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- ArticleLim S, Park J, Shim MK, Um W, Yoon HY, Ryu JH, Lim DK, Kim K.Theranostics. 2019;9(25):7906-7923.Cancer immunotherapy is an attractive treatment option under clinical settings. However, the major challenges of immunotherapy include limited patient response, limited tumor specificity, immune-related adverse events, and immunosuppressive tumor microenvironment. Therefore, nanoparticle (NP)-based drug delivery has been used to not only increase the efficacy of immunotherapeutic agents, but it also significantly reduces the toxicity. In particular, NP-based drug delivery systems alter the pharmacokinetic (PK) profile of encapsulated or conjugated immunotherapeutic agents to targeted cancer cells or immune cells and facilitate the delivery of multiple therapeutic combinations to targeted cells using single NPs. Recently, advanced NP-based drug delivery systems were effectively utilized in cancer immunotherapy to reduce the toxic side effects and immune-related adverse events. Repurposing these NPs as delivery systems of immunotherapeutic agents may overcome the limitations of current cancer immunotherapy. In this review, we focus on recent advances in NP-based immunotherapeutic delivery systems, such as immunogenic cell death (ICD)-inducing drugs, cytokines and adjuvants for promising cancer immunotherapy. Finally, we discuss the challenges facing current NP-based drug delivery systems that need to be addressed for successful clinical application.
- ArticleLi H, Luo T, Sheng R, Sun J, Wang Z, Cao A.Biomaterials. 2013 Oct;34(32):7923-38.In this work, we first synthesized a ω-amino group Boc-protected poly(ω-aminohexyl methacrylamide) PAHMAA-Boc precursor via controlled reversible addition-fragmentation chain transfer (RAFT) polymerization of the Boc-AHMAA monomer in THF solution, and poly(ω-aminohexyl methacrylamide) (PAHMAA) was then prepared via Boc deprotection, and was further conjugated with (L-)-arginines at the ω-amino group sites to give a series of new (L-)-arginine conjugated PAHMAA-R7, PAHMAA-R16 and PAHMAA-R22. Employing these PAHMAA and PAHMAA-Rs as functional gene vectors, their plasmid DNA binding affinities were examined by agarose gel retardant assay. By means of dynamic light scattering (DLS), mean particle sizes and zeta potentials of the polyplexes were analyzed. Moreover, cytotoxicities of the PAHMAA and PAHMAA-Rs were evaluated by MTT and lactate dehydrogenase (LDH) release assays with COS-7 cells, and luciferase and EGFP gene transfection efficacies by these vectors were assayed in COS-7 and HeLa cells. Furthermore, intracellular uptake of the vector/Cy3-labeled pDNA polyplexes was studied with a flow cytometer (FACS), and the most efficient PAHMAA-R16 vector was employed to investigate the endocytic gateways with various inhibitors. In addition, colocalization of the Cy3-labeled pDNA and Oregon Green labeled PAHMAA-R16 vector in the intracellular organelles of COS-7 cells was visualized on a fluorescence microscopy. As a result, it was revealed that the PAHMAA-R vectors showed lower cytotoxicities and transfection efficacies significantly higher than those of the PAHMAA, strongly depending on their percentage of arginine conjugation, and that the results of endocytic inhabitation and fluorescence colocalization in endoplasmic reticulum may suggest a caveolae-mediated efficient intracellular trafficking route for the synthesized PAHMAA-R vectors.
- ArticleLyu GM, Wang YJ, Huang X, Zhang HY, Sun LD, Liu YJ, Yan CH.Nanoscale. 2016 Apr 21;8(15):7923-32.Oxidative stress plays a key role in the occurrence and development of diabetes. With their unique redox properties, CeO2 nanoparticles (nanoceria) exhibit promising potential for the treatment of diabetes resulting from oxidative stress. Here, we develop a novel preparation of hydrophilic CeO2 nanocubes (NCs) with two different sizes (5 nm and 25 nm) via an acetate assisted hydrothermal method. Dynamic light scattering, zeta potential measurements and thermogravimetric analyses were utilized to investigate the changes in the physico-chemical characteristics of CeO2 NCs when exposed to in vitro cell culture conditions. CCK-8 assays revealed that the CeO2 NCs did not impair cell proliferation in the pancreatic β-cell line INS-1 at the highest dose of 200 μg mL(-1) over the time scale of 72 h, while being able to protect INS-1 cells from H2O2-induced cytotoxicity even after protein adsorption. It is also noteworthy that nanoceria with a smaller hydrodynamic radius exhibit stronger antioxidant and anti-apoptotic effects, which is consistent with their H2O2 quenching capability in biological systems. These findings suggest that nanoceria can be used as an excellent antioxidant for controlling oxidative stress-induced pancreatic β-cell damage.
- ArticleLi K, Zhang YY, Jiang GY, Hou YJ, Zhang BW, Zhou QX, Wang XS.Chem Commun (Camb). 2015 May 07;51(37):7923-6.A piperazine-modified Crystal Violet was found to be able to selectively inactivate Gram-negative bacteria upon visible light irradiation but left Gram-positive bacteria less damaged, which can serve as a blueprint for the development of novel narrow-spectrum agents to replenish the current arsenal of photodynamic antimicrobial chemotherapy (PACT).
- ArticleEspindola S, Parra JL, Vázquez-Domínguez E.PeerJ. 2019;7:e7923.BACKGROUND: How species colonize new environments is still a fundamental question in ecology and evolution, assessable by evaluating range characteristics of invasive species. Here we propose a model approach to evaluate environmental conditions and species features to predict niche changes in non-equilibrium contexts. It incorporates potentially range-limiting processes (fundamental niche), hence allowing for better predictions of range shifts, differentiation of analog and non-analog conditions between the native and non-native (invaded) ranges, and identification of environmental conditions not currently available but likely in the future. We apply our approach with the worldwide invasive slider-turtle Trachemys scripta.
METHODS: We estimated the native and non-native realized niches of T. scripta and built its fundamental niche based on key features of the turtle's temperature physiological tolerance limits and survival-associated factors. We next estimated response functions adjusted to the physiological predictor variables and estimated habitat suitability values, followed by a comprehensive set of analyses and simulations to compare the environmental conditions occupied by T. scripta (at its native and non-native ranges).
RESULTS: Climatic space analysis showed that the T. scripta's non-native realized niche is 28.6% greater than the native one. Response curves showed that it does not use its entire range of temperature tolerances (density curves for native: 5.3-23.7 °C and non-native: 1.7-28.4 °C ranges). Whether considering the mean temperature of the warmest or the coldest quarter, it occupies a wider range of temperatures along its non-native distribution. Results of the response curves for worldwide (global) and across Mexico (regional) comparisons showed it occupies analog and non-analog conditions between its native and invaded ranges, exhibiting also unoccupied suitable climatic conditions.
DISCUSSION: We demonstrate that T. scripta occupies a wider subset of its fundamental niche along its non-native range (within its physiological tolerances), revealing that the species observed niche shift corresponds to a different subset of its fundamental niche (niche unfilling). We also identified suitable environmental conditions, globally and regionally, where the slider turtle could potentially invade. Our approach allows to accurately predict niche changes in novel or non-equilibrium contexts, which can improve our understanding about ecological aspects and geographic range boundaries in current and potential invasions. - ArticleUrbina JA, McKerrow JH.Antimicrob Agents Chemother. 2015 Dec;59(12):7923-4.
- ArticleBravo G, Duarte G, Cerda J, Castellucci H.Medwave. 2020 06 08;20(5):e7923.Objective: To determine whether Chilean elderly persons have higher rates of traffic incidents, resulting in death or injury, compared to non-older adults between 2008 and 2017.
Method: The databases of the National Traffic Safety Commission of the last ten years and the data of inhabitants according to the projections made by the National Statistics Institute were used. Effect measures and 95% confidence intervals were calculated.
