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Unveiling the distinctive traits of functional rye centromeres:minisatellites, retrotransposons, and R-loop formation

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Science China Life Sciences 2024年第9期67卷 1989-2002页

作者： Chang Liu Shulan Fu Congyang Yi Yang Liu Yuhong Huang Xianrui Guo Kaibiao Zhang Qian Liu James A.Birchler Fangpu Han State Key Laboratory of Plant Cell and Chromosome Engineering Institute of Genetics and Developmental Biology Chinese Academy of Sciences University of Chinese Academy of Sciences Key Laboratory for Plant Genetics and Breeding Sichuan Agricultural University division of biological Science University of Missouri

Centromeres play a vital role in cellular division by facilitating kinetochore assembly and spindle attachments. Despite their conserved functionality, centromeric DNA sequences exhibit rapid evolution, presenting diverse sizes and compositions across species. The functional significance of rye centromeric DNA sequences, particularly in centromere identity, remains unclear. In this study, we comprehensively characterized the sequence composition and organization of rye centromeres. Our findings revealed that these centromeres are primarily composed of long terminal repeat retrotransposons(LTR-RTs) and interspersed minisatellites. We systematically classified LTR-RTs into five categories, highlighting the prevalence of younger CRS1, CRS2, and CRS3 of CRSs(centromeric retrotransposons of Secale cereale) were primarily located in the core centromeres and exhibited a higher association with CENH3 nucleosomes. The minisatellites, mainly derived from retrotransposons, along with CRSs, played a pivotal role in establishing functional centromeres in rye. Additionally, we observed the formation of R-loops at specific regions of CRS1, CRS2, and CRS3, with both rye pericentromeres and centromeres exhibiting enrichment in R-loops. Notably, these R-loops selectively formed at binding regions of the CENH3 nucleosome in rye centromeres, suggesting a potential role in mediating the precise loading of CENH3 to centromeres and contributing to centromere specification. Our work provides insights into the DNA sequence composition, distribution, and potential function of R-loops in rye centromeres. This knowledge contributes valuable information to understanding the genetics and epigenetics of rye centromeres, offering implications for the development of synthetic centromeres in future plant modifications and beyond.

关键词： centromere LTR-RTs minisatellite rye R-loop

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Characteristics and trends of pediatric firepit burns: insights for prevention and safety

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World Journal of Pediatric Surgery 2024年第1期7卷 54-58页

作者： Maria Fazal Charbel Chidiac Raheel Ahmad Oussama Issa Erica Hodgman Alejandro V Garcia Johns Hopkins School of Medicine BaltimoreMarylandUSA Department of Surgery Division of Pediatric SurgeryJohns Hopkins School of MedicineBaltimoreMarylandUSA division of the biological Sciences University of ChicagoChicagoIllinoisUSA School of Medicine American University of BeirutBeirutLebanon

Introduction As fire pits grow in popularity,so do the associated burn *** study examines pediatric fire pit burns characteristics to raise awareness and promote safety *** We conducted a retrospective review of pediatric patients(<21 years)with firepit burns at a tertiary care hospital from 2016 to *** Eighty-four patients were identified,of whom 70.2%were male,with a median age of 62 *** median percent total body surface area burned was 2%(interquartile range(IQR)=1-4).Thirty-five(41.7%)patients were admitted and 7(8.3%)underwent *** and trunk burns had the highest grafting rates(66%and 33%,respectively).The hands(41.7%)and the lower extremities(27.4%)were the most frequently burned body *** leading causes of burns were ashes/hot coals(34.5%),flames(31.0%),and direct contact(25.0%),often resulting from falling into the fire(59.5%)or running or playing in activities near it(26.2%).Thirty-five(41.7%)were admitted for inpatient management,while 49(58.3%)were treated as ***(13.2%)underwent at least one reconstructive surgery,7(8.4%)had at least one rehabilitation visit,and 65(77.4%)had follow-up clinic *** median length of stay was 2 days(IQR=1.0-3.5).The peak months for burns were from August through October(n=40,46.0%),with an increase observed from 10 cases in 2016to 20 cases in *** Given the significant proportion of firepit burns resulting from unsafe fire behaviors,it is crucial that caretakers are aware of proper firepit safety *** ofevidence Il.

关键词： burns admitted prevention

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Serum bile acid and unsaturated fatty acid profiles of non-alcoholic fatty liver disease in type 2 diabetic patients

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World Journal of Diabetes 2024年第5期15卷 898-913页

作者： Su-Su Feng Si-Jing Wang Lin Guo Pan-Pan Ma Xiao-Long Ye Ming-Lin Pan Bo Hang Jian-Hua Mao Antoine M Snijders Yi-Bing Lu Da-Fa Ding Department of Endocrinology The Second Affiliated Hospital of Nanjing Medical UniversityNanjing 210011Jiangsu ProvinceChina biological Systems and Engineering division Lawrence Berkeley National LaboratoryBerkeleyCA 94720United States

BACKGROUND The understanding of bile acid(BA)and unsaturated fatty acid(UFA)profiles,as well as their dysregulation,remains elusive in individuals with type 2 diabetes mellitus(T2DM)coexisting with non-alcoholic fatty liver disease(NAFLD).Investigating these metabolites could offer valuable insights into the pathophy-siology of NAFLD in *** To identify potential metabolite biomarkers capable of distinguishing between NAFLD and *** A training model was developed involving 399 participants,comprising 113 healthy controls(HCs),134 individuals with T2DM without NAFLD,and 152 individuals with T2DM and *** validation encompassed 172 *** patients were divided based on liver fibrosis *** analytical approach employed univariate testing,orthogonal partial least squares-discriminant analysis,logistic regression,receiver operating characteristic curve analysis,and decision curve analysis to pinpoint and assess the diagnostic value of serum *** Compared to HCs,both T2DM and NAFLD groups exhibited diminished levels of specific *** UFAs,particular acids exhibited a positive correlation with NAFLD risk in T2DM,while theω-6:ω-3 UFA ratio demonstrated a negative *** ofα-linolenic acid andγ-linolenic acid were linked to significant liver fibrosis in *** validation cohort substantiated the predictive efficacy of these biomarkers for assessing NAFLD risk in T2DM *** This study underscores the connection between altered BA and UFA profiles and the presence of NAFLD in individuals with T2DM,proposing their potential as biomarkers in the pathogenesis of NAFLD.

关键词： Bile acid Non-alcoholic fatty liver disease Type 2 diabetes mellitus Unsaturated fatty acid

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Hydrazone derivatives in agrochemical discovery and development

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Chinese Chemical Letters 2024年第3期35卷 104-113页

作者： Ya Wang Shengxin Guo Lijiao Yu Wei Zhang Zhenchao Wang Yonggui Robin Chi Jian Wu National Key Laboratory of Green Pesticide Key Laboratory of Green Pesticide and Agricultural BioengineeringMinistry of EducationGuizhou UniversityHuaxi DistrictGuiyang 550025China division of Chemistry&biological Chemistry School of Physical&Mathematical SciencesNanyang Technological UniversitySