Date:
June 13, 2022
Creator:
Lu, Nan; Jun, Ji Hyung; Liu, Chenggang & Dixon, R. A.
Object Type:
Article
System:
The UNT Digital Library