Digital Commons Network^™

Intraneuronal Β-Amyloid Accumulation: Aging Hiv-1 Human And Hiv-1 Transgenic Rat Brain, Hailong Li, Kristen A. Mclaurin, Charles F. Mactutus, Benjamin Linkins, Wenfei Huang, Sulie L. Chang, Rosemarie M. Booze

Faculty Publications

The prevalence of HIV-1 associated neurocognitive disorders (HAND) is significantly greater in older, relative to younger, HIV-1 seropositive individuals; the neural pathogenesis of HAND in older HIV-1 seropositive individuals, however, remains elusive. To address this knowledge gap, abnormal protein aggregates (i.e., β-amyloid) were investigated in the brains of aging (>12 months of age) HIV-1 transgenic (Tg) rats. In aging HIV-1 Tg rats, double immunohistochemistry staining revealed abnormal intraneuronal β-amyloid accumulation in the prefrontal cortex (PFC) and hippocampus, relative to F344/N control rats. Notably, in HIV-1 Tg animals, increased β-amyloid accumulation occurred in the absence of any genotypic changes in …

Cis- And Trans-Resveratrol Have Opposite Effects On Histone Serine-Adp-Ribosylation And Tyrosine Induced Neurodegeneration, Megha Jhanji, Chintada Nageswara Rao, Jacob C. Massey, Marion C. Hope Iii, Xueyan Zhou, C. Dirk Keene, Tao Ma, Michael D. Wyatt, Jason A. Stewart, Sajish Mathew

Faculty Publications

Serum tyrosine levels increase during aging, neurocognitive, metabolic, and cardiovascular disorders. However, calorie restriction (CR) and sleep lower serum tyrosine levels. We previously showed that tyrosine inhibits tyrosyl-tRNA synthetase (TyrRS)-mediated activation of poly-ADP-ribose polymerase 1 (PARP1). Here, we show that histone serine-ADP-ribosylation is decreased in Alzheimer’s Disease (AD) brains, and increased tyrosine levels deplete TyrRS and cause neuronal DNA damage. However, dopamine and brain-derived neurotrophic factor (BDNF) increase TyrRS and histone serine-ADP-ribosylation. Furthermore, cis-resveratrol (cis-RSV) that binds to TyrRS mimicking a ‘tyrosine-free’ conformation increases TyrRS, facilitates histone serine-ADP-ribosylation-dependent DNA repair, and provides neuroprotection in a TyrRS-dependent manner. …

Intra-Axonal Translation Of Khsrp Mrna Slows Axon Regeneration By Destabilizing Localized Mrnas, Priyanka Patel, Courtney N. Buchanan, Matthew D. Zdradzinski, Pabitra K. Sahoo, Amar N. Kar, Seung Joon Lee, Lauren S. Vaughn, Anatoly Urisman, Juan Oses-Prieto, Michela Dell'orco, Devon E. Cassidy, Irene Dalla Costa, Sharmina Miller, Elizabeth Thames, Terika P. Smith, Alma L. Burlingame, Nora Perrone-Bizzozero, Jeffery L. Twiss

Faculty Publications

Axonally synthesized proteins support nerve regeneration through retrograde signaling and local growth mechanisms. RNA binding proteins (RBP) are needed for this and other aspects of post-transcriptional regulation of neuronal mRNAs, but only a limited number of axonal RBPs are known. We used targeted proteomics to profile RBPs in peripheral nerve axons. We detected 76 proteins with reported RNA binding activity in axoplasm, and levels of several change with axon injury and regeneration. RBPs with altered levels include KHSRP that decreases neurite outgrowth in developing CNS neurons. Axonal KHSRP levels rapidly increase after injury remaining elevated up to 28 days post …

Intraneuronal Β-Amyloid Accumulation: Aging Hiv-1 Human And Hiv-1 Transgenic Rat Brain, Hailong Li, Kristen A. Mclaurin, Charles F. Mactutus, Benjamin Linkins, Wenfei Huang, Sulie L. Chang, Rosemarie M. Booze

