1
|
Averill JR, Lin JC, Jung J, Jung H. Novel insights into the role of translesion synthesis polymerase in DNA incorporation and bypass of 5-fluorouracil in colorectal cancer. Nucleic Acids Res 2024; 52:4295-4312. [PMID: 38416579 PMCID: PMC11077093 DOI: 10.1093/nar/gkae102] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2023] [Revised: 01/12/2024] [Accepted: 02/01/2024] [Indexed: 03/01/2024] Open
Abstract
5-Fluorouracil (5-FU) is the first-line chemotherapeutic agent in colorectal cancer, and resistance to 5-FU easily emerges. One of the mechanisms of drug action and resistance of 5-FU is through DNA incorporation. Our quantitative reverse-transcription PCR data showed that one of the translesion synthesis (TLS) DNA polymerases, DNA polymerase η (polη), was upregulated within 72 h upon 5-FU administration at 1 and 10 μM, indicating that polη is one of the first responding polymerases, and the only TLS polymerase, upon the 5-FU treatment to incorporate 5-FU into DNA. Our kinetic studies revealed that 5-fluoro-2'-deoxyuridine triphosphate (5FdUTP) was incorporated across dA 41 and 28 times more efficiently than across dG and across inosine, respectively, by polη indicating that the mutagenicity of 5-FU incorporation is higher in the presence of inosine and that DNA lesions could lead to more mutagenic incorporation of 5-FU. Our polη crystal structures complexed with DNA and 5FdUTP revealed that dA:5FdUTP base pair is like dA:dTTP in the active site of polη, while 5FdUTP adopted 4-enol tautomer in the base pairs with dG and HX increasing the insertion efficiency compared to dG:dTTP for the incorrect insertions. These studies confirm that polη engages in the DNA incorporation and bypass of 5-FU.
Collapse
Affiliation(s)
- Jameson R Averill
- Division of Medicinal Chemistry, School of Pharmacy, University of Connecticut, Storrs, CT 06269, USA
| | - Jackson C Lin
- Division of Medicinal Chemistry, School of Pharmacy, University of Connecticut, Storrs, CT 06269, USA
| | - John Jung
- Division of Medicinal Chemistry, School of Pharmacy, University of Connecticut, Storrs, CT 06269, USA
| | - Hunmin Jung
- Division of Medicinal Chemistry, School of Pharmacy, University of Connecticut, Storrs, CT 06269, USA
| |
Collapse
|
2
|
Hyeon JY, Kim J, Chung DH, Helal ZH, Polkowski R, Lee DH, Risatti GR. Genome analysis of Streptococcus spp. isolates from animals in pre-antibiotic era with respect to antibiotic susceptibility and virulence gene profiles. Vet Res 2024; 55:51. [PMID: 38622639 PMCID: PMC11017511 DOI: 10.1186/s13567-024-01302-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2023] [Accepted: 03/11/2024] [Indexed: 04/17/2024] Open
Abstract
Lyophilized Streptococcus spp. isolates (n = 50) from animal samples submitted to the diagnostic laboratory at the University of Connecticut in the 1940s were revivified to investigate the genetic characteristics using whole-genome sequencing (WGS). The Streptococcus spp. isolates were identified as follows; S. agalactiae (n = 14), S. dysgalactiae subsp. dysgalactiae (n = 10), S. dysgalactiae subsp. equisimils (n = 5), S. uberis (n = 8), S. pyogenes (n = 7), S. equi subsp. zooepidemicus (n = 4), S. oralis (n = 1), and S. pseudoporcinus (n = 1). We identified sequence types (ST) of S. agalactiae, S. dysgalactiae, S. uberis, S. pyogenes, and S. equi subsp. zooepidemicus and reported ten novel sequence types of those species. WGS analysis revealed that none of Streptococcus spp. carried antibiotic resistance genes. However, tetracycline resistance was observed in four out of 15 S. dysgalactiae isolates and in one out of four S. equi subsp. zooepidemicus isolate. This data highlights that antimicrobial resistance is pre-existed in nature before the use of antibiotics. The draft genome sequences of isolates from this study and 426 complete genome sequences of Streptococcus spp. downloaded from BV-BRC and NCBI GenBank database were analyzed for virulence gene profiles and phylogenetic relationships. Different Streptococcus species demonstrated distinct virulence gene profiles, with no time-related variations observed. Phylogenetic analysis revealed high genetic diversity of Streptococcus spp. isolates from the 1940s, and no clear spatio-temporal clustering patterns were observed among Streptococcus spp. analyzed in this study. This study provides an invaluable resource for studying the evolutionary aspects of antibiotic resistance acquisition and virulence in Streptococcus spp.
Collapse
Affiliation(s)
- Ji-Yeon Hyeon
- College of Veterinary Medicine, Konkuk University, Seoul, Republic of Korea
| | - Junwon Kim
- Department of Pathobiology and Veterinary Science, College of Agriculture, Health and Natural Resources, University of Connecticut, Storrs, CT, USA
| | - David H Chung
- Department of Pathobiology and Veterinary Science, College of Agriculture, Health and Natural Resources, University of Connecticut, Storrs, CT, USA
| | - Zeinab H Helal
- Connecticut Veterinary Medical Diagnostic Laboratory, Department of Pathobiology and Veterinary Science, College of Agriculture, Health and Natural Resources, University of Connecticut, Storrs, CT, USA
| | - Robert Polkowski
- Connecticut Veterinary Medical Diagnostic Laboratory, Department of Pathobiology and Veterinary Science, College of Agriculture, Health and Natural Resources, University of Connecticut, Storrs, CT, USA
| | - Dong-Hun Lee
- College of Veterinary Medicine, Konkuk University, Seoul, Republic of Korea.
| | - Guillermo R Risatti
- Department of Pathobiology and Veterinary Science, College of Agriculture, Health and Natural Resources, University of Connecticut, Storrs, CT, USA.
- Connecticut Veterinary Medical Diagnostic Laboratory, Department of Pathobiology and Veterinary Science, College of Agriculture, Health and Natural Resources, University of Connecticut, Storrs, CT, USA.
| |
Collapse
|
3
|
Brenick A, Zureiqi M, Wu R, Seraj M, Kelly MC, Berger R. Why step in? Shifting justifications for bystander behaviors through interventions with youth in the Middle East. J Res Adolesc 2024. [PMID: 38576095 DOI: 10.1111/jora.12941] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2023] [Revised: 03/15/2024] [Accepted: 03/19/2024] [Indexed: 04/06/2024]
Abstract
Research shows positive bystander intervention effectively mitigates bullying experiences. Yet, more evidence regarding bystander responses to bias-based social exclusion (BSE) is needed in intergroup contexts, especially in the majority world and in areas of intractable conflict. This study assessed the effectiveness of skills and skills + contact-based interventions for BSE among 148 Palestinian Citizens of Israel (Mage = 10.55) and 154 Jewish-Israeli (Mage = 10.54) early adolescents (Girls = 52.32%) in Tel Aviv-Yafo. Bystander responses were assessed by participants' reactions to hypothetical BSE scenarios over three time points. Repeated measures ANOVAs revealed both interventions significantly increased positive and decreased negative bystander responses, with changes maintained at the follow-up. The opposite result pattern emerged for the control group. Findings suggest that both interventions can effectively encourage youth to publicly challenge BSE, even amidst intractable conflict.
Collapse
Affiliation(s)
| | - Malak Zureiqi
- University of Connecticut, Mansfield, Connecticut, USA
| | - Rui Wu
- University of Connecticut, Mansfield, Connecticut, USA
| | - Maisha Seraj
- University of Connecticut, Mansfield, Connecticut, USA
| | | | | |
Collapse
|
4
|
Zalta A, Large EW, Schön D, Morillon B. Neural dynamics of predictive timing and motor engagement in music listening. Sci Adv 2024; 10:eadi2525. [PMID: 38446888 PMCID: PMC10917349 DOI: 10.1126/sciadv.adi2525] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/13/2023] [Accepted: 01/30/2024] [Indexed: 03/08/2024]
Abstract
Why do humans spontaneously dance to music? To test the hypothesis that motor dynamics reflect predictive timing during music listening, we created melodies with varying degrees of rhythmic predictability (syncopation) and asked participants to rate their wanting-to-move (groove) experience. Degree of syncopation and groove ratings are quadratically correlated. Magnetoencephalography data showed that, while auditory regions track the rhythm of melodies, beat-related 2-hertz activity and neural dynamics at delta (1.4 hertz) and beta (20 to 30 hertz) rates in the dorsal auditory pathway code for the experience of groove. Critically, the left sensorimotor cortex coordinates these groove-related delta and beta activities. These findings align with the predictions of a neurodynamic model, suggesting that oscillatory motor engagement during music listening reflects predictive timing and is effected by interaction of neural dynamics along the dorsal auditory pathway.
Collapse
Affiliation(s)
- Arnaud Zalta
- Aix Marseille Université, Inserm, INS, Institut de Neurosciences des Systèmes, Marseille, France
- APHM, INSERM, Inst Neurosci Syst, Service de Pharmacologie Clinique et Pharmacovigilance, Aix Marseille Université, Marseille, France
| | - Edward W. Large
- Department of Psychological Sciences, Ecological Psychology Division, University of Connecticut, Storrs, CT, USA
- Department of Physics, University of Connecticut, Storrs, CT, USA
| | - Daniele Schön
- Aix Marseille Université, Inserm, INS, Institut de Neurosciences des Systèmes, Marseille, France
| | - Benjamin Morillon
- Aix Marseille Université, Inserm, INS, Institut de Neurosciences des Systèmes, Marseille, France
| |
Collapse
|
5
|
Zeng B, Knapp EM, Skaritanov E, Oramas R, Sun J. ETS transcription factors regulate precise matrix metalloproteinase expression and follicle rupture in Drosophila. Development 2024; 151:dev202276. [PMID: 38345299 PMCID: PMC10946439 DOI: 10.1242/dev.202276] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2023] [Accepted: 02/05/2024] [Indexed: 02/29/2024]
Abstract
Drosophila matrix metalloproteinase 2 (MMP2) is specifically expressed in posterior follicle cells of stage-14 egg chambers (mature follicles) and is crucial for the breakdown of the follicular wall during ovulation, a process that is highly conserved from flies to mammals. The factors that regulate spatiotemporal expression of MMP2 in follicle cells remain unknown. Here, we demonstrate crucial roles for the ETS-family transcriptional activator Pointed (Pnt) and its endogenous repressor Yan in the regulation of MMP2 expression. We found that Pnt is expressed in posterior follicle cells and overlaps with MMP2 expression in mature follicles. Genetic analysis demonstrated that pnt is both required and sufficient for MMP2 expression in follicle cells. In addition, Yan was temporally upregulated in stage-13 follicle cells to fine-tune Pnt activity and MMP2 expression. Furthermore, we identified a 1.1 kb core enhancer that is responsible for the spatiotemporal expression of MMP2 and contains multiple pnt/yan binding motifs. Mutation of pnt/yan binding sites significantly impaired the Mmp2 enhancer activity. Our data reveal a mechanism of transcriptional regulation of Mmp2 expression in Drosophila ovulation, which could be conserved in other biological systems.
Collapse
Affiliation(s)
- Baosheng Zeng
- Department of Physiology & Neurobiology, University of Connecticut, Storrs, CT 06269, USA
| | - Elizabeth M. Knapp
- Department of Physiology & Neurobiology, University of Connecticut, Storrs, CT 06269, USA
| | - Ekaterina Skaritanov
- Department of Physiology & Neurobiology, University of Connecticut, Storrs, CT 06269, USA
| | - Rebecca Oramas
- Department of Physiology & Neurobiology, University of Connecticut, Storrs, CT 06269, USA
| | - Jianjun Sun
- Department of Physiology & Neurobiology, University of Connecticut, Storrs, CT 06269, USA
- Institute for Systems Genomics, University of Connecticut, Storrs, CT 06269, USA
| |
Collapse
|
6
|
Wink MN, Tomkunas AJ, LaRusso MD. Teacher stress and ideal solutions: A qualitative comparison across elementary and middle school teachers. Sch Psychol 2024:2024-56644-001. [PMID: 38407111 DOI: 10.1037/spq0000626] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/27/2024]
Abstract
Educators' high levels of stress have been well documented in existing literature, though little research has directly looked at comparisons of stress experiences and needs for support based on school level. The present study included 33 teachers (19 elementary and 14 middle school) from one school district who participated in semistructured interviews. Responses to questions regarding their primary source(s) of stress and their ideal solution(s) to relieve that stress revealed distinctions between elementary and middle school teachers. Elementary teachers described stress related to a sense of responsibility or need to care for students and meet their social, emotional, behavioral, and academic needs. Their ideal solution primarily involved receiving more emotional support and more support staff in the classroom to help meet all students' needs. In contrast, middle school teachers reported the majority of their stress as stemming from external demands or pressures such as test scores, high or unattainable expectations from administrators or parents, and not having enough time. Middle school teachers' ideal solutions largely entailed a shift in the use of their time, specifically to remove tasks (e.g., unnecessary staff meetings) and be able to focus their time on what matters the most (e.g., teaching students). These findings indicate that although almost all of these teachers reported being highly stressed, their sources of stress and perceived needs for support varied based on school level. Efforts to promote teacher well-being must consider school level and teachers' own perspectives on what they need in order to provide the most beneficial supports. (PsycInfo Database Record (c) 2024 APA, all rights reserved).