Results: Older adults in Chile had 0.5 times the rate of suffering a traffic accident, 0.6 times the rate of injury, and 1.3 times the rate of dying in a traffic accident when compared against non-elderly adults. Antofagasta and Arica were the regions with the lowest and highest occurrence of death for the elderly, respectively. The leading causes of traffic accidents were the imprudence of the driver and pedestrian, which presented 1.6 and 2.6 times the death rate when compared against non-elderly adults. Of the main types of traffic accidents, only when the pedestrian was hit by a vehicle, the elderly had a higher occurrence of death (rate ratio: 2.4).
Conclusions: The elderly presented greater vulnerability to die in a traffic accident. Substantial differences are seen across different regions. Future research should address the characteristics of the users, the strategies that could help them to have better interaction, and promote health with a focus on road safety in the elderly. - ArticleBalkhi F, Nasir A, Zehra A, Riaz R.Cureus. 2020 May 02;12(5):e7923.Background The outbreak of Coronavirus (COVID-19) in Wuhan, China, which began in December 2019, evolved to become a global pandemic. The pandemic, along with the obvious health-related impact, also poses a serious threat to the psychological well-being of individuals and has resulted in significant behavioral changes. We aimed to describe the psycho-behavioral response to this crisis among the population of Karachi, Pakistan, in the month of March 2020. Methods A structured, self-administered questionnaire was constructed, based on previously conducted surveys, assessing the psychological impact and behavioral changes pertaining to COVID-19. Questionnaires were made available online, and were administered to any individual who was a resident of Karachi, during March 2020. Data were analyzed using Statistical Package for Social Sciences (SPSS) version 21.0 (IBM Corp., Armonk, NY) to identify possible risk factors for psychological and behavioral changes. The responses were compared based on gender, age, and level of education, to find possible statistical correlations using chi-square test. Results This research studied data from 400 participants residing in Karachi, Pakistan. The spread of the virus had resulted in subsequent development of fears in the target population, with the majority of the respondents feeling anxious on a daily basis (62.5%). The participants feared going to marketplaces (88.8%), were concerned for the health of their family members (94.5%), and felt under-confident with the current infection control measures (71%). Significantly elevated levels of fear were noted among people >35 years of age. They were more likely to fear for the safety of their health even at home (p=0.06). Meanwhile, increased levels of anxiety due to use of social media among people below 35 years had resulted in avoidance behaviors (p=0.04). There was a higher tendency for graduates to fear for the safety of their health, even at home (p<0.01). In addition, more than three-fourths of our participants had incorporated changes in their behavior to ensure their safety i.e. reduced physical contact (86.5%) and visits to healthcare facilities (74.5%), canceled plans (84.5%), and washing hands more often (87%). Conclusion Our study highlighted the increased anxiety levels that an individual experienced on a regular basis regarding their health, the health of their peers, certain avoidance behaviors as a result of the disease, and behavioral changes of the concerned population. Besides calling attention to this worrisome situation, we also tried to list possible solutions to avert any future distress that may ensue as a result. Hopefully, our study will help the concerned authorities to take measures in order to alleviate the psychological and behavioral impact of COVID-19.
- ArticleBosshard M, Gomez P.Sci Rep. 2024 04 04;14(1):7923.Stress arousal reappraisal (SAR) and stress-is-enhancing (SIE) mindset interventions aim to promote a more adaptive stress response by educating individuals about the functionality of stress. As part of this framework, an adaptive stress response is coupled with improved performance on stressful tasks. The goal of this meta-analysis is to evaluate the effectiveness of these interventions on task performance. The literature search yielded 44 effect sizes, and a random-effects model with Knapp-Hartung adjustment was used to pool them. The results revealed an overall small significant improvement in task performance (d = 0.23, p < 0.001). The effect size was significantly larger for mixed interventions (i.e., SAR/SIE mindset instructions combined with additional content, k = 5, d = 0.45, p = 0.004) than SAR-only interventions (k = 33, d = 0.22, p < 0.001) and SIE mindset-only interventions (k = 6, d = 0.18, p = 0.22) and tended to be larger for public performance tasks than cognitive written tasks (k = 14, d = 0.34, p < 0.001 vs. k = 30, d = 0.20, p = 0.002). Although SAR and SIE mindset interventions are not "silver bullets", they offer a promising cost-effective low-threshold approach to improve performance across various domains.
- ArticleAnselmino LE, Baglioni MV, Reynoso G, Rozados VR, Scharovsky OG, Rico MJ, Menacho-Márquez M.Sci Rep. 2023 05 16;13(1):7923.Drug repositioning explores the reuse of non-cancer drugs to treat tumors. In this work, we evaluated the effect of the combination of chloroquine and propranolol on colorectal and triple-negative breast cancers. Using as in vitro models the colorectal cancer cell lines HCT116, HT29, and CT26, and as triple-negative breast cancer models the 4T1, M-406, and MDA-MB-231 cell lines, we evaluated the effect of the drugs combination on the viability, apoptosis, clonogenicity, and cellular migratory capacity. To explore the in vivo effects of the combination on tumor growth and metastasis development we employed graft models in BALB/c, nude, and CBi mice. In vitro studies showed that combined treatment decreased cell viability in a dose-dependent manner and increased apoptosis. Also, we demonstrated that these drugs act synergically and that it affects clonogenicity and migration. In vivo studies indicated that this drug combination was effective on colorectal models but only partially on breast cancer. These results contributed to the search for new and safe treatments for colorectal and triple-negative carcinomas.
- ArticleZhou N, Yang L, Zhang B, Zhu S, Huo H, He J, Zu L, Song Z, Xu S.Cancer Med. 2023 04;12(7):7923-7931.OBJECTIVE: This study evaluated whether sublobar resection (sub-L) is non-inferior to lobectomy (L) for stage I (T1-T2aN0M0) small cell lung cancer (SCLC) regarding long-term overall survival (OS).
METHODS: Clinicopathological and prognostic data of patients with stage I (pT1-T2aN0M0) SCLC were retrieved. Kaplan-Meier curves and Breslow tests were performed for the assessment of OS. Propensity score matching (PSM) analysis was used to mediate the inherent bias of retrospective researches.
RESULTS: A total of 188 patients with stage I SCLC were included in this study after PSM. For resected stage I SCLC, surgery plus adjuvant therapy was related to a better OS compared with surgery only (p = 0.016). For resected stage I SCLC, no matter adjuvant therapy was performed or not, no significant difference was observed in long-term OS between the L and sub-L groups (p = 0.181). Further subgroup analysis demonstrated that the OS disadvantage of sub-L over L was not statistically significant for stage I SCLC patients underwent surgery only (p = 0.653), but also for the patients underwent surgery plus adjuvant therapy (p = 0.069). Moreover, in the subgroup analyses according to TNM stage (IA and IB), sex (male and female), and age (≥70 and <70 years), OS did not differ between the L and sub-L groups except in female patients (p = 0.008). Multivariate Cox regression analysis indicated that adjuvant therapy was positively associated with OS.
CONCLUSIONS: Surgery plus adjuvant therapy confers a better survival benefit than surgery only for stage I SCLC patients. However, as far as the range of surgical resection is concerned, sublobar resection may be non-inferior to lobectomy regarding OS. Our study could conduce to the development of optimal therapeutic strategies for stage I SCLC patients. Further validation is warranted in larger retrospective and prospective cohort studies. - ArticleTian J, Han Z, Song D, Peng Y, Xiong M, Chen Z, Duan S, Zhang L.Int J Nanomedicine. 2023;18:7923-7940.Exosomes are nano-sized membrane vesicles that transfer bioactive molecules between cells and modulate various biological processes under physiological and pathological conditions. By applying bioengineering technologies, exosomes can be modified to express specific markers or carry therapeutic cargo and emerge as novel platforms for the treatment of cancer, neurological, cardiovascular, immune, and infectious diseases. However, there are many challenges and uncertainties in the clinical translation of exosomes. This review aims to provide an overview of the recent advances and challenges in the translation of engineered exosomes, with a special focus on the methods and strategies for loading drugs into exosomes, the pros and cons of different loading methods, and the optimization of exosome production based on the drugs to be encapsulated. Moreover, we also summarize the current clinical applications and prospects of engineered exosomes, as well as the potential risks and limitations that need to be addressed in exosome engineering, including the standardization of exosome preparation and engineering protocols, the quality and quantity of exosomes, the control of drug release, and the immunogenicity and cytotoxicity of exosomes. Overall, engineered exosomes represent an exciting frontier in nanomedicine, but they still face challenges in large-scale production, the maintenance of storage stability, and clinical translation. With continuous advances in this field, exosome-based drug formulation could offer great promise for the targeted treatment of human diseases.
- ArticleWang L, Liu C, Bai R, Pan Y, Lei A.Chem Commun (Camb). 2013 Sep 18;49(72):7923-5.The first Ni-catalysed alkene isomerization of allylamides for the synthesis of enamides was demonstrated. Various substituted N-allylamides were found to be suitable substrates for this isomerization. Isotopic labelling experiments showed that it is an intramolecular hydrogen transfer process.
- ArticleChakrahari KK, Thakur A, Mondal B, Ramkumar V, Ghosh S.Inorg Chem. 2013 Jul 15;52(14):7923-32.We have synthesized and structurally characterized several dimetallaheteroborane clusters, namely, nido-[(Cp*Mo)2B4SH6], 1; nido-[(Cp*Mo)2B4SeH6], 2; nido-[(Cp*Mo)2B4TeClH5], 3; [(Cp*Mo)2B5SeH7], 4; [(Cp*Mo)2B6SeH8], 5; and [(CpW)2B5Te2H5], 6 (Cp* = η(5)-C5Me5, Cp = η(5)-C5H5). In parallel to the formation of 1-6, known [(CpM)2B5H9], [(Cp*M)2B5H9], (M = Mo, W) and nido-[(Cp*M)2B4E2H4] compounds (when M = Mo; E = S, Se, Te; M = W, E = S) were isolated as major products. Cluster 6 is the first example of tungstaborane containing a heavier chalcogen (Te) atom. A combined theoretical and experimental study shows that clusters 1-3 with their open face are excellent precursors for cluster growth reactions. As a result, the reaction of 1 and 2 with [Co2(CO)8] yielded clusters [(Cp*Mo)2B4H4E(μ3-CO)Co2(CO)4], 7-8 (7: E = S, 8: E = Se) and [(Cp*Mo)2B3H3E(μ-CO)3Co2(CO)3], 9-10 (9: E = S, 10: E = Se). In contrast, compound 3 under the similar reaction conditions yielded a novel 24-valence electron triple-decker sandwich complex, [(Cp*Mo)2{μ-η(6):η(6)-B3H3TeCo2(CO)5}], 11. Cluster 11 represents an unprecedented metal sandwich cluster in which the middle deck is composed of B, Co, and Te. All the new compounds have been characterized by elemental analysis, IR, (1)H, (11)B, (13)C NMR spectroscopy, and the geometric structures were unequivocally established by X-ray diffraction analysis of 1, 2, 4-7, and 9-11. Furthermore, geometries obtained from the electronic structure calculations employing density functional theory (DFT) are in close agreement with the solid state structure determinations. We have analyzed the discrepancy in reactivity of the chalcogenato metallaborane clusters in comparison to their parent metallaboranes with the help of a density functional theory (DFT) study.