Faculty Publications

The prevalence of HIV-1 associated neurocognitive disorders (HAND) is significantly greater in older, relative to younger, HIV-1 seropositive individuals; the neural pathogenesis of HAND in older HIV-1 seropositive individuals, however, remains elusive. To address this knowledge gap, abnormal protein aggregates (i.e., β-amyloid) were investigated in the brains of aging (>12 months of age) HIV-1 transgenic (Tg) rats. In aging HIV-1 Tg rats, double immunohistochemistry staining revealed abnormal intraneuronal β-amyloid accumulation in the prefrontal cortex (PFC) and hippocampus, relative to F344/N control rats. Notably, in HIV-1 Tg animals, increased β-amyloid accumulation occurred in the absence of any genotypic changes in …

The Dna Methylation Landscape Of Five Pediatric-Tumor Types, Alyssa C. Parker, Badí I. Quinteros, Stephen Piccolo

Faculty Publications

Fewer DNA mutations have been identified in pediatric tumors than in adult tumors, suggesting that alternative tumorigenic mechanisms, including aberrant DNA methylation, may play a prominent role. In one epigenetic process of regulating gene expression, methyl groups are attached at the 5-carbon of the cytosine ring, leading to 5-methylcytosine (5mC). In somatic cells, 5mC occurs mostly in CpG islands, which are often within promoter regions. In Wilms tumors and acute myeloid leukemias, increased levels of epigenetic silencing have been associated with worse patient outcomes. However, to date, researchers have studied methylation primarily in adult tumors and for specific genes—but not …

Maternal Lineage And Habitat Use Patterns Explain Variation In The Fecundity Of A Critically Endangered Baleen Whale, Ana L. Bishop, Leah M. Crowe, Philip K. Hamilton, Erin L. Meyer-Gutbrod

Faculty Publications

The critically endangered North Atlantic right whale population (Eubalaena glacialis) has experienced multiple periods of decreased reproduction within its observable history, which have played a role in the overall decline of the species. In addition to this synchronized variation in reproduction across the population, there exists considerable individual variation in fecundity. To determine the impacts of family history and habitat use behavior on these individual variations in fecundity, photo identification data collected during four decades of visual monitoring were used to create a calving index for sexually mature females that could be used to evaluate matrilineal influence on …

Estimating Cardiorespiratory Fitness Without Exercise Testing Or Physical Activity Status In Healthy Adults: Regression Model Development And Validation, Robert Sloan, Marco Visentini-Scarzanella, Susumu Sawada, Xuemei Sui M.D., M.P.H., Ph.D.

Faculty Publications

Background: Low cardiorespiratory fitness (CRF) is an independent predictor of morbidity and mortality. Most health care settings use some type of electronic health record (EHR) system. However, many EHRs do not have CRF or physical activity data collected, thereby limiting the types of investigations and analyses that can be done.

Objective: This study aims to develop a nonexercise equation to estimate and classify CRF (in metabolic equivalent tasks) using variables commonly available in EHRs.

Methods: Participants were 42,676 healthy adults (female participants: n=9146, 21.4%) from the Aerobics Center Longitudinal Study examined from 1974 to 2005. The nonexercise estimated CRF was …

Host Gut Resistome In Gulf War Chronic Multisymptom Illness Correlates With Persistent Inflammation, Dipro Bose, Somdatta Chatterjee, Ethan Older, Ratanesh Seth, Patricia Janulewicz, Punnag Saha, Ayan Mondal, Jeffrey M. Carlson, Alan W. Decho, Kimberly Sullivan, Nancy Kilmas, Stephen Lasley, Jie Li, Saurabh Chatterjee

Faculty Publications

Chronic multisymptom illness (CMI) affects a subsection of elderly and war Veterans and is associated with systemic inflammation. Here, using a mouse model of CMI and a group of Gulf War (GW) Veterans’ with CMI we show the presence of an altered host resistome. Results show that antibiotic resistance genes (ARGs) are significantly altered in the CMI group in both mice and GW Veterans when compared to control. Fecal samples from GW Veterans with persistent CMI show a significant increase of resistance to a wide class of antibiotics and exhibited an array of mobile genetic elements (MGEs) distinct from normal …

A Preliminary Study Of Proinflammatory Cytokines And Depression Following West Nile Virus Infection, Allison Lino, Timothy A. Erickson, Melissa Nolan Ph.D., Mph, Kristy O. Murray, Shannon E. Ronca

Faculty Publications

West Nile virus (WNV) is a neurotropic flavivirus that can cause acute febrile illness leading to neuroinvasive disease. Depression is a well-described outcome following infection, but the underlying pathogenic mechanisms are unknown. Proinflammatory cytokines play important roles in WNV infection, but their role in depression post-WNV remains unstudied. This research aimed to retrospectively evaluate associations between proinflammatory cytokines and new onset depression in a WNV cohort. Participants with asymptomatic WNV infection were significantly less likely to report new onset depression when compared to those with symptomatic disease. Participants with encephalitis and obesity were significantly more likely to report new onset …

Honey Bee Genetic Stock Determines Deformed Wing Virus Symptom Severity But Not Viral Load Or Dissemination Following Pupal Exposure, Hannah J. Penn, Michael D. Simone-Finstrom, Yanping Chen, Kristen B. Healy

Faculty Publications

Honey bees exposed to Varroa mites incur substantial physical damage in addition to potential exposure to vectored viruses such as Deformed wing virus (DWV) that exists as three master variants (DWV-A, DWV-B, and DWV-C) and recombinants. Although mite-resistant bees have been primarily bred to mitigate the impacts of Varroa mites, mite resistance may be associated with increased tolerance or resistance to the vectored viruses. The goal of our study is to determine if five honey bee stocks (Carniolan, Italian, Pol-Line, Russian, and Saskatraz) differ in their resistance or tolerance to DWV based on prior breeding for mite resistance. We injected …

Reporting Verb Variation Across Disciplines: An Academic Corpus Study, Grant Eckstein, Jacob D. Rawlins, Hannah Taylor, Haley Briggs, Andrea Candland, Elizabeth Hanks, Sarah Hill

Faculty Publications

Reporting verbs are used in academic writing to establish authorial voice when referencing previous research. Although the practice is widespread, inexperienced academic writers and second-language learners may struggle to select appropriate reporting verbs within their given discipline or may overuse them in ways that signal outsider status. The present study explores the distribution of reporting verbs across six disciplines in a corpus containing 270 academic research background sections (introduction and literature review). The results illustrate that disciplines vary widely in the number and type of reporting verbs used. While common reporting verbs across disciplines include argue, examine, report …

Delineating The Role Of The Msaabcr Operon In Staphylococcal Overflow Metabolism, Gc Bibek, Gyan S. Sahukhal, Mohamed O. Elasri

Faculty Publications

Staphylococcus aureus is an important human pathogen that can infect almost every organ system, resulting in a high incidence of morbidity and mortality. The msaABCR operon is an important regulator of several staphylococcal phenotypes, including biofilm development, cell wall crosslinking, antibiotic resistance, oxidative stress, and acute and chronic implant-associated osteomyelitis. Our previous study showed that, by modulating murein hydrolase activity, the msaABCR operon negatively regulates the proteases that govern cell death. Here, we report further elucidation of the mechanism of cell death, which is regulated by the msaABCR operon at the molecular level in the USA300 LAC strain. We showed …