Collapse
Affiliation(s)
| | | | - Maria D LaRusso
- Department of Human Development and Family Sciences, University of Connecticut
| |
Collapse
|
7
|
Nadeau CP, Urban MC. Macroecological predictors of evolutionary and plastic potential do not apply at microgeographic scales for a freshwater cladoceran under climate change. Evol Lett 2024; 8:43-55. [PMID: 38370540 PMCID: PMC10872021 DOI: 10.1093/evlett/qrad042] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2022] [Revised: 06/28/2023] [Accepted: 09/22/2022] [Indexed: 02/20/2024] Open
Abstract
Rapid evolutionary adaptation could reduce the negative impacts of climate change if sufficient heritability of key traits exists under future climate conditions. Plastic responses to climate change could also reduce negative impacts. Understanding which populations are likely to respond via evolution or plasticity could therefore improve estimates of extinction risk. A large body of research suggests that the evolutionary and plastic potential of a population can be predicted by the degree of spatial and temporal climatic variation it experiences. However, we know little about the scale at which these relationships apply. Here, we test if spatial and temporal variation in temperature affects genetic variation and plasticity of fitness and a key thermal tolerance trait (critical thermal maximum; CTmax) at microgeographic scales using a metapopulation of Daphnia magna in freshwater rock pools. Specifically, we ask if (a) there is a microgeographic adaptation of CTmax and fitness to differences in temperature among the pools, (b) pools with greater temporal temperature variation have more genetic variation or plasticity in CTmax or fitness, and (c) increases in temperature affect the heritability of CTmax and fitness. Although we observed genetic variation and plasticity in CTmax and fitness, and differences in fitness among pools, we did not find support for the predicted relationships between temperature variation and genetic variation or plasticity. Furthermore, the genetic variation and plasticity we observed in CTmax are unlikely sufficient to reduce the impacts of climate change. CTmax plasticity was minimal and heritability was 72% lower when D. magna developed at the higher temperatures predicted under climate change. In contrast, the heritability of fitness increased by 53% under warmer temperatures, suggesting an increase in overall evolutionary potential unrelated to CTmax under climate change. More research is needed to understand the evolutionary and plastic potential under climate change and how that potential will be altered in future climates.
Collapse
Affiliation(s)
| | - Mark C Urban
- Ecology and Evolutionary Biology Department, University of Connecticut, Storrs, CT, United States
- Center for Biological Risk, University of Connecticut, Storrs, CT, United States
| |
Collapse
|
8
|
Ahiadu BK, Grunbaum A, Rozza N, Kremer RB, Rusling JF. Levels of Angiotensin and Kinin Metabolite Peptides Related to COVID-19 Severity. ACS Pharmacol Transl Sci 2024; 7:186-194. [PMID: 38230277 PMCID: PMC10789123 DOI: 10.1021/acsptsci.3c00227] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2023] [Revised: 11/29/2023] [Accepted: 12/04/2023] [Indexed: 01/18/2024]
Abstract
In addition to crucial roles in normal human biology, peptide metabolites of the renin-angiotensin (RAS) and kallikrein-kinin systems (KKS) have been reported to be altered in COVID-19 patients. Here, we evaluate new data on RAS and KKS peptides in COVID-19 patient serum obtained from a recently developed, fully validated, and optimized stable isotope labeling LC-MS peptide assay. We found that the RAS peptides angiotensin (ANG) 1, 2, 1-5, and 1-7 were downregulated compared to COVID-free surrogate controls, while the KKS peptides Brad, Brad 1-8, and Brad 1-7 were upregulated. This paper focuses on uncovering the possible diagnostic value of these peptides using receiver operating characteristic (ROC) analyses of these data. ROC plots confirmed that all of the analyte peptides in 80 serum samples from COVID-19 patients were significantly altered from "normal" values of the control samples. The best diagnostic sensitivities and selectivities for COVID vs no COVID were found in ROC plots for Brad and Brad 1-7 (both 99% sensitivity, 100% selectivity). We then analyzed levels of all the peptides grouped according to preassigned values of the World Health Organization (WHO) COVID-19 Severity Index. ROC plots differentiated patients with a high WHO severity index from those with a low WHO severity index with moderate success, with BRAD (73% sensitivity, 79% selectivity) and Ang 1-7 (75% sensitivity, 65% selectivity) giving the best diagnostic performance. Results suggest the possible diagnostic value of these peptides as biomarkers to help identify moderate and serious COVID-19 cases at relatively early stages.
Collapse
Affiliation(s)
- Ben K. Ahiadu
- Department
of Chemistry, University of Connecticut, Storrs, Connecticut 06269, United States
| | - Ami Grunbaum
- Department
of Medicine, McGill University Health Centre, 1001 Decarie Blvd., Montreal QC H4A, Canada
| | - Nicholas Rozza
- Department
of Medicine, McGill University Health Centre, 1001 Decarie Blvd., Montreal QC H4A, Canada
| | - Richard B. Kremer
- Department
of Medicine, McGill University Health Centre, 1001 Decarie Blvd., Montreal QC H4A, Canada
| | - James F. Rusling
- Department
of Chemistry, University of Connecticut, Storrs, Connecticut 06269, United States
- Department
of Surgery and Neag Cancer Center, UConn
Health, Farmington, Connecticut 06232, United States
- School
of Chemistry, National University of Ireland
Galway, Galway H91 TK33, Ireland
- Institute
of Materials Science, University of Connecticut, 97 N. Eagleville Road, Storrs, Connecticut 06269, United States
| |
Collapse
|
9
|
Knutie SA, Webster CN, Vaziri GJ, Albert L, Harvey JA, LaRue M, Verrett TB, Soldo A, Koop JAH, Chaves JA, Wegrzyn JL. Urban living can rescue Darwin's finches from the lethal effects of invasive vampire flies. Glob Chang Biol 2024; 30:e17145. [PMID: 38273516 DOI: 10.1111/gcb.17145] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/06/2023] [Revised: 12/15/2023] [Accepted: 12/21/2023] [Indexed: 01/27/2024]
Abstract
Human activity changes multiple factors in the environment, which can have positive or negative synergistic effects on organisms. However, few studies have explored the causal effects of multiple anthropogenic factors, such as urbanization and invasive species, on animals and the mechanisms that mediate these interactions. This study examines the influence of urbanization on the detrimental effect of invasive avian vampire flies (Philornis downsi) on endemic Darwin's finches in the Galápagos Islands. We experimentally manipulated nest fly abundance in urban and non-urban locations and then characterized nestling health, fledging success, diet, and gene expression patterns related to host defense. Fledging success of non-parasitized nestlings from urban (79%) and non-urban (75%) nests did not differ significantly. However, parasitized, non-urban nestlings lost more blood, and fewer nestlings survived (8%) compared to urban nestlings (50%). Stable isotopic values (δ15 N) from urban nestling feces were higher than those from non-urban nestlings, suggesting that urban nestlings are consuming more protein. δ15 N values correlated negatively with parasite abundance, which suggests that diet might influence host defenses (e.g., tolerance and resistance). Parasitized, urban nestlings differentially expressed genes within pathways associated with red blood cell production (tolerance) and pro-inflammatory response (innate immunological resistance), compared to parasitized, non-urban nestlings. In contrast, parasitized non-urban nestlings differentially expressed genes within pathways associated with immunoglobulin production (adaptive immunological resistance). Our results suggest that urban nestlings are investing more in pro-inflammatory responses to resist parasites but also recovering more blood cells to tolerate blood loss. Although non-urban nestlings are mounting an adaptive immune response, it is likely a last effort by the immune system rather than an effective defense against avian vampire flies since few nestlings survived.
Collapse
Affiliation(s)
- Sarah A Knutie
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
- Institute for Systems Genomics, University of Connecticut, Storrs, Connecticut, USA
| | - Cynthia N Webster
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
| | - Grace J Vaziri
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
| | - Lauren Albert
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
| | - Johanna A Harvey
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
- Department of Science and Technology, University of Maryland, College Park, Maryland, USA
| | - Michelle LaRue
- School of Earth and Environment, University of Canterbury, Christchurch, New Zealand
| | - Taylor B Verrett
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
| | - Alexandria Soldo
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
| | - Jennifer A H Koop
- Department of Biological Sciences, Northern Illinois University, DeKalb, Illinois, USA
| | - Jaime A Chaves
- Department of Biology, San Francisco State University, San Francisco, California, USA
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito, Quito, Ecuador
| | - Jill L Wegrzyn
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
- Institute for Systems Genomics, University of Connecticut, Storrs, Connecticut, USA
| |
Collapse
|
10
|
Schroeder CM, Koehler TM, Ohlhorst KK, Leadbeater NE. Real-time in situ monitoring using visible spectrophotometry as a tool for probing electrochemical advanced oxidation processes for dye decolorisation. RSC Adv 2023; 13:33559-33565. [PMID: 38020003 PMCID: PMC10652061 DOI: 10.1039/d3ra06634g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2023] [Accepted: 10/31/2023] [Indexed: 12/01/2023] Open
Abstract
An apparatus for real-time in situ monitoring of electrochemical processes using UV-visible spectrophotometry has been used to optimise the electrochemically-activated persulfate decolorisation of Acid Orange 7. The impacts of varying electrode composition, current density, persulfate loading, and stirring speed on the rate of decolorisation have been probed. Decolorisation through this activated persulfate approach was compared to that using anodic oxidation for nine dyes; three from each of the azo, triarylmethane, and xanthene families. The core structure and presence of functional groups have a significant impact on the rate of decolorisation. Azo and xanthene dyes decolorise faster than triarylmethane dyes, while electron-withdrawing groups and halogens are especially detrimental to the rate of decolorisation. Electrochemically-activated persulfate resulted in faster decolorization than anodic oxidation for almost every dye, an effect that was enhanced with the electron-deficient substrates. This type of systematic structural comparison study is essential for designing electrochemical degradation procedures for the remediation of real wastewater.
Collapse
Affiliation(s)
- Chelsea M Schroeder
- Department of Chemistry, University of Connecticut 55 North Eagleville Road Storrs Connecticut 06269 USA
| | - Taylor M Koehler
- Department of Chemistry, University of Connecticut 55 North Eagleville Road Storrs Connecticut 06269 USA
| | - Kristiane K Ohlhorst
- Department of Chemistry, University of Connecticut 55 North Eagleville Road Storrs Connecticut 06269 USA
| | - Nicholas E Leadbeater
- Department of Chemistry, University of Connecticut 55 North Eagleville Road Storrs Connecticut 06269 USA
| |
Collapse
|
11
|
Solomon G, Love AC, Vaziri GJ, Harvey J, Verrett T, Chernicky K, Simons S, Albert L, Chaves JA, Knutie SA. Effect of urbanization and parasitism on the gut microbiota of Darwin's finch nestlings. Mol Ecol 2023; 32:6059-6069. [PMID: 37837269 DOI: 10.1111/mec.17164] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2023] [Revised: 09/20/2023] [Accepted: 10/02/2023] [Indexed: 10/15/2023]
Abstract
Host-associated microbiota can be affected by factors related to environmental change, such as urbanization and invasive species. For example, urban areas often affect food availability for animals, which can change their gut microbiota. Invasive parasites can also influence microbiota through competition or indirectly through a change in the host immune response. These interacting factors can have complex effects on host fitness, but few studies have disentangled the relationship between urbanization and parasitism on an organism's gut microbiota. To address this gap in knowledge, we investigated the effects of urbanization and parasitism by the invasive avian vampire fly (Philornis downsi) on the gut microbiota of nestling small ground finches (Geospiza fuliginosa) on San Cristóbal Island, Galápagos. We conducted a factorial study in which we experimentally manipulated parasite presence in an urban and nonurban area. Faeces were then collected from nestlings to characterize the gut microbiota (i.e. bacterial diversity and community composition). Although we did not find an interactive effect of urbanization and parasitism on the microbiota, we did find main effects of each variable. We found that urban nestlings had lower bacterial diversity and different relative abundances of taxa compared to nonurban nestlings, which could be mediated by introduction of the microbiota of the food items or changes in host physiology. Additionally, parasitized nestlings had lower bacterial richness than nonparasitized nestlings, which could be mediated by a change in the immune system. Overall, this study advances our understanding of the complex effects of anthropogenic stressors on the gut microbiota of birds.