- ArticleKohli J, Ge C, Fitsiou E, Doepner M, Brandenburg SM, Faller WJ, Ridky TW, Demaria M.Nat Commun. 2022 12 23;13(1):7923.Human melanocytic nevi (moles) result from a brief period of clonal expansion of melanocytes. As a cellular defensive mechanism against oncogene-induced hyperplasia, nevus-resident melanocytes enter a senescent state of stable cell cycle arrest. Senescent melanocytes can persist for months in mice and years in humans with a risk to escape the senescent state and progress to melanoma. The mechanisms providing prolonged survival of senescent melanocytes remain poorly understood. Here, we show that senescent melanocytes in culture and in nevi express high level of the anti-apoptotic BCL-2 family member BCL-W but remain insensitive to the pan-BCL-2 inhibitor ABT-263. We demonstrate that resistance to ABT-263 is driven by mTOR-mediated enhanced translation of another anti-apoptotic member, MCL-1. Strikingly, the combination of ABT-263 and MCL-1 inhibitors results in synthetic lethality to senescent melanocytes, and its topical application sufficient to eliminate nevi in male mice. These data highlight the important role of redundant anti-apoptotic mechanisms for the survival advantage of senescent melanocytes, and the proof-of-concept for a non-invasive combination therapy for nevi removal.
- ArticleTakatsuki H, Imamura M, Mori T, Atarashi R.Sci Rep. 2022 05 13;12(1):7923.Each prion strain has its own characteristics and the efficacy of anti-prion drugs varies. Screening of prion disease therapeutics is typically evaluated by measuring amounts of protease-resistant prion protein (PrP-res). However, it remains unclear whether such measurements correlate with seeding activity, which is evaluated by real-time quaking-induced conversion (RT-QuIC). In this study, the effects of anti-prion compounds pentosan polysulfate (PPS), Congo red, and alprenolol were measured in N2a58 cells infected with Fukuoka-1 (FK1) or 22L strain. The compounds abolished PrP-res and seeding activity, except for N2a58/FK1 treated with PPS. Interestingly, the seeding activity of N2a58/FK1, which was reduced in the presence of PPS, was not lost and remained at low levels. However, upon removal of PPS, both were gradually restored to their original levels. These results indicate that low-level persistent prion infection keeping measurable seeding activity is induced by PPS in a strain-dependent manner. Furthermore, for protein misfolding cyclic amplification (PMCA), the anti-prion effect of PPS decreased in FK1 compared to 22L, suggesting that the differences occur at the level of the direct conversion. Our findings demonstrate that the advantages of RT-QuIC and PMCA can be exploited for more accurate assessment of therapeutic drug screening, reflecting strain differences.
- ArticleLiu C, Chen F, Han X, Xu H, Wang Y.Int J Clin Exp Pathol. 2014;7(11):7923-30.OBJECTIVE: This study is to investigate the hepatitis B virus (HBV)-induced tubular epithelial-myofibroblast transdifferentiation (TEMT) in human renal tubular epithelial HK-2 cells.
METHODS: Human proximal tubular epithelial HK-2 cells were cultured. These HK-2 cells were divided into 4 groups: the blank control group, the vector control group, the HBV-transfected group, and the inhibitor-treated group. Transfection was performed with lipofectamine. Measurements of hepatitis B e antigen (HBeAg) and hepatitis B surface antigen (HBsAg) in culture supernatant were determined by electrochemiluminescence immunoassay. Immunocytochemical staining, reverse transcription PCR (RT-PCR), and Western blot analysis were performed to detect the mRNA and protein expression levels, respectively.
RESULTS: The immunocytochemical staining showed that, the expression level of E-cadherin was dramatically decreased, while the α-SMA expression level was significantly elevated, in HBV-transfected HK-2 cells. The mRNA level of TGF-β1 and the protein level of p-p38 mitogen-activated protein kinase (MAPK) were elevated in HK-2 cells transfected with HBV. When treated with the p38 MAPK-specific inhibitor, the activation of p38 MAPK was eliminated in HBV-transfected HK-2 cells. In addition, the altered expression levels of E-cadherin and α-SMA, the increased contents of HBeAg and HBsAg in the culture supernatant, as well as the morphological changes of TEMT in HBV-transfected HK-2 cells, were all reversed by the inhibiter treatment.