Climate Change Reshuffles Northern Species Within Their Niches, Laura H. Antao, Benjamin Weigel, Giovanni Strona, Maria Hallfors, Elina Kaarlejarvi, Tad Dallas, Oystein H. Opedal, Janne Heliola, Heikki Henttonen, Otso Huitu, Erkki Korpimaki, Mikko Kuussaari, Aleksi Lehikoinen, Reima Leinonen, Andreas Lindén, Paivi Merila, Hannu Pietianinen, Juha Poyry, Maija Salemaa, Tiina Tonteri, Kristiina Vuorio, Otso Ovaskainen, Marjo Saastamoinen, Jarno Vanhatalo, Tomas Roslin, Anna-Liisa Laine

Faculty Publications

Climate change is a pervasive threat to biodiversity. While range shifts are a known consequence of climate warming contributing to regional community change, less is known about how species’ positions shift within their climatic niches. Furthermore, whether the relative importance of different climatic variables prompting such shifts varies with changing climate remains unclear. Here we analysed four decades of data for 1,478 species of birds, mammals, butterflies, moths, plants and phytoplankton along a 1,200 km high latitudinal gradient. The relative importance of climatic drivers varied non-uniformly with progressing climate change. While species turnover among decades was limited, the relative position …

Computational Methods To Simulate Molten Salt Thermophysical Properties, Talmage Porter, Michael M. Vaka, Parker Steenblik, Dennis Della Corte

Faculty Publications

Molten salts are important thermal conductors used in molten salt reactors and solar applications. To use molten salts safely, accurate knowledge of their thermophysical properties is necessary. However, it is experimentally challenging to measure these properties and a comprehensive evaluation of the full chemical space is unfeasible. Computational methods provide an alternative route to access these properties. Here, we summarize the developments in methods over the last 70 years and cluster them into three relevant eras. We review the main advances and limitations of each era and conclude with an optimistic perspective for the next decade, which will likely be …

A Century-Long Trajectory Of Phosphorus Loading And Export From Mississippi River Basin To The Gulf Of Mexico: Contributions Of Multiple Environmental Changes, Zihao Bian, Shufen Pan, Zhuonan Wang, Yuanzhi Yao, Rongting Xu, Hao Shi, Latif Kalin, Christopher Anderson, Dubravko Justic, Steven Lohrenz, Hanqin Tian

Faculty Publications

Phosphorus (P) control is critical to mitigating eutrophication in aquatic ecosystems, but the effectiveness of controlling P export from soils has been limited by our poor understanding of P dynamics along the land-ocean aquatic continuum as well as the lack of well-developed process models that effectively couple terrestrial and aquatic biogeochemical P processes. Here, we coupled riverine P biogeochemical processes and water transport with terrestrial processes within the framework of the Dynamic Land Ecosystem Model to assess how multiple environmental changes, including fertilizer and manure P uses, land use, climate, and atmospheric CO2, have affected the long-term dynamics of P …

Phylogenetic Characterization And Genome Sequence Analysis Of Burkholderia Glumae Strains Isolated In Thailand As The Causal Agent Of Rice Bacterial Panicle Blight, Nootjarin Jungkhun, Antonio Roberto Gomes De Farias, Jutatape Watcharachaiyakup, Nuttima Kositcharoenkul, Jong Hyun Ham, Sujin Patarapuwadol

Faculty Publications

Burkholderia glumae is one of the most critical rice-pathogenic bacteria, and it causes bacterial panicle blight (BPB) in rice plants. In 2017, BPB symptoms were observed from rice fields in Chiang Rai, Northern Thailand. Sixty-one isolates obtained from the symptomatic panicles of rice were initially identified as B. glumae by polymerase chain reaction (PCR) using species-specific primers. Among them, six selected strains isolated from the susceptible japonica rice cultivar DOA2 were characterized in terms of morpho-physiology, pathology, phylogenetics, and genomics. Our genome sequence analysis of the six selected strains revealed the presence of multiple prophages, which may reflect the high …

Influence Of Weather On Gobbling Activity Of Male Wild Turkeys, Patrick H. Wightman, James A. Martin, John C. Kilgo, Emily Rushton, Bret A. Collier, Michael J. Chamberlain