Collapse
Affiliation(s)
- Gabrielle Solomon
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
| | - Ashley C Love
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
| | - Grace J Vaziri
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
| | - Johanna Harvey
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
| | - Taylor Verrett
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
| | - Kiley Chernicky
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
| | - Shelby Simons
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
| | - Lauren Albert
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
| | - Jaime A Chaves
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito, Quito, Ecuador
- Galapagos Science Center, Puerto Baquerizo Moreno, Galapagos, Ecuador
- Department of Biology, San Francisco State University, California, San Francisco, USA
| | - Sarah A Knutie
- Department of Ecology and Evolutionary Biology, University of Connecticut, Connecticut, Storrs, USA
- Colegio de Ciencias Biológicas y Ambientales, Universidad San Francisco de Quito, Quito, Ecuador
- Institute for Systems Genomics, University of Connecticut, Connecticut, Storrs, USA
| |
Collapse
|
12
|
Moody M, Schmidt TA, Trivedi R, Deymier A. Administration of alendronate exacerbates ammonium chloride-induced acidosis in mice. PLoS One 2023; 18:e0291649. [PMID: 37713420 PMCID: PMC10503749 DOI: 10.1371/journal.pone.0291649] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2023] [Accepted: 09/04/2023] [Indexed: 09/17/2023] Open
Abstract
Bone disease is highly prevalent in patients with chronic kidney disease (CKD), leading to an increased risk of bone fractures. This is due in part to metabolic acid-induced bone dissolution. Bisphosphonates (BPPs) are a potential treatment for inhibiting bone dissolution; however, there are limited studies observing the use of BPPs on acidotic patients. We aimed to determine efficacy of BPPs on maintaining bone health and pH regulation in acid-exposed mice. Using a diet-induced murine model of metabolic acidosis, we examined bone structure, composition, and mechanics as well as blood gases for three groups: control, acidosis, and acidosis + bisphosphonates (acidosis+BPP). Acidosis was induced for 14 days and alendronate was administered every 3 days for the acidosis+BPP group. The administration of BPP had little to no effect on bone structure, mechanics, and composition of the acidosis bones. However, administration of BPP did cause the mice to develop more severe acidosis than the acidosis only group. Overall, we discovered that BPPs may exacerbate acidosis symptoms by inhibiting the release of buffering ions from bone. Therefore, we propose that BPP administration should be carefully considered for those with CKD and that alkali supplementation could help minimize acidifying effects.
Collapse
Affiliation(s)
- Mikayla Moody
- Department of Biomedical Engineering, School of Dental Medicine, University of Connecticut Health Center, Farmington, CT, United States of America
| | - Tannin A. Schmidt
- Department of Biomedical Engineering, School of Dental Medicine, University of Connecticut Health Center, Farmington, CT, United States of America
| | - Ruchir Trivedi
- Department of Nephrology, School of Medicine, University of Connecticut Health Center, Farmington, CT, United States of America
| | - Alix Deymier
- Department of Biomedical Engineering, School of Dental Medicine, University of Connecticut Health Center, Farmington, CT, United States of America
| |
Collapse
|
13
|
deMayo JA, Brennan RS, Pespeni MH, Finiguerra M, Norton L, Park G, Baumann H, Dam HG. Simultaneous warming and acidification limit population fitness and reveal phenotype costs for a marine copepod. Proc Biol Sci 2023; 290:20231033. [PMID: 37670582 PMCID: PMC10510449 DOI: 10.1098/rspb.2023.1033] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2022] [Accepted: 07/25/2023] [Indexed: 09/07/2023] Open
Abstract
Phenotypic plasticity and evolutionary adaptation allow populations to cope with global change, but limits and costs to adaptation under multiple stressors are insufficiently understood. We reared a foundational copepod species, Acartia hudsonica, under ambient (AM), ocean warming (OW), ocean acidification (OA), and combined ocean warming and acidification (OWA) conditions for 11 generations (approx. 1 year) and measured population fitness (net reproductive rate) derived from six life-history traits (egg production, hatching success, survival, development time, body size and sex ratio). Copepods under OW and OWA exhibited an initial approximately 40% fitness decline relative to AM, but fully recovered within four generations, consistent with an adaptive response and demonstrating synergy between stressors. At generation 11, however, fitness was approximately 24% lower for OWA compared with the AM lineage, consistent with the cost of producing OWA-adapted phenotypes. Fitness of the OWA lineage was not affected by reversal to AM or low food environments, indicating sustained phenotypic plasticity. These results mimic those of a congener, Acartia tonsa, while additionally suggesting that synergistic effects of simultaneous stressors exert costs that limit fitness recovery but can sustain plasticity. Thus, even when closely related species experience similar stressors, species-specific costs shape their unique adaptive responses.
Collapse
Affiliation(s)
- James A. deMayo
- Department of Marine Sciences, University of Connecticut, Groton, CT, USA
| | - Reid S. Brennan
- Department of Biology, University of Vermont, Burlington, VT, USA
- Marine Evolutionary Ecology, GEOMAR Helmholtz Centre for Ocean Research Kiel, Kiel, Germany
| | - Melissa H. Pespeni
- Marine Evolutionary Ecology, GEOMAR Helmholtz Centre for Ocean Research Kiel, Kiel, Germany
| | - Michael Finiguerra
- Department of Ecology and Evolutionary Biology, University of Connecticut, Groton, CT, USA
| | - Lydia Norton
- Department of Marine Sciences, University of Connecticut, Groton, CT, USA
| | - Gihong Park
- Department of Marine Sciences, University of Connecticut, Groton, CT, USA
| | - Hannes Baumann
- Department of Marine Sciences, University of Connecticut, Groton, CT, USA
| | - Hans G. Dam
- Department of Marine Sciences, University of Connecticut, Groton, CT, USA
| |
Collapse
|
14
|
Schroeder CM, Politano F, Ohlhorst KK, Leadbeater NE. Acetamido-TEMPO mediated electrochemical oxidation of alcohols to aldehydes and ketones. RSC Adv 2023; 13:25459-25463. [PMID: 37636515 PMCID: PMC10448945 DOI: 10.1039/d3ra04608g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2023] [Accepted: 08/11/2023] [Indexed: 08/29/2023] Open
Abstract
A protocol for the oxidation of alcohols to aldehydes and ketones employing an electrochemical aminoxyl-mediated reaction is presented. The approach employs a catalytic amount of the radical and the use of a base is not required. It is performed using readily available electrodes in a commercially available electrochemistry apparatus and does not require a reference electrode. The methodology is applicable to a range of structurally and electronically diverse substrates, including the oxidation of primary alcohols to aldehydes rather than the more commonly formed carboxylic acids.
Collapse
Affiliation(s)
- Chelsea M Schroeder
- Department of Chemistry, University of Connecticut 55 North Eagleville Road, Storrs Connecticut 06269 USA
| | - Fabrizio Politano
- Department of Chemistry, University of Connecticut 55 North Eagleville Road, Storrs Connecticut 06269 USA
- Instituto de Investigaciones en Físico Química de Córdoba (INFIQC)-CONICET, Departamento de Química Orgánica, Facultad de Ciencias Químicas, Universidad Nacional de Córdoba, Ciudad Universitaria X5000HUA Córdoba Argentina
| | - Kristiane K Ohlhorst
- Department of Chemistry, University of Connecticut 55 North Eagleville Road, Storrs Connecticut 06269 USA
| | - Nicholas E Leadbeater
- Department of Chemistry, University of Connecticut 55 North Eagleville Road, Storrs Connecticut 06269 USA
| |
Collapse
|
15
|
Ding J, Kumar CV. Non-Covalent Assembly of Multiple Fluorophores in Edible Protein/Lipid Hydrogels for Applications in Multi-Step Light Harvesting and White-Light Emission. Molecules 2023; 28:6028. [PMID: 37630280 PMCID: PMC10458872 DOI: 10.3390/molecules28166028] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2023] [Revised: 07/24/2023] [Accepted: 08/03/2023] [Indexed: 08/27/2023] Open
Abstract
The design and production of biodegradable and sustainable non-toxic materials for solar-energy harvesting and conversion is a significant challenge. Here, our goal was to report the preparation of novel protein/lipid hydrogels and demonstrate their utility in two orthogonal fundamental studies-light harvesting and white-light emission. Our hydrogels contained up to 90% water, while also being self-standing and injectable with a syringe. In one application, we loaded these hydrogels with suitable organic donor-acceptor dyes and demonstrated the energy-transfer cascade among four different dyes, with the most red-emitting dye as the energy destination. We hypothesized that the dyes were embedded in the protein/lipid phase away from the water pools as monomeric entities and that the excitation of any of the four dyes resulted in intense emission from the lowest-energy acceptor. In contrast to the energy-transfer cascade, we demonstrate the use of these gels to form a white-light-emitting hydrogel dye assembly, in which excitation migration is severely constrained. By restricting the dye-to-dye energy transfer, the blue, green, and red dyes emit at their respective wavelengths, thereby producing the composite white-light emission. The CIE color coordinates of the emission were 0.336 and 0.339-nearly pure white-light emission. Thus, two related studies with opposite requirements could be accommodated in the same hydrogel, which was made from edible ingredients by a simple method. These gels are biodegradable when released into the environment, sustainable, and may be of interest for energy applications.
Collapse
Affiliation(s)
| | - Challa V. Kumar
- Department of Chemistry, University of Connecticut, Storrs, CT 06269, USA
| |
Collapse
|
16
|
Kalluri A, Dharmadhikari B, Debnath D, Patra P, Kumar CV. Advances in Structural Modifications and Properties of Graphene Quantum Dots for Biomedical Applications. ACS Omega 2023; 8:21358-21376. [PMID: 37360447 PMCID: PMC10286289 DOI: 10.1021/acsomega.2c08183] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/25/2022] [Accepted: 05/19/2023] [Indexed: 06/28/2023]
Abstract
Graphene quantum dots (GQDs) are carbon-based, zero-dimensional nanomaterials and unique due to their astonishing optical, electronic, chemical, and biological properties. Chemical, photochemical, and biochemical properties of GQDs are intensely being explored for bioimaging, biosensing, and drug delivery. The synthesis of GQDs by top-down and bottom-up approaches, their chemical functionalization, bandgap engineering, and biomedical applications are reviewed here. Current challenges and future perspectives of GQDs are also presented.
Collapse
Affiliation(s)
- Ankarao Kalluri
- Department
of Material Science, Department of Chemistry, and Department of Molecular and Cell
Biology, University of Connecticut, Storrs, Connecticut 06269, USA
| | - Bhushan Dharmadhikari
- Department
of Electrical and Computer Engineering and Technology, Minnesota State University, Mankato, Minnesota 56001, USA
| | - Debika Debnath
- Department of Biomedical Engineering and Department of
Mechanical Engineering, University of Bridgeport, Bridgeport, Connecticut 06604, USA
| | - Prabir Patra
- Department of Biomedical Engineering and Department of
Mechanical Engineering, University of Bridgeport, Bridgeport, Connecticut 06604, USA
| | - Challa Vijaya Kumar
- Department
of Material Science, Department of Chemistry, and Department of Molecular and Cell
Biology, University of Connecticut, Storrs, Connecticut 06269, USA
| |
Collapse
|
17
|
Perez MF, Yurieva M, Poddutoori S, Mortensen EM, Crotty Alexander LE, Williams A. Transcriptomic responses in the blood and sputum of cigarette smokers compared to e-cigarette vapers. Respir Res 2023; 24:134. [PMID: 37208747 PMCID: PMC10196320 DOI: 10.1186/s12931-023-02438-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2022] [Accepted: 04/27/2023] [Indexed: 05/21/2023] Open
Abstract
RATIONALE Electronic (e)-cigarettes are popular among youth and cigarette smokers attempting to quit. Studies to date have focused on the utility of e-cigarettes as a smoking cessation tool, but the biological effects are largely unknown. OBJECTIVES To identify transcriptomic differences in the blood and sputum of e-cigarette users compared to conventional cigarettes smokers and healthy controls and describe biological pathways affected by these tobacco products. METHODS Cross-sectional analysis of whole blood and sputum RNA-sequencing data from 8 smokers, 9 e-cigarette users (e-cigs) and 4 controls. Weighted gene co-network analysis (WGCNA) identified gene module associations. Ingenuity Pathway Analysis (IPA) identified canonical pathways associated with tobacco products. MAIN RESULTS In blood, a three-group comparison showed 16 differentially expressed genes (DEGs); pair-wise comparison showed 7 DEGs between e-cigs and controls, 35 DEGs between smokers and controls, and 13 DEGs between smokers and e-cigs. In sputum, 438 DEGs were in the three-group comparison. In pair-wise comparisons, there were 2 DEGs between e-cigs and controls, 270 DEGs between smokers and controls, and 468 DEGs between smokers and e-cigs. Only 2 genes in the smokers vs. control comparison overlapped between blood and sputum. Most gene modules identified through WGCNA associated with tobacco product exposures also were associated with cotinine and exhaled CO levels. IPA showed more canonical pathways altered by conventional cigarette smoking than by e-cigarette use. CONCLUSION Cigarette smoking and e-cigarette use led to transcriptomic changes in both blood and sputum. However, conventional cigarettes induced much stronger transcriptomic responses in both compartments.