CONCLUSION: HBV transfection could induce TEMT in HK-2 cells, which was mediated by the TGF-β1/p38 MAPK pathway. These findings provide new insights into the prevention and treatment of HBV-associated glomerulonephritis. - ArticleMüller JW.Heliyon. 2021 Sep;7(9):e07923.This paper deals with the fundamental relation and importance of education, intuition and creativity as innovation drivers. In this context, the central questions arise what is meant by "education" and what creative roles do "education" and "intuition" play in the emergence of the new? The modern concept of education developed essentially on the ideas of humanism and enlightenment, which found their roots in antiquity. In the current understanding, education becomes a continuous adaptation and development. The human being is a dynamic entity, which is both influenced by the respective environment, and at the same time can itself change and influence this environment. Education generates and imparts knowledge throughout life. For perceiving and judging our environment and life, there is besides rationality also a world of feelings, emotions and heart. Based on the perception and judgment model of Carl Gustav Jung, intuition and especially intuitive competence are addressed as central influencing factors of education and creativity. Intuitive perception opens us up to new knowledge and opens up a multi-level spectrum of creativity. As the driver of innovation, education becomes the link between conscious rationality and unconscious emotionality. A rational problem analysis should be followed by an intuitive solution finding, an instinctive and emotional grasp of future market opportunities. In this context, the inspirational intuition plays a particularly important role. At the end of the paper there is a critical appreciation of the innovative possibilities of mankind. It is at the same time an exhortation for a preserving and integrative creative work. Our creative power gives us creative potential and enables us to change and shape the world over and over again.
- ArticleElfekih S, Tay WT, Polaszek A, Gordon KHJ, Kunz D, Macfadyen S, Walsh TK, Vyskočilová S, Colvin J, De Barro PJ.Sci Rep. 2021 04 12;11(1):7923.The Bemisia cassava whitefly complex includes species that cause severe crop damage through vectoring cassava viruses in eastern Africa. Currently, this whitefly complex is divided into species and subgroups (SG) based on very limited molecular markers that do not allow clear definition of species and population structure. Based on 14,358 genome-wide SNPs from 62 Bemisia cassava whitefly individuals belonging to sub-Saharan African species (SSA1, SSA2 and SSA4), and using a well-curated mtCOI gene database, we show clear incongruities in previous taxonomic approaches underpinned by effects from pseudogenes. We show that the SSA4 species is nested within SSA2, and that populations of the SSA1 species comprise well-defined south-eastern (Madagascar, Tanzania) and north-western (Nigeria, Democratic Republic of Congo, Burundi) putative sub-species. Signatures of allopatric incipient speciation, and the presence of a 'hybrid zone' separating the two putative sub-species were also detected. These findings provide insights into the evolution and molecular ecology of a highly cryptic hemipteran insect complex in African, and allow the systematic use of genomic data to be incorporated in the development of management strategies for this cassava pest.
- ArticleHikichi S, Sugimoto M, Tomita M.Sci Rep. 2020 05 13;10(1):7923.Predictions of distant cancer metastasis based on gene signatures are studied intensively to realise precise diagnosis and treatments. Gene selection i.e. feature selection is a cornerstone to both establish accurate predictions and understand underlying pathologies. Here, we developed a simple but robust feature selection method using a correlation-centred approach to select minimal gene sets that have both high predictive and generalisation abilities. A multiple logistic regression model was used to predict 5-year metastases of patients with breast cancer. Gene expression data obtained from tumour samples of lymph node-negative breast cancer patients were randomly split into training and validation data. Our method selected 12 genes using training data and this showed a higher area under the receiver operating characteristic curve of 0.730 compared with 0.579 yielded by previously reported 76 genes. The signature with the predictive model was validated in an independent dataset, and its higher generalization ability was observed. Gene ontology analyses revealed that our method consistently selected genes with identical functions which frequently selected by the 76 genes. Taken together, our method identifies fewer gene sets bearing high predictive abilities, which would be versatile and applicable to predict other factors such as the outcomes of medical treatments and prognoses of other cancer types.