Faculty Publications

Gobbling activity of Eastern wild turkeys (Meleagris gallopavo silvestris; hereafter, turkeys) has been widely studied, focusing on drivers of daily variation. Weather variables are widely believed to influence gobbling activity, but results across studies are contradictory and often equivocal, leading to uncertainty in the relative contribution of weather variables to daily fluctuations in gobbling activity. Previous works relied on road-based auditory surveys to collect gobbling data, which limits data consistency, duration, and quantity due to logistical difficulties associated with human observers and restricted sampling frames. Development of new methods using autonomous recording units (ARUs) allows researchers to collect continuous data …

Recursive Movements Of Eastern Wild Turkey Broods In The Southeastern United States, Nicholas W. Bakner, Bradley S. Cohen, Bret A. Collier, Michael J. Chamberlain

Faculty Publications

Productivity of wild turkey (Meleagris gallopavo) populations throughout the southeastern United States has declined over the past several decades. Although population trajectory is driven primarily by annual reproduction, wild turkey managers have little information regarding the behavioral ecology of broods immediately post-hatch. Broods are known to revisit areas within their ranges, but revisitation behavior is poorly understood spatially and temporally. Thus, identifying patterns of visitation and revisitation can increase understanding of brood behavior. We monitored 94 brooding females until brood failure or 28 days after hatch to evaluate movements and to quantify landcover and vegetation density at revisited locations which …

The North American Freshwater Migratory Fish Database (Nafmfd): Characterizing The Migratory Life Histories Of Freshwater Fishes Of Canada, The United States And Mexico, Emily M. Dean, Arthur R. Cooper, Lizhu Wang, Wesley Daniel, Solomon David, Clayton Ernzen, Keith B. Gido, Edward Hale, Tim J. Haxton, William Kelso, Nancy Leonard, Chris Lido, Joseph Margraf, Michael Porter, Casey Pennock, David Propst, Jared Ross, Michelle D. Staudinger, Gary Whelan, Dana M. Infante

Faculty Publications

Aim: Migratory freshwater fishes are those that must access discrete habitats to complete their life cycles. Freshwater fish migrations occur around the world and provide numerous ecosystem services for humans and natural systems; however, many migratory species are in decline globally. A limiting factor to successfully conserve freshwater migratory fishes is that the migratory life histories of many species are unknown or only partially described. To provide researchers with critical and comprehensive information to conserve migratory fishes, we developed the North American Freshwater Migratory Fish Database (NAFMFD). Location: Canada, Mexico and the United States. Taxon: Freshwater fish. Methods: To develop …

Interindividual Variation In Maximum Aerobic Metabolism Varies With Gill Morphology And Myocardial Bioenergetics In Gulf Killifish, Bernard B. Rees, Jessica E. Reemeyer, Brian A. Irving

Faculty Publications

This study asked whether interindividual variation in maximum and standard aerobic metabolic rates of the Gulf killifish, Fundulus grandis, correlates with gill morphology and cardiac mitochondrial bioenergetics, traits reflecting critical steps in the O2 transport cascade from the environment to the tissues. Maximum metabolic rate (MMR) was positively related to body mass, total gill filament length and myocardial oxygen consumption during maximum oxidative phosphorylation (multiple R2=0.836). Standard metabolic rate (SMR) was positively related to body mass, total gill filament length and myocardial oxygen consumption during maximum electron transport system activity (multiple R2=0.717). After controlling for body mass, individuals with longer …

Novel Approaches To Environmental Monitoring And Control Of Listeria Monocytogenes In Food Production Facilities, Priyanka Gupta, Achyut Adhikari