Collapse
Affiliation(s)
- Mario F Perez
- Department of Pulmonary, Critical Care and Sleep Medicine, University of Connecticut School of Medicine, Farmington, CT, USA.
| | - Marina Yurieva
- The Jackson Laboratory for Genomic Medicine, Farmington, CT, USA
| | | | - Eric M Mortensen
- Department of Pulmonary, Critical Care and Sleep Medicine, University of Connecticut School of Medicine, Farmington, CT, USA
| | - Laura E Crotty Alexander
- Division of Pulmonary Critical Care, Department of Medicine, University of California San Diego, San Diego, CA, USA
| | - Adam Williams
- The Jackson Laboratory for Genomic Medicine, Farmington, CT, USA
- Division of Allergy and Immunology, Department of Medicine, Northwestern University Feinberg School of Medicine, Chicago, IL, USA
| |
Collapse
|
18
|
Fuess LE, Bolnick DI. Single-Cell RNA Sequencing Reveals Microevolution of the Stickleback Immune System. Genome Biol Evol 2023; 15:evad053. [PMID: 37039516 PMCID: PMC10116603 DOI: 10.1093/gbe/evad053] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2022] [Revised: 03/16/2023] [Accepted: 03/23/2023] [Indexed: 04/12/2023] Open
Abstract
The risk and severity of pathogen infections in humans, livestock, or wild organisms depend on host immune function, which can vary between closely related host populations or even among individuals. This immune variation can entail between-population differences in immune gene coding sequences, copy number, or expression. In recent years, many studies have focused on population divergence in immunity using whole-tissue transcriptomics. But, whole-tissue transcriptomics cannot distinguish between evolved differences in gene regulation within cells, versus changes in cell composition within the focal tissue. Here, we leverage single-cell transcriptomic approaches to document signatures of microevolution of immune system structure in a natural system, the three-spined stickleback (Gasterosteus aculeatus). We sampled nine adult fish from three populations with variability in resistance to a cestode parasite, Schistocephalus solidus, to create the first comprehensive immune cell atlas for G. aculeatus. Eight broad immune cell types, corresponding to major vertebrate immune cells, were identified. We were also able to document significant variation in both abundance and expression profiles of the individual immune cell types among the three populations of fish. Furthermore, we demonstrate that identified cell type markers can be used to reinterpret traditional transcriptomic data: we reevaluate previously published whole-tissue transcriptome data from a quantitative genetic experimental infection study to gain better resolution relating infection outcomes to inferred cell type variation. Our combined study demonstrates the power of single-cell sequencing to not only document evolutionary phenomena (i.e., microevolution of immune cells) but also increase the power of traditional transcriptomic data sets.
Collapse
Affiliation(s)
- Lauren E Fuess
- Department of Biology, Texas State University
- Department of Ecology and Evolutionary Biology, University of Connecticut
| | - Daniel I Bolnick
- Department of Ecology and Evolutionary Biology, University of Connecticut
| |
Collapse
|
19
|
Grames EM, Montgomery GA, Youngflesh C, Tingley MW, Elphick CS. The effect of insect food availability on songbird reproductive success and chick body condition: Evidence from a systematic review and meta-analysis. Ecol Lett 2023; 26:658-673. [PMID: 36798988 DOI: 10.1111/ele.14178] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2022] [Revised: 11/14/2022] [Accepted: 12/06/2022] [Indexed: 02/18/2023]
Abstract
Reports of declines in abundance and biomass of insects and other invertebrates from around the world have raised concerns about food limitation that could have profound impacts for insectivorous species. Food availability can clearly affect species; however, there is considerable variation among studies in whether this effect is evident, and thus a lack of clarity over the generality of the relationship. To understand how decreased food availability due to invertebrate declines will affect bird populations, we conducted a systematic review and used meta-analytic structural equation modelling, which allowed us to treat our core variables of interest as latent variables estimated by the diverse ways in which researchers measure fecundity and chick body condition. We found a moderate positive effect of food availability on chick body condition and a strong positive effect on reproductive success. We also found a negative relationship between chick body condition and reproductive success. Our results demonstrate that food is generally a limiting factor for breeding songbirds. Our analysis also provides evidence for a consistent trade-off between chick body condition and reproductive success, demonstrating the complexity of trophic dynamics important for these vital rates.
Collapse
Affiliation(s)
- Eliza M Grames
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
- Department of Biology, University of Nevada Reno, Reno, Nevada, USA
| | - Graham A Montgomery
- Department of Ecology and Evolutionary Biology, University of California Los Angeles, Los Angeles, California, USA
| | - Casey Youngflesh
- Department of Ecology and Evolutionary Biology, University of California Los Angeles, Los Angeles, California, USA
- Michigan State University, Ecology, Evolution, and Behavior Program, East Lansing, Michigan, USA
| | - Morgan W Tingley
- Department of Ecology and Evolutionary Biology, University of California Los Angeles, Los Angeles, California, USA
| | - Chris S Elphick
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, Connecticut, USA
| |
Collapse
|
20
|
Weerasuriya DRK, Hiniduma K, Bhakta S, Nigro LM, Posada LF, Tan H, Suib SL, Kremer R, Rusling JF. COVID-19 Detection Using a 3D-Printed Micropipette Tip and a Smartphone. ACS Sens 2023; 8:848-857. [PMID: 36689276 PMCID: PMC9888406 DOI: 10.1021/acssensors.2c02516] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2022] [Accepted: 12/27/2022] [Indexed: 01/24/2023]
Abstract
The COVID-19 pandemic has caused over 7 million deaths worldwide and over 1 million deaths in the US as of October 15, 2022. Virus testing lags behind the level or availability necessary for pandemic events like COVID-19, especially in resource-limited settings. Here, we report a low cost, mix-and-read COVID-19 assay using a synthetic SARS-CoV-2 sensor, imaged and processed using a smartphone. The assay was optimized for saliva and employs 3D-printed micropipette tips with a layer of monoclonal anti-SARS-CoV-2 inside the tip. A polymeric sensor for SARS-CoV-2 spike (S) protein (COVRs) synthesized as a thin film on silica nanoparticles provides 3,3',5-5'-tetramethylbenzidine responsive color detection using streptavidin-poly-horseradish peroxidase (ST-poly-HRP) with 400 HRP labels per molecule. COVRs were engineered with an NHS-PEG4-biotin coating to reduce nonspecific binding and provide affinity for ST-poly-HRP labels. COVRs binds to S-proteins with binding strengths and capacities much larger than salivary proteins in 10% artificial saliva-0.01%-Triton X-100 (as virus deactivator). A limit of detection (LOD) of 200 TCID50/mL (TCID50 = tissue culture infectious dose 50%) in artificial saliva was obtained using the Color Grab smartphone app and verified using ImageJ. Viral load values obtained in 10% pooled human saliva spiked with inactivated SARS-COV-2 virus gave excellent correlation with viral loads obtained from qPCR (p = 0.0003, r = 0.99).
Collapse
Affiliation(s)
- D. Randil K. Weerasuriya
- Department of Chemistry, University of
Connecticut, Storrs, Connecticut06269-3060, United
States
| | - Keshani Hiniduma
- Department of Chemistry, University of
Connecticut, Storrs, Connecticut06269-3060, United
States
| | - Snehasis Bhakta
- Department of Chemistry, Cooch Behar
College, Cooch Behar, WB736101, India
| | - Lisa M. Nigro
- Microbial Analysis, Resources and Services, Center for
Open Research Resources and Equipment, University of
Connecticut, Storrs, Connecticut06269-3032, United
States
- Institute for Systems Genomics,
University of Connecticut, Storrs, Connecticut06269-3003,
United States
| | - Luisa F. Posada
- Department of Chemistry, University of
Connecticut, Storrs, Connecticut06269-3060, United
States
| | - Haiyan Tan
- Innovation Partnership Building at UConn Tech Park,
University of Connecticut, Storrs, Connecticut06269,
United States
| | - Steven L. Suib
- Department of Chemistry, University of
Connecticut, Storrs, Connecticut06269-3060, United
States
- Institute of Materials Science,
University of Connecticut, Storrs, Connecticut06269-3136,
United States
| | - Richard Kremer
- Department of Medicine, McGill University Health
Centre, 1001 Decarie Blvd., Montreal, QCH4A,
Canada
| | - James F. Rusling
- Department of Chemistry, University of
Connecticut, Storrs, Connecticut06269-3060, United
States
- Institute of Materials Science,
University of Connecticut, Storrs, Connecticut06269-3136,
United States
- Department of Surgery and Neag Cancer Center,
Uconn Health, Farmington, Connecticut06030, United
States
- School of Chemistry, National University
of Ireland at Galway, GalwayH91 TK33, Ireland
| |
Collapse
|
21
|
Waring ME, Pagoto SL, Moore Simas TA, Heersping G, Rudin LR, Arcangel K. Feedback on Instagram posts for a gestational weight gain intervention. Transl Behav Med 2022; 12:568-575. [PMID: 35191497 PMCID: PMC9150071 DOI: 10.1093/tbm/ibac001] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
Lifestyle interventions can facilitate healthy gestational weight gain but attending in-person meetings can be challenging. High rates of use and the popularity of pregnancy content suggests Instagram as a possible platform for delivering gestational weight gain interventions. We assessed the logistics and acceptability of creating a private Instagram group and to obtain feedback on intervention posts. We conducted a 2-week study with pregnant women with pre-pregnancy overweight or obesity who use Instagram daily. Participants created a private Instagram account and followed other participants and a moderator who shared twice-daily posts about physical activity and healthy eating during pregnancy. Participants provided feedback through a follow-up survey and focus group/interviews. Engagement data was abstracted from Instagram. Participants (N = 11) were on average 26.3 (SD: 7.4) weeks gestation and 54% had obesity pre-pregnancy. All participants followed the moderator's account, 73% followed all other participants, participants engaged with 100% of study posts, 82% felt comfortable sharing in the group, and 73% would participate in a similar group if pregnant in the future. While participants felt the posts were visually attractive and included helpful information, they wanted more personalized content and felt reluctant to post photos they felt were not "Instagram worthy." Moderators should foster an environment in which participants feel comfortable posting unedited, authentic photos of their lives, perhaps by sharing personal photos that are relatable and represent their own imperfect lives. Results will inform further development and testing of an Instagram-delivered gestational weight gain intervention.
Collapse
Affiliation(s)
- Molly E Waring
- Department of Allied Health Sciences and UConn Center for mHealth and Social Media, University of Connecticut, Storrs, CT, USA
| | - Sherry L Pagoto
- Department of Allied Health Sciences and UConn Center for mHealth and Social Media, University of Connecticut, Storrs, CT, USA
| | - Tiffany A Moore Simas
- Departments of Obstetrics and Gynecology, Pediatrics, Psychiatry, and Population and Quantitative Health Sciences, University of Massachusetts Medical School/UMass Memorial Health Care, Worcester, MA, USA
| | - Grace Heersping
- Department of Allied Health Sciences and UConn Center for mHealth and Social Media, University of Connecticut, Storrs, CT, USA
| | - Lauren R Rudin
- Department of Allied Health Sciences and UConn Center for mHealth and Social Media, University of Connecticut, Storrs, CT, USA
| | - Kaylei Arcangel
- Department of Allied Health Sciences and UConn Center for mHealth and Social Media, University of Connecticut, Storrs, CT, USA
| |
Collapse
|
22
|
Rice O, Surian A, Chen Y. Modeling the blood-brain barrier for treatment of central nervous system (CNS) diseases. J Tissue Eng 2022; 13:20417314221095997. [PMID: 35586265 PMCID: PMC9109496 DOI: 10.1177/20417314221095997] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2021] [Accepted: 04/06/2022] [Indexed: 12/14/2022] Open
Abstract
The blood-brain barrier (BBB) is the most specialized biological barrier in the body. This configuration of specialized cells protects the brain from invasion of molecules and particles through formation of tight junctions. To learn more about transport to the brain, in vitro modeling of the BBB is continuously advanced. The types of models and cells selected vary with the goal of each individual study, but the same validation methods, quantification of tight junctions, and permeability assays are often used. With Transwells and microfluidic devices, more information regarding formation of the BBB has been observed. Disease models have been developed to examine the effects on BBB integrity. The goal of modeling is not only to understand normal BBB physiology, but also to create treatments for diseases. This review will highlight several recent studies to show the diversity in model selection and the many applications of BBB models in in vitro research.
Collapse
Affiliation(s)
- Olivia Rice
- Department of Biomedical Engineering, University of
Connecticut, Storrs, CT, USA
| | - Allison Surian
- Department of Biomedical Engineering, University of
Connecticut, Storrs, CT, USA
| | - Yupeng Chen
- Department of Biomedical Engineering, University of
Connecticut, Storrs, CT, USA
| |
Collapse
|
23
|
Abuhadba S, Tsuji M, Mani T, Esipova TV. meso-Antracenyl-BODIPY Dyad as a New Photocatalyst in Atom-Transfer Radical Addition Reactions. ACS Omega 2021; 6:32809-32817. [PMID: 34901630 PMCID: PMC8655941 DOI: 10.1021/acsomega.1c04724] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/29/2021] [Accepted: 11/04/2021] [Indexed: 06/14/2023]
Abstract
We demonstrate that because of the efficient generation of triplet excited state under UV or visible-light irradiation, meso-antracenyl-BODIPY donor-acceptor dyad can catalyze atom-transfer radical addition (ATRA) reactions between bromomalonate and alkenes. This finding paves the way for the design and application of the new type of heavy atom-free organic chromophores for photocatalysis.
Collapse
Affiliation(s)
- Sara Abuhadba
- Department
of Chemistry and Biochemistry, Loyola University
Chicago, Chicago, Illinois 60660, United States
| | - Miu Tsuji
- Department
of Chemistry, University of Connecticut, Storrs, Connecticut 06269-3060, United States
| | - Tomoyasu Mani
- Department
of Chemistry, University of Connecticut, Storrs, Connecticut 06269-3060, United States
| | - Tatiana V. Esipova
- Department
of Chemistry and Biochemistry, Loyola University
Chicago, Chicago, Illinois 60660, United States
| |
Collapse
|
24
|
Chen X, Johnson E, Kulkarni A, Ding C, Ranelli N, Chen Y, Xu R. An Exploratory Approach to Deriving Nutrition Information of Restaurant Food from Crowdsourced Food Images: Case of Hartford. Nutrients 2021; 13:4132. [PMID: 34836387 PMCID: PMC8617678 DOI: 10.3390/nu13114132] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2021] [Revised: 11/12/2021] [Accepted: 11/16/2021] [Indexed: 11/16/2022] Open
Abstract
Deep learning models can recognize the food item in an image and derive their nutrition information, including calories, macronutrients (carbohydrates, fats, and proteins), and micronutrients (vitamins and minerals). This technology has yet to be implemented for the nutrition assessment of restaurant food. In this paper, we crowdsource 15,908 food images of 470 restaurants in the Greater Hartford region on Tripadvisor and Google Place. These food images are loaded into a proprietary deep learning model (Calorie Mama) for nutrition assessment. We employ manual coding to validate the model accuracy based on the Food and Nutrient Database for Dietary Studies. The derived nutrition information is visualized at both the restaurant level and the census tract level. The deep learning model achieves 75.1% accuracy when compared with manual coding. It has more accurate labels for ethnic foods but cannot identify portion sizes, certain food items (e.g., specialty burgers and salads), and multiple food items in an image. The restaurant nutrition (RN) index is further proposed based on the derived nutrition information. By identifying the nutrition information of restaurant food through crowdsourced food images and a deep learning model, the study provides a pilot approach for large-scale nutrition assessment of the community food environment.
Collapse
Affiliation(s)
- Xiang Chen
- Department of Geography, University of Connecticut, Storrs, CT 06269, USA;
| | - Evelyn Johnson
- Department of Allied Health Sciences, University of Connecticut, Storrs, CT 06269, USA; (E.J.); (N.R.); (Y.C.)
| | - Aditya Kulkarni
- Department of Computer Science & Engineering, University of Connecticut, Storrs, CT 06269, USA; (A.K.); (C.D.)
| | - Caiwen Ding
- Department of Computer Science & Engineering, University of Connecticut, Storrs, CT 06269, USA; (A.K.); (C.D.)
| | - Natalie Ranelli
- Department of Allied Health Sciences, University of Connecticut, Storrs, CT 06269, USA; (E.J.); (N.R.); (Y.C.)
| | - Yanyan Chen
- Department of Allied Health Sciences, University of Connecticut, Storrs, CT 06269, USA; (E.J.); (N.R.); (Y.C.)
| | - Ran Xu
- Department of Allied Health Sciences, University of Connecticut, Storrs, CT 06269, USA; (E.J.); (N.R.); (Y.C.)
| |
Collapse
|
25
|
Lee DH, Helal ZH, Kim J, Hunt A, Barbieri A, Tocco N, Frasca S, Kerr K, Hyeon JY, Chung DH, Risatti G. Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) in a Dog in Connecticut in February 2021. Viruses 2021; 13:2141. [PMID: 34834948 PMCID: PMC8623824 DOI: 10.3390/v13112141] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2021] [Revised: 10/19/2021] [Accepted: 10/21/2021] [Indexed: 11/21/2022] Open
Abstract
We report the first detection of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) in a 3-month-old dog in Connecticut that died suddenly and was submitted to the state veterinary diagnostic laboratory for postmortem examination. Viral RNA was detected in multiple organs of the dog by reverse transcription real time-PCR (RT-qPCR). Negative and positive sense strands of viral RNA were visualized by in situ hybridization using RNAscope technology. Complete genome sequencing and phylogenetic analysis of the hCoV-19/USA/CT-CVMDL-Dog-1/2021 (CT_Dog/2021) virus were conducted to identify the origin and lineage of the virus. The CT_Dog/2021 virus belonged to the GH/B1.2. genetic lineage and was genetically similar to SARS-CoV-2 identified in humans in the U.S. during the winter of 2020-2021. However, it was not related to other SARS-CoV-2 variants identified from companion animals in the U.S. It contained both the D614G in spike and P323L in nsp12 substitutions, which have become the dominant mutations in the United States. The continued sporadic detections of SARS-CoV-2 in companion animals warrant public health concerns about the zoonotic potential of SARS-CoV-2 and enhance our collective understanding of the epidemiology of the virus.
Collapse
Affiliation(s)
- Dong-Hun Lee
- Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA; (Z.H.H.); (J.K.); (A.H.); (N.T.); (S.F.J.); (K.K.); (J.-Y.H.); (D.H.C.)
| | - Zeinab H. Helal
- Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA; (Z.H.H.); (J.K.); (A.H.); (N.T.); (S.F.J.); (K.K.); (J.-Y.H.); (D.H.C.)
- Connecticut Veterinary Medical Diagnostic Laboratory, Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA;
| | - Junwon Kim
- Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA; (Z.H.H.); (J.K.); (A.H.); (N.T.); (S.F.J.); (K.K.); (J.-Y.H.); (D.H.C.)
| | - Amelia Hunt
- Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA; (Z.H.H.); (J.K.); (A.H.); (N.T.); (S.F.J.); (K.K.); (J.-Y.H.); (D.H.C.)
- Connecticut Veterinary Medical Diagnostic Laboratory, Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA;
| | - Alyza Barbieri
- Connecticut Veterinary Medical Diagnostic Laboratory, Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA;
| | - Natalie Tocco
- Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA; (Z.H.H.); (J.K.); (A.H.); (N.T.); (S.F.J.); (K.K.); (J.-Y.H.); (D.H.C.)
- Connecticut Veterinary Medical Diagnostic Laboratory, Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA;
| | - Salvatore Frasca
- Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA; (Z.H.H.); (J.K.); (A.H.); (N.T.); (S.F.J.); (K.K.); (J.-Y.H.); (D.H.C.)
- Connecticut Veterinary Medical Diagnostic Laboratory, Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA;
| | - Kirklyn Kerr
- Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA; (Z.H.H.); (J.K.); (A.H.); (N.T.); (S.F.J.); (K.K.); (J.-Y.H.); (D.H.C.)
- Connecticut Veterinary Medical Diagnostic Laboratory, Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA;
| | - Ji-Yeon Hyeon
- Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA; (Z.H.H.); (J.K.); (A.H.); (N.T.); (S.F.J.); (K.K.); (J.-Y.H.); (D.H.C.)
- Connecticut Veterinary Medical Diagnostic Laboratory, Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA;
| | - David H. Chung
- Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA; (Z.H.H.); (J.K.); (A.H.); (N.T.); (S.F.J.); (K.K.); (J.-Y.H.); (D.H.C.)
| | - Guillermo Risatti
- Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA; (Z.H.H.); (J.K.); (A.H.); (N.T.); (S.F.J.); (K.K.); (J.-Y.H.); (D.H.C.)
- Connecticut Veterinary Medical Diagnostic Laboratory, Department of Pathobiology and Veterinary Science, University of Connecticut, Storrs, CT 06268, USA;
| |
Collapse
|
26
|
Ingala MR, Albert L, Addesso A, Watkins MJ, Knutie SA. Differential effects of elevated nest temperature and parasitism on the gut microbiota of wild avian hosts. Anim Microbiome 2021; 3:67. [PMID: 34600588 PMCID: PMC8487522 DOI: 10.1186/s42523-021-00130-3] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2021] [Accepted: 09/22/2021] [Indexed: 12/27/2022] Open
Abstract
BACKGROUND Changes in wild animal gut microbiotas may influence host health and fitness. While many studies have shown correlations between gut microbiota structure and external factors, few studies demonstrate causal links between environmental variables and microbiota shifts. Here, we use a fully factorial experiment to test the effects of elevated ambient temperature and natural nest parasitism by nest flies (Protocalliphora sialia) on the gut microbiotas of two species of wild birds, the eastern bluebird (Sialia sialis) and the tree swallow (Tachycineta bicolor). RESULTS We find that bacterial communities from the nestlings of each host species show idiosyncratic responses to both heat and parasitism, with gut microbiotas of eastern bluebirds more disrupted by heat and parasitism than those of tree swallows. Thus, we find that eastern bluebirds are unable to maintain stable associations with their gut bacteria in the face of both elevated temperature and parasitism. In contrast, tree swallow gut microbiotas are not significantly impacted by either heat or nest parasitism. CONCLUSIONS Our results suggest that excess heat (e.g., as a result of climate change) may destabilize natural host-parasite-microbiota systems, with the potential to affect host fitness and survival in the Anthropocene.