Faculty Publications

Listeria monocytogenes is a serious public health hazard responsible for the foodborne illness listeriosis. L. monocytogenes is ubiquitous in nature and can become established in food production facilities, resulting in the contamination of a variety of food products, especially ready-to-eat foods. Effective and risk-based environmental monitoring programs and control strategies are essential to eliminate L. monocytogenes in food production environments. Key elements of the environmental monitoring program include (i) identifying the sources and prevalence of L. monocytogenes in the production environment, (ii) verifying the effectiveness of control measures to eliminate L. monocytogenes, and (iii) identifying the areas and activities to …

Feedback Stabilization And Robustness Analysis Using Bounds On Fundamental Matrices, Frederic Mazenc, Michael Malisoff

Faculty Publications

We prove a new robust stabilization theorem for time-varying systems that have sampled measurements and time-varying disturbances, and we provide new observer designs, using novel bounds for fundamental matrices for systems with disturbances. Our main tools use properties of Metzler matrices and positive systems.

Genetic Variation Among The Salinity Tolerant Breeding Lines Identified From Two Multi-Parent Advanced Generation Introgression Line Populations In Rice (Oryza Sativa), Sandeep Chapagain, Jonathan Concepcion, Rajat Pruthi, Lovepreet Singh, Adam Famoso, Prasant K. Subudhi

Faculty Publications

Salinity is a major environmental constraint affecting rice production in both irrigated and non-irrigated areas and threatening global food security. Development of salt-tolerant rice varieties with desirable agronomic traits is a logical approach to maintain high yield in saline areas. Here, we report development of two multi-parent advanced generation introgression line (MAGIL) rice populations in two US cultivar backgrounds and their physiological and morphological evaluation under salinity stress at germination and seedling stages. From the initial screening of 180 MAGILs in sand culture, 36 tolerant-to-moderately salt-tolerant lines were selected and further confirmed in hydroponics experiment. The selected MAGILs showed lower …

Highly Swellable Hydrogels Prepared From Extensively Oxidized Lignin, Jihyeon Hwang, Daniella V. Martinez, Estevan J. Martinez, Gift Metavarayuth, Dustin Goodlett, Qi Wang, Mitra Ganewatta, Michael S. Kent, Chuanbing Tang

Faculty Publications

Biopolymers such as lignin are gaining renewed appeal due to the need for sustainable materials. Herein, we used chelator-mediated Fenton (CMF) chemistry to oxidize Kraft lignin to develop sustainable super absorbent materials. The CMF chemistry adds oxygen, opens aromatic rings and increases COOH content, producing hydrophilic lignin without depolymerization. UV absorption, molecular weight, elemental analysis, and titration were used to study the chemical compositions of CMF-processed lignin. Then the chemically modified hydrophilic lignin was used to produce lignin-based hydrogels utilizing an aqueous polymerization and cross-linking reaction that enabled tunable properties. The resulting lignin hydrogels absorbed water up to 96% and …

Understanding Rapid Intercalation Materials One Parameter At A Time, Wessel Van Den Bergh, Morgan Stefik

Faculty Publications

Demand for fast, energy-dense storage drives the research into nanoscale intercalation materials. Nanomaterials accelerate kinetics and can modify reaction path thermodynamics, intercalant solubility, and reversibility. The discovery of intercalation pseudocapacitance has opened questions about their fundamental operating principles. For example, are their capacitor-like current responses caused by storing energy in special near-surface regions or rather is this response due to normal intercalation limited by a slower faradaic surface-reaction? This review highlights emerging methods combining tailored nanomaterials with the process of elimination to disambiguate cause-and-effect at the nanoscale. This method is applied to multiple intercalation pseudocapacitive materials showing that the timescales …

The Price Of Decentralization In Cooperative Coverage Problems With Energy-Constrained Agents, Xiangyu Meng, Christos G. Cassandras, Xinmiao Sun, Kaiyuan Xu

Faculty Publications

A multiagent coverage problem is considered with energy-constrained agents, where a charging station is used to replenish an agent's energy as it becomes depleted while performing the coverage task. The objective of this article is to compare the coverage performance between centralized and decentralized approaches. To this end, a centralized coverage control method is developed to switch agents between an optimal coverage formation and an optimal charging formation. We design a controller for agent trajectories that include dwell times at the optimal coverage locations, and charging times at the charging station to maximize a coverage metric over a finite time …