Collapse
Affiliation(s)
- Melissa R Ingala
- Department of Vertebrate Zoology, National Museum of Natural History, Washington, D.C., USA.
| | - Lauren Albert
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT, USA
| | - Alyssa Addesso
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT, USA
| | - Mackenzie J Watkins
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT, USA
| | - Sarah A Knutie
- Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT, USA
- Institute for Systems Genomics, University of Connecticut, Storrs, CT, USA
| |
Collapse
|
27
|
Yan J, Wilson RW, Buck JT, Grills DC, Reinheimer EW, Mani T. IR linewidth and intensity amplifications of nitrile vibrations report nuclear-electronic couplings and associated structural heterogeneity in radical anions. Chem Sci 2021; 12:12107-12117. [PMID: 34667576 PMCID: PMC8457396 DOI: 10.1039/d1sc03455c] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2021] [Accepted: 08/06/2021] [Indexed: 11/21/2022] Open
Abstract
Conjugated molecular chains have the potential to act as "molecular wires" that can be employed in a variety of technologies, including catalysis, molecular electronics, and quantum information technologies. Their successful application relies on a detailed understanding of the factors governing the electronic energy landscape and the dynamics of electrons in such molecules. We can gain insights into the energetics and dynamics of charges in conjugated molecules using time-resolved infrared (TRIR) detection combined with pulse radiolysis. Nitrile ν(C[triple bond, length as m-dash]N) bands can act as IR probes for charges, based on IR frequency shifts, because of their exquisite sensitivity to the degree of electron delocalization and induced electric field. Here, we show that the IR intensity and linewidth can also provide unique and complementary information on the nature of charges. Quantifications of IR intensity and linewidth in a series of nitrile-functionalized oligophenylenes reveal that the C[triple bond, length as m-dash]N vibration is coupled to the nuclear and electronic structural changes, which become more prominent when an excess charge is present. We synthesized a new series of ladder-type oligophenylenes that possess planar aromatic structures, as revealed by X-ray crystallography. Using these, we demonstrate that C[triple bond, length as m-dash]N vibrations can report charge fluctuations associated with nuclear movements, namely those driven by motions of flexible dihedral angles. This happens only when a charge has room to fluctuate in space.
Collapse
Affiliation(s)
- Juchao Yan
- Department of Physical Sciences, Eastern New Mexico University Portales NM 88130 USA
| | - Reid W Wilson
- Department of Chemistry, University of Connecticut Storrs CT 06269-3060 USA
| | - Jason T Buck
- Department of Chemistry, University of Connecticut Storrs CT 06269-3060 USA
| | - David C Grills
- Chemistry Division, Brookhaven National Laboratory Upton NY 11973-5000 USA
| | - Eric W Reinheimer
- Rigaku Americas Corporation 9009 New Trails Drive, The Woodlands TX 77381 USA
| | - Tomoyasu Mani
- Department of Chemistry, University of Connecticut Storrs CT 06269-3060 USA
| |
Collapse
|
28
|
Amin R, Ghaderinezhad F, Bridge C, Temirel M, Jones S, Toloueinia P, Tasoglu S. Pushing the Limits of Spatial Assay Resolution for Paper-Based Microfluidics Using Low-Cost and High-Throughput Pen Plotter Approach. Micromachines (Basel) 2020; 11:E611. [PMID: 32599882 PMCID: PMC7344671 DOI: 10.3390/mi11060611] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/18/2020] [Revised: 06/17/2020] [Accepted: 06/23/2020] [Indexed: 02/06/2023]
Abstract
To transform from reactive to proactive healthcare, there is an increasing need for low-cost and portable assays to continuously perform health measurements. The paper-based analytical devices could be a potential fit for this need. To miniaturize the multiplex paper-based microfluidic analytical devices and minimize reagent use, a fabrication method with high resolution along with low fabrication cost should be developed. Here, we present an approach that uses a desktop pen plotter and a high-resolution technical pen for plotting high-resolution patterns to fabricate miniaturized paper-based microfluidic devices with hundreds of detection zones to conduct different assays. In order to create a functional multiplex paper-based analytical device, the hydrophobic solution is patterned on the cellulose paper and the reagents are deposited in the patterned detection zones using the technical pens. We demonstrated the effect of paper substrate thickness on the resolution of patterns by investigating the resolution of patterns on a chromatography paper with altered effective thickness. As the characteristics of the cellulose paper substrate such as thickness, resolution, and homogeneity of pore structure affect the obtained patterning resolution, we used regenerated cellulose paper to fabricate detection zones with a diameter as small as 0.8 mm. Moreover, in order to fabricate a miniaturized multiplex paper-based device, we optimized packing of the detection zones. We also showed the capability of the presented method for fabrication of 3D paper-based microfluidic devices with hundreds of detection zones for conducting colorimetric assays.
Collapse
Affiliation(s)
- Reza Amin
- Department of Mechanical Engineering, University of Connecticut, Storrs, CT 06269, USA; (R.A.); (F.G.); (C.B.); (S.J.)
- UConn School of Engineering Professional Education, University of Connecticut, Storrs, CT 06269, USA
| | - Fariba Ghaderinezhad
- Department of Mechanical Engineering, University of Connecticut, Storrs, CT 06269, USA; (R.A.); (F.G.); (C.B.); (S.J.)
| | - Caleb Bridge
- Department of Mechanical Engineering, University of Connecticut, Storrs, CT 06269, USA; (R.A.); (F.G.); (C.B.); (S.J.)
| | - Mikail Temirel
- Department of Biomedical Engineering, University of Connecticut, Storrs, CT 06269, USA;
| | - Scott Jones
- Department of Mechanical Engineering, University of Connecticut, Storrs, CT 06269, USA; (R.A.); (F.G.); (C.B.); (S.J.)
| | - Panteha Toloueinia
- Institute of Materials Science (IMS), University of Connecticut, 97 North Eagleville Road, Storrs, CT 06269, USA;
| | - Savas Tasoglu
- Department of Mechanical Engineering, Koç University, Sariyer, Istanbul 34450, Turkey
- Koç University Arçelik Research Center for Creative Industries (KUAR), Koç University, Sariyer, Istanbul 34450, Turkey
- Boğaziçi Institute of Biomedical Engineering, Boğaziçi University, Çengelköy, Istanbul 34684, Turkey
- Koç University Research Center for Translational Medicine, Koç University, Sariyer, Istanbul 34450, Turkey
| |
Collapse
|
29
|
Nayak S, Calvo JA, Cong K, Peng M, Berthiaume E, Jackson J, Zaino AM, Vindigni A, Hadden MK, Cantor SB. Inhibition of the translesion synthesis polymerase REV1 exploits replication gaps as a cancer vulnerability. Sci Adv 2020; 6:eaaz7808. [PMID: 32577513 PMCID: PMC7286678 DOI: 10.1126/sciadv.aaz7808] [Citation(s) in RCA: 65] [Impact Index Per Article: 16.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/08/2019] [Accepted: 04/06/2020] [Indexed: 05/04/2023]
Abstract
The replication stress response, which serves as an anticancer barrier, is activated not only by DNA damage and replication obstacles but also oncogenes, thus obscuring how cancer evolves. Here, we identify that oncogene expression, similar to other replication stress-inducing agents, induces single-stranded DNA (ssDNA) gaps that reduce cell fitness. DNA fiber analysis and electron microscopy reveal that activation of translesion synthesis (TLS) polymerases restricts replication fork slowing, reversal, and fork degradation without inducing replication gaps despite the continuation of replication during stress. Consistent with gap suppression (GS) being fundamental to cancer, we demonstrate that a small-molecule inhibitor targeting the TLS factor REV1 not only disrupts DNA replication and cancer cell fitness but also synergizes with gap-inducing therapies such as inhibitors of ATR or Wee1. Our work illuminates that GS during replication is critical for cancer cell fitness and therefore a targetable vulnerability.
Collapse
Affiliation(s)
- Sumeet Nayak
- Molecular Cell and Cancer Biology, University of Massachusetts Medical School, Worcester, MA 01605, USA
| | - Jennifer A. Calvo
- Molecular Cell and Cancer Biology, University of Massachusetts Medical School, Worcester, MA 01605, USA
| | - Ke Cong
- Molecular Cell and Cancer Biology, University of Massachusetts Medical School, Worcester, MA 01605, USA
| | - Min Peng
- Molecular Cell and Cancer Biology, University of Massachusetts Medical School, Worcester, MA 01605, USA
| | - Emily Berthiaume
- Molecular Cell and Cancer Biology, University of Massachusetts Medical School, Worcester, MA 01605, USA
| | - Jessica Jackson
- Division of Oncology, Department of Medicine, Washington University School of Medicine, St. Louis, MO 63110, USA
| | - Angela M. Zaino
- Department of Pharmaceutical Sciences, University of Connecticut, 69 North Eagleville Road, Unit 3092, Storrs, CT 06269, USA
| | - Alessandro Vindigni
- Division of Oncology, Department of Medicine, Washington University School of Medicine, St. Louis, MO 63110, USA
| | - M. Kyle Hadden
- Department of Pharmaceutical Sciences, University of Connecticut, 69 North Eagleville Road, Unit 3092, Storrs, CT 06269, USA
| | - Sharon B. Cantor
- Molecular Cell and Cancer Biology, University of Massachusetts Medical School, Worcester, MA 01605, USA
| |
Collapse
|
30
|
Shen W, Sun J. Different modes of Notch activation and strength regulation in the spermathecal secretory lineage. Development 2020; 147:dev184390. [PMID: 31988187 PMCID: PMC7033723 DOI: 10.1242/dev.184390] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2019] [Accepted: 01/10/2020] [Indexed: 01/09/2023]
Abstract
The strength of Notch signaling contributes to pleiotropic actions of Notch; however, we do not yet have a full understanding of the molecular regulation of Notch-signaling strength. We have investigated the mode of Notch activation in binary fate specification in the Drosophila spermathecal linage, where Notch is asymmetrically activated across three divisions to specify different cell fates. Using clonal analysis, we show that Delta (Dl) serves as the ligand for Notch in the first and second divisions. Dl and Serrate (Ser) function redundantly in the third division. Compared with the third division, cell-fate decision in the second division requires a lower level of Suppressor of Hairless protein, and, consequently, a lower level of Notch signaling. Several Notch endosomal trafficking regulators differentially regulate Notch signaling between the second and third divisions. Here, we demonstrate that cell differentiation in spermathecae involves different Notch-activation modes, Notch-signaling strengths and Notch-trafficking regulations. Thus, the Drosophila spermathecal lineage is an exciting model for probing the molecular mechanisms that modulate the Notch signaling pathway.
Collapse
Affiliation(s)
- Wei Shen
- Department of Physiology and Neurobiology, University of Connecticut, Storrs, CT 06269, USA
| | - Jianjun Sun
- Department of Physiology and Neurobiology, University of Connecticut, Storrs, CT 06269, USA
- Institute for System Genomics, University of Connecticut, Storrs, CT 06269, USA
| |
Collapse
|
31
|
Baucom RS, Heath KD, Chambers SM. Plant-environment interactions from the lens of plant stress, reproduction, and mutualisms. Am J Bot 2020; 107:175-178. [PMID: 32060910 PMCID: PMC7186814 DOI: 10.1002/ajb2.1437] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/09/2019] [Accepted: 12/20/2019] [Indexed: 05/06/2023]
Affiliation(s)
- Regina S. Baucom
- Department of Ecology and Evolutionary BiologyUniversity of MichiganAnn ArborMI48109USA
| | - Katy D. Heath
- Department of Plant BiologyUniversity of Illinois at Urbana‐ChampaignUrbanaIL61801USA
| | | |
Collapse
|
32
|
Jones G, Pilling LC, Kuo CL, Kuchel G, Ferrucci L, Melzer D. Sarcopenia and Variation in the Human Leukocyte Antigen Complex. J Gerontol A Biol Sci Med Sci 2020; 75:301-308. [PMID: 30772894 PMCID: PMC7176057 DOI: 10.1093/gerona/glz042] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2018] [Indexed: 12/18/2022] Open
Abstract
BACKGROUND Aging is characterized by chronic inflammation plus loss of muscle mass and strength, termed sarcopenia. Human leukocyte antigen (HLA) types are drivers of autoimmune disease, although with limited penetrance. We tested whether autoimmune diagnoses are associated with sarcopenia, and whether HLA types and related genetic variants are associated with sarcopenia in autoimmune disease-free older people. METHODS Data were collected from 181,301 UK Biobank European descent volunteers aged 60-70 with measured hand grip strength and impedance. Logistic regression analysis estimated HLA type and sarcopenia associations, adjusted for confounders and multiple testing. RESULTS Having any autoimmune diagnosis was associated with sarcopenia (odds ratio [OR] 1.83, 95% confidence interval (CI) 1.74-1.92, p = 4.0*10-125). After excluding autoimmune diagnoses, 6 of 100 HLA types (allele frequency >1%) were associated with sarcopenia (low grip strength and muscle mass). Having two HLA-DQA1*03:01 alleles increased odds of sarcopenia by 19.3% (OR 1.19, CI 1.09-1.29, p = 2.84*10-5), compared to no alleles. Having ≥6 of the 12 HLA alleles increased sarcopenia odds by 23% (OR 1.23, CI 1.12-1.35, p = 7.28*10-6). Of 658 HLA region non-coding genetic variants previously implicated in disease, 4 were associated with sarcopenia, including rs41268896 and rs29268645 (OR 1.08, CI 1.05-1.11, p = 1.06*10-8 and 1.07, CI 1.04-1.09, p = 1.5*10-6, respectively). Some HLA associations with sarcopenia were greater in female participants. CONCLUSION Autoimmune diagnoses are strongly associated with sarcopenia in 60- to 70-year olds. Variation in specific HLA types and non-coding single nucleotide polymorphisms is also associated with sarcopenia in older carriers free of diagnosed autoimmune diseases. Patients with sarcopenia might benefit from targeted treatment of autoimmune processes.
Collapse
Affiliation(s)
- Garan Jones
- Epidemiology and Public Health Group, University of Exeter Medical School
| | - Luke C Pilling
- Epidemiology and Public Health Group, University of Exeter Medical School
| | - Chia-Ling Kuo
- Biostatistics Center, CT Institute for Clinical &Translational Science, Department of Community Medicine and Health Care, University of Connecticut Health Center, Farmington
- Center on Aging, University of Connecticut Health Center, Farmington
| | - George Kuchel
- Center on Aging, University of Connecticut Health Center, Farmington
| | | | - David Melzer
- Epidemiology and Public Health Group, University of Exeter Medical School
- Center on Aging, University of Connecticut Health Center, Farmington
| |
Collapse
|
33
|
Grond K, Guilani H, Hird SM. Spatial heterogeneity of the shorebird gastrointestinal microbiome. R Soc Open Sci 2020; 7:191609. [PMID: 32218980 PMCID: PMC7029916 DOI: 10.1098/rsos.191609] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/13/2019] [Accepted: 11/11/2019] [Indexed: 05/29/2023]
Abstract
The gastrointestinal tract (GIT) consists of connected structures that vary in function and physiology, and different GIT sections potentially provide different habitats for microorganisms. Birds possess unique GIT structures, including the oesophagus, proventriculus, gizzard, small intestine, caeca and large intestine. To understand birds as hosts of microbial ecosystems, we characterized the microbial communities in six sections of the GIT of two shorebird species, the Dunlin and Semipalmated Sandpiper, identified potential host species effects on the GIT microbiome and used microbial source tracking to determine microbial origin throughout the GIT. The upper three GIT sections had higher alpha diversity and genus richness compared to the lower sections, and microbial communities in the upper GIT showed no clustering. The proventriculus and gizzard microbiomes primarily originated from upstream sections, while the majority of the large intestine microbiome originated from the caeca. The heterogeneity of the GIT sections shown in our study urges caution in equating data from faeces or a single GIT component to the entire GIT microbiome but confirms that ecologically similar species may share many attributes in GIT microbiomes.
Collapse
|
34
|
Chen J, Ye X, Pitmon E, Lu M, Wan J, Jellison ER, Adler AJ, Vella AT, Wang K. IL-17 inhibits CXCL9/10-mediated recruitment of CD8 + cytotoxic T cells and regulatory T cells to colorectal tumors. J Immunother Cancer 2019; 7:324. [PMID: 31775909 PMCID: PMC6880503 DOI: 10.1186/s40425-019-0757-z] [Citation(s) in RCA: 63] [Impact Index Per Article: 12.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2019] [Accepted: 09/23/2019] [Indexed: 12/29/2022] Open
Abstract
BACKGROUND The IL-17 family cytokines are potent drivers of colorectal cancer (CRC) development. We and others have shown that IL-17 mainly signals to tumor cells to promote CRC, but the underlying mechanism remains unclear. IL-17 also dampens Th1-armed anti-tumor immunity, in part by attracting myeloid cells to tumor. Whether IL-17 controls the activity of adaptive immune cells in a more direct manner, however, is unknown. METHODS Using mouse models of sporadic or inducible colorectal cancers, we ablated IL-17RA in the whole body or specifically in colorectal tumor cells. We also performed adoptive bone marrow reconstitution to knockout CXCR3 in hematopoietic cells. Histological and immunological experimental methods were used to reveal the link among IL-17, chemokine production, and CRC development. RESULTS Loss of IL-17 signaling in mouse CRC resulted in marked increase in the recruitment of CD8+ cytotoxic T lymphocytes (CTLs) and regulatory T cells (Tregs), starting from early stage CRC lesions. This is accompanied by the increased expression of anti-inflammatory cytokines IL-10 and TGF-β. IL-17 signaling also inhibits the production of T cell attracting chemokines CXCL9 and CXCL10 by tumor cells. Conversely, the inability of hematopoietic cells to respond to CXCL9/10 resulted in decreased tumor infiltration by CTLs and Tregs, decreased levels of IL-10 and TGF-β, and increased numbers of tumor lesions. Blockade of IL-17 signaling resulted in increased expression of immune checkpoint markers. On the other hand, treatment of mouse CRC with anti-CTLA-4 antibody led to increased expression of pro-tumor IL-17. CONCLUSION IL-17 signals to colorectal tumor cells and inhibits their production of CXCL9/10 chemokines. By doing so, IL-17 inhibits the infiltration of CD8+ CTLs and Tregs to CRC, thus promoting CRC development. Cancer immunotherapy may be benefited by the use of anti-IL-17 agents as adjuvant therapies, which serve to block both IL-17-mediated tumor promotion and T cell exclusion.
Collapse
MESH Headings
- Animals
- Biomarkers, Tumor
- Cell Line, Tumor
- Chemokine CXCL10/genetics
- Chemokine CXCL10/metabolism
- Chemokine CXCL9/metabolism
- Colorectal Neoplasms/immunology
- Colorectal Neoplasms/metabolism
- Colorectal Neoplasms/pathology
- Colorectal Neoplasms/therapy
- Cytokines/biosynthesis
- Gene Expression
- Humans
- Interleukin-17/metabolism
- Lymphocytes, Tumor-Infiltrating/drug effects
- Lymphocytes, Tumor-Infiltrating/immunology
- Lymphocytes, Tumor-Infiltrating/metabolism
- Mice
- Mice, Knockout
- Models, Biological
- Neoplasm Staging
- Signal Transduction/drug effects
- T-Lymphocytes, Cytotoxic/immunology
- T-Lymphocytes, Cytotoxic/metabolism
- T-Lymphocytes, Regulatory/immunology
- T-Lymphocytes, Regulatory/metabolism
Collapse
Affiliation(s)
- Ju Chen
- Department of Immunology, School of Medicine, UConn Health, 263 Farmington Ave, Farmington, CT, 06030, USA
| | - Xiaoyang Ye
- Department of Immunology, School of Medicine, UConn Health, 263 Farmington Ave, Farmington, CT, 06030, USA
- Shenzhen Key Laboratory for Neuronal Structural Biology, Biomedical Research Institute, Shenzhen Peking University - The Hong Kong University of Science and Technology Medical Center, Shenzhen, China
| | - Elise Pitmon
- Department of Immunology, School of Medicine, UConn Health, 263 Farmington Ave, Farmington, CT, 06030, USA
| | - Mengqian Lu
- Department of Immunology, School of Medicine, UConn Health, 263 Farmington Ave, Farmington, CT, 06030, USA
- School of Acupuncture-moxibustion and Tuina, Beijing University of Chinese Medicine, Beijing, China
| | - Jun Wan
- Shenzhen Key Laboratory for Neuronal Structural Biology, Biomedical Research Institute, Shenzhen Peking University - The Hong Kong University of Science and Technology Medical Center, Shenzhen, China
- Division of Life Science, The Hong Kong University of Science and Technology, Clear Water Bay, Hong Kong, China
| | - Evan R Jellison
- Department of Immunology, School of Medicine, UConn Health, 263 Farmington Ave, Farmington, CT, 06030, USA
| | - Adam J Adler
- Department of Immunology, School of Medicine, UConn Health, 263 Farmington Ave, Farmington, CT, 06030, USA
| | - Anthony T Vella
- Department of Immunology, School of Medicine, UConn Health, 263 Farmington Ave, Farmington, CT, 06030, USA
| | - Kepeng Wang
- Department of Immunology, School of Medicine, UConn Health, 263 Farmington Ave, Farmington, CT, 06030, USA.
| |
Collapse
|
35
|
Knapp EM, Li W, Sun J. Downregulation of homeodomain protein Cut is essential for Drosophila follicle maturation and ovulation. Development 2019; 146:dev179002. [PMID: 31444217 PMCID: PMC6765176 DOI: 10.1242/dev.179002] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2019] [Accepted: 08/19/2019] [Indexed: 01/19/2023]
Abstract
Proper development and maturation of a follicle is essential for successful ovulation and reproduction; however, the molecular mechanisms for follicle maturation, particularly for somatic follicle cell differentiation, are poorly understood. During Drosophila oogenesis, the somatic follicle cells encasing oocytes undergo two distinct well-established transitions: the mitotic to endocycle switch at stage 6/7 and the endocycle to gene amplification switch at stage10A/10B. Here, we identify a novel third follicle cell transition that occurs in the final stages of oogenesis (stage 13/14). This late follicle cell transition is characterized by upregulation of the transcription factor Hindsight (Hnt), and downregulation of the homeodomain transcription factor Cut and the zinc-finger transcription factor Tramtrack-69 (Ttk69). We demonstrate that inducing expression of Cut in stage 14 follicle cells is sufficient to inhibit follicle rupture and ovulation through its negative regulation of Hnt and promotion of Ttk69 expression. Our work illustrates the importance of the stage13/14 transition for follicle maturation and demonstrates the complex regulation required for somatic follicle cells to differentiate into a state primed for follicle rupture and ovulation.
Collapse
Affiliation(s)
- Elizabeth M Knapp
- Department of Physiology & Neurobiology, University of Connecticut, Storrs, CT 06269, USA
| | - Wei Li
- Department of Physiology & Neurobiology, University of Connecticut, Storrs, CT 06269, USA
| | - Jianjun Sun
- Department of Physiology & Neurobiology, University of Connecticut, Storrs, CT 06269, USA
- Institute for Systems Genomics, University of Connecticut, Storrs, CT 06269, USA
| |
Collapse
|
36
|
Newcomer RL, Schrad JR, Gilcrease EB, Casjens SR, Feig M, Teschke CM, Alexandrescu AT, Parent KN. The phage L capsid decoration protein has a novel OB-fold and an unusual capsid binding strategy. eLife 2019; 8:e45345. [PMID: 30945633 PMCID: PMC6449081 DOI: 10.7554/elife.45345] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2019] [Accepted: 03/20/2019] [Indexed: 12/15/2022] Open
Abstract
The major coat proteins of dsDNA tailed phages (order Caudovirales) and herpesviruses form capsids by a mechanism that includes active packaging of the dsDNA genome into a precursor procapsid, followed by expansion and stabilization of the capsid. These viruses have evolved diverse strategies to fortify their capsids, such as non-covalent binding of auxiliary 'decoration' (Dec) proteins. The Dec protein from the P22-like phage L has a highly unusual binding strategy that distinguishes between nearly identical three-fold and quasi-three-fold sites of the icosahedral capsid. Cryo-electron microscopy and three-dimensional image reconstruction were employed to determine the structure of native phage L particles. NMR was used to determine the structure/dynamics of Dec in solution. The NMR structure and the cryo-EM density envelope were combined to build a model of the capsid-bound Dec trimer. Key regions that modulate the binding interface were verified by site-directed mutagenesis.
Collapse
Affiliation(s)
- Rebecca L Newcomer
- Department of Molecular and Cell BiologyUniversity of ConnecticutStorrsUnited States
| | - Jason R Schrad
- Department of Biochemistry and Molecular BiologyMichigan State UniversityEast LansingUnited States
| | - Eddie B Gilcrease
- Division of Microbiology and Immunology, Department of PathologyUniversity of Utah School of MedicineSalt Lake CityUnited States
| | - Sherwood R Casjens
- Division of Microbiology and Immunology, Department of PathologyUniversity of Utah School of MedicineSalt Lake CityUnited States
| | - Michael Feig
- Department of Biochemistry and Molecular BiologyMichigan State UniversityEast LansingUnited States
| | - Carolyn M Teschke
- Department of Molecular and Cell BiologyUniversity of ConnecticutStorrsUnited States
| | - Andrei T Alexandrescu
- Department of Molecular and Cell BiologyUniversity of ConnecticutStorrsUnited States
| | - Kristin N Parent
- Department of Biochemistry and Molecular BiologyMichigan State UniversityEast LansingUnited States
| |
Collapse
|
37
|
Sasaki M, Hedberg S, Richardson K, Dam HG. Complex interactions between local adaptation, phenotypic plasticity and sex affect vulnerability to warming in a widespread marine copepod. R Soc Open Sci 2019; 6:182115. [PMID: 31032052 PMCID: PMC6458359 DOI: 10.1098/rsos.182115] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/11/2018] [Accepted: 02/27/2019] [Indexed: 05/06/2023]
Abstract
Predicting the response of populations to climate change requires an understanding of how various factors affect thermal performance. Genetic differentiation is well known to affect thermal performance, but the effects of sex and developmental phenotypic plasticity often go uncharacterized. We used common garden experiments to test for effects of local adaptation, developmental phenotypic plasticity and individual sex on thermal performance of the ubiquitous copepod, Acartia tonsa (Calanoida, Crustacea) from two populations strongly differing in thermal regimes (Florida and Connecticut, USA). Females had higher thermal tolerance than males in both populations, while the Florida population had higher thermal tolerance compared with the Connecticut population. An effect of developmental phenotypic plasticity on thermal tolerance was observed only in the Connecticut population. Our results show clearly that thermal performance is affected by complex interactions of the three tested variables. Ignoring sex-specific differences in thermal performance may result in a severe underestimation of population-level impacts of warming because of population decline due to sperm limitation. Furthermore, despite having a higher thermal tolerance, low-latitude populations may be more vulnerable to warming as they lack the ability to respond to increases in temperature through phenotypic plasticity.