Verbal Inhibition Declines Among Older Women With High Fmr1 Premutation Expansions: A Prospective Study, Nell Maltman, Leann Dawalt, Jinkuk Hong, Audra Sterling, Elizabeth Berry-Kravis, Jessica Klusek, Marsha R. Mailick

Faculty Publications

The FMR1 premutation has been associated with difficulties in executive functioning, including verbal inhibition. However, little is known about the longitudinal profiles of verbal inhibition among FMR1 premutation carriers, particularly in women, and how individual factors such as aging and CGG repeat length may contribute to changes in verbal inhibition over time. The present study examined verbal inhibition performance (i.e., inhibition errors) on the Hayling Sentence Completion Task in a cohort of 92 women with the FMR1 premutation across two timepoints approximately three years apart. We examined the effects of age, CGG repeat length, and their interactions on verbal inhibition …

Are Pregnant Women With Disability Prescribed Opioids More And At Higher Dosages Than Those Without Disability?: A Retrospective Cohort Study Of South Carolina Medicaid Beneficiaries, Chelsea L. Richard Phd, Msph, Bryan L. Love Pharm.D., Nansi Boghossian, James Hardin Ph.D., Suzanne Mcdermott

Faculty Publications

Background: Nationally, individuals with disability have higher rates of opioid use and misuse and are prescribed higher doses than those without disability. Opioid prescriptions during pregnancy are associated with adverse birth outcomes. Objective: To understand the difference in opioid prescribing during pregnancy over time by disability status among Medicaid beneficiaries who gave birth from 2008 to 2017 in South Carolina. Methods: Data from hospital discharges, vital records, and pharmacy were linked to determine the mother's disability status, opioid prescriptions filled during pregnancy, and other maternal characteristics. Disability status was characterized into physical disability, inflammatory conditions, intellectual and developmental disabilities (IDD), …

In Their Own Words: Perspectives On Collection Weeding From Library Employees And Teaching Faculty, Dan Broadbent, Megan Frost, Gregory M. Nelson, David Pixton

Faculty Publications

Following a Science and Engineering collection weeding project of over 350,000 print items, our research team conducted interviews with 20 library employees and 19 teaching faculty involved in the project. The purpose of the interviews was to assess the interviewees’ perspectives and feelings relating to the time required to complete the project, inter- and intra- library communication, the decision-making processes, and their personal assessment of the costs and benefits of the project. The interviewees also offered their views of the overall project’s successes and areas for improvement. Drawing from a qualitative analysis of the interviews, we provide guidance for other …

Whole-Genome Sequencing Of Kmr3 And Oryza Rufipogon-Derived Introgression Line Il50-13 (Chinsurah Nona 2/Gosaba 6) Identifies Candidate Genes For High Yield And Salinity Tolerance In Rice, Shashi Rekha Thummala, Haritha Guttikonda, Shrish Tiwari, Rajeshwari Ramanan, Niranjan Baisakh, Sarla Neelamraju, Satendra K. Mangrauthia

Faculty Publications

The genomes of an elite rice restorer line KMR3 (salinity-sensitive) and its salinity-tolerant introgression line IL50-13, a popular variety of coastal West Bengal, India, were sequenced. High-quality paired-end reads were obtained for KMR3 (147.6 million) and IL50-13 (131.4 million) with a sequencing coverage of 30X-39X. Scaffolds generated from the pre-assembled contigs of each sequenced genome were mapped separately onto the reference genome of Oryza sativa ssp. japonica cultivar Nipponbare to identify genomic variants in terms of SNPs and InDels. The SNPs and InDels identified for KMR3 and IL50-13 were then compared with each other to identify polymorphic SNPs and InDels …