Collapse
Affiliation(s)
- Matthew Sasaki
- Department of Marine Sciences, University of Connecticut, Groton, CT, USA
- Author for correspondence: Matthew Sasaki e-mail:
| | | | | | - Hans G. Dam
- Department of Marine Sciences, University of Connecticut, Groton, CT, USA
| |
Collapse
|
38
|
Wizeman JW, Guo Q, Wilion EM, Li JYH. Specification of diverse cell types during early neurogenesis of the mouse cerebellum. eLife 2019; 8:e42388. [PMID: 30735127 PMCID: PMC6382353 DOI: 10.7554/elife.42388] [Citation(s) in RCA: 44] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2018] [Accepted: 02/07/2019] [Indexed: 12/22/2022] Open
Abstract
We applied single-cell RNA sequencing to profile genome-wide gene expression in about 9400 individual cerebellar cells from the mouse embryo at embryonic day 13.5. Reiterative clustering identified the major cerebellar cell types and subpopulations of different lineages. Through pseudotemporal ordering to reconstruct developmental trajectories, we identified novel transcriptional programs controlling cell fate specification of populations arising from the ventricular zone and the rhombic lip, two distinct germinal zones of the embryonic cerebellum. Together, our data revealed cell-specific markers for studying the cerebellum, gene-expression cascades underlying cell fate specification, and a number of previously unknown subpopulations that may play an integral role in the formation and function of the cerebellum. Our findings will facilitate new discovery by providing insights into the molecular and cell type diversity in the developing cerebellum.
Collapse
Affiliation(s)
- John W Wizeman
- Department of Genetics and Genome Sciences, School of MedicineUniversity of ConnecticutFarmingtonUnited States
| | - Qiuxia Guo
- Department of Genetics and Genome Sciences, School of MedicineUniversity of ConnecticutFarmingtonUnited States
| | | | - James YH Li
- Department of Genetics and Genome Sciences, School of MedicineUniversity of ConnecticutFarmingtonUnited States
- Institute for Systems GenomicsUniversity of ConnecticutFarmingtonUnited States
| |
Collapse
|
39
|
Sharafeldin M, Jones A, Rusling JF. 3D-Printed Biosensor Arrays for Medical Diagnostics. Micromachines (Basel) 2018; 9:E394. [PMID: 30424327 PMCID: PMC6187244 DOI: 10.3390/mi9080394] [Citation(s) in RCA: 57] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/14/2018] [Revised: 07/20/2018] [Accepted: 08/02/2018] [Indexed: 11/23/2022]
Abstract
While the technology is relatively new, low-cost 3D printing has impacted many aspects of human life. 3D printers are being used as manufacturing tools for a wide variety of devices in a spectrum of applications ranging from diagnosis to implants to external prostheses. The ease of use, availability of 3D-design software and low cost has made 3D printing an accessible manufacturing and fabrication tool in many bioanalytical research laboratories. 3D printers can print materials with varying density, optical character, strength and chemical properties that provide the user with a vast array of strategic options. In this review, we focus on applications in biomedical diagnostics and how this revolutionary technique is facilitating the development of low-cost, sensitive, and often geometrically complex tools. 3D printing in the fabrication of microfluidics, supporting equipment, and optical and electronic components of diagnostic devices is presented. Emerging diagnostics systems using 3D bioprinting as a tool to incorporate living cells or biomaterials into 3D printing is also reviewed.
Collapse
Affiliation(s)
- Mohamed Sharafeldin
- Department of Chemistry (U-3060), University of Connecticut, 55 North Eagleville Road, Storrs, CT 06269, USA.
- Analytical Chemistry Department, Faculty of Pharmacy, Zagazig University, Zagazig 44519, Sharkia, Egypt.
| | - Abby Jones
- Department of Chemistry (U-3060), University of Connecticut, 55 North Eagleville Road, Storrs, CT 06269, USA.
| | - James F Rusling
- Department of Chemistry (U-3060), University of Connecticut, 55 North Eagleville Road, Storrs, CT 06269, USA.
- Institute of Materials Science, University of Connecticut, 97 North Eagleville Road, Storrs, CT 06269, USA.
- Department of Surgery and Neag Cancer Center, UConn Health, Farmington, CT 06032, USA.
- School of Chemistry, National University of Ireland, Galway, University Road, Galway, Ireland.
| |
Collapse
|
40
|
McGinnis RL, Reimund K, Ren J, Xia L, Chowdhury MR, Sun X, Abril M, Moon JD, Merrick MM, Park J, Stevens KA, McCutcheon JR, Freeman BD. Large-scale polymeric carbon nanotube membranes with sub-1.27-nm pores. Sci Adv 2018; 4:e1700938. [PMID: 29536038 PMCID: PMC5844709 DOI: 10.1126/sciadv.1700938] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
We report the first characterization study of commercial prototype carbon nanotube (CNT) membranes consisting of sub-1.27-nm-diameter CNTs traversing a large-area nonporous polysulfone film. The membranes show rejection of NaCl and MgSO4 at higher ionic strengths than have previously been reported in CNT membranes, and specific size selectivity for analytes with diameters below 1.24 nm. The CNTs used in the membranes were arc discharge nanotubes with inner diameters of 0.67 to 1.27 nm. Water flow through the membranes was 1000 times higher than predicted by Hagen-Poiseuille flow, in agreement with previous CNT membrane studies. Ideal gas selectivity was found to deviate significantly from that predicted by both viscous and Knudsen flow, suggesting that surface diffusion effects may begin to dominate gas selectivity at this size scale.
Collapse
Affiliation(s)
| | - Kevin Reimund
- Mattershift, New York, NY 10017, USA
- University of Connecticut, Storrs, CT 06269, USA
| | - Jian Ren
- University of Connecticut, Storrs, CT 06269, USA
| | - Lingling Xia
- University of Connecticut, Storrs, CT 06269, USA
| | | | - Xuanhao Sun
- University of Connecticut, Storrs, CT 06269, USA
| | | | | | | | | | | | | | | |
Collapse
|
41
|
Broderick NA. Friend, foe or food? Recognition and the role of antimicrobial peptides in gut immunity and Drosophila-microbe interactions. Philos Trans R Soc Lond B Biol Sci 2016; 371:20150295. [PMID: 27160597 PMCID: PMC4874392 DOI: 10.1098/rstb.2015.0295] [Citation(s) in RCA: 42] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 03/17/2016] [Indexed: 01/07/2023] Open
Abstract
Drosophila melanogaster lives, breeds and feeds on fermenting fruit, an environment that supports a high density, and often a diversity, of microorganisms. This association with such dense microbe-rich environments has been proposed as a reason that D. melanogaster evolved a diverse and potent antimicrobial peptide (AMP) response to microorganisms, especially to combat potential pathogens that might occupy this niche. Yet, like most animals, D. melanogaster also lives in close association with the beneficial microbes that comprise its microbiota, or microbiome, and recent studies have shown that antimicrobial peptides (AMPs) of the epithelial immune response play an important role in dictating these interactions and controlling the host response to gut microbiota. Moreover, D. melanogaster also eats microbes for food, consuming fermentative microbes of decaying plant material and their by-products as both larvae and adults. The processes of nutrient acquisition and host defence are remarkably similar and use shared functions for microbe detection and response, an observation that has led to the proposal that the digestive and immune systems have a common evolutionary origin. In this manner, D. melanogaster provides a powerful model to understand how, and whether, hosts differentiate between the microbes they encounter across this spectrum of associations.This article is part of the themed issue 'Evolutionary ecology of arthropod antimicrobial peptides'.
Collapse
Affiliation(s)
- Nichole A Broderick
- Department of Molecular and Cell Biology, University of Connecticut, Storrs, CT, USA
| |
Collapse
|
42
|
Cong X, Xu W, Janton S, Henderson WA, Matson A, McGrath JM, Maas K, Graf J. Gut Microbiome Developmental Patterns in Early Life of Preterm Infants: Impacts of Feeding and Gender. PLoS One 2016; 11:e0152751. [PMID: 27111847 PMCID: PMC4844123 DOI: 10.1371/journal.pone.0152751] [Citation(s) in RCA: 142] [Impact Index Per Article: 17.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2015] [Accepted: 03/18/2016] [Indexed: 12/19/2022] Open
Abstract
Gut microbiota plays a key role in multiple aspects of human health and disease, particularly in early life. Distortions of the gut microbiota have been found to correlate with fatal diseases in preterm infants, however, developmental patterns of gut microbiome and factors affecting the colonization progress in preterm infants remain unclear. The purpose of this prospective longitudinal study was to explore day-to-day gut microbiome patterns in preterm infants during their first 30 days of life in the neonatal intensive care unit (NICU) and investigate potential factors related to the development of the infant gut microbiome. A total of 378 stool samples were collected daily from 29 stable/healthy preterm infants. DNA extracted from stool was used to sequence the V4 region of the 16S rRNA gene region for community analysis. Operational taxonomic units (OTUs) and α-diversity of the community were determined using QIIME software. Proteobacteria was the most abundant phylum, accounting for 54.3% of the total reads. Result showed shift patterns of increasing Clostridium and Bacteroides, and decreasing Staphylococcus and Haemophilus over time during early life. Alpha-diversity significantly increased daily in preterm infants after birth and linear mixed-effects models showed that postnatal days, feeding types and gender were associated with the α-diversity, p< 0.05–0.01. Male infants were found to begin with a low α-diversity, whereas females tended to have a higher diversity shortly after birth. Female infants were more likely to have higher abundance of Clostridiates, and lower abundance of Enterobacteriales than males during early life. Infants fed mother’s own breastmilk (MBM) had a higher diversity of gut microbiome and significantly higher abundance in Clostridiales and Lactobacillales than infants fed non-MBM. Permanova also showed that bacterial compositions were different between males and females and between MBM and non-MBM feeding types. In conclusion, infant postnatal age, gender and feeding type significantly contribute to the dynamic development of the gut microbiome in preterm infants.
Collapse
Affiliation(s)
- Xiaomei Cong
- School of Nursing, University of Connecticut, Storrs, Connecticut, United States of America
- Institute for Systems Genomics, University of Connecticut, Farmington, Connecticut, United States of America
- * E-mail:
| | - Wanli Xu
- School of Nursing, University of Connecticut, Storrs, Connecticut, United States of America
| | - Susan Janton
- Department of Molecular and Cell Biology, University of Connecticut, Storrs, Connecticut, United States of America
| | - Wendy A. Henderson
- Digestive Disorders Unit, Biobehavioral Branch, National Institute of Nursing Research, National Institutes of Health, Bethesda, Maryland, United States of America
| | - Adam Matson
- Connecticut Children’s Medical Center, Hartford, Connecticut, United States of America
| | - Jacqueline M. McGrath
- School of Nursing, University of Connecticut, Storrs, Connecticut, United States of America
- Connecticut Children’s Medical Center, Hartford, Connecticut, United States of America
| | - Kendra Maas
- Microbial Analysis, Resources, and Services, University of Connecticut, Storrs, Connecticut, United States of America
| | - Joerg Graf
- Institute for Systems Genomics, University of Connecticut, Farmington, Connecticut, United States of America
- Department of Molecular and Cell Biology, University of Connecticut, Storrs, Connecticut, United States of America
| |
Collapse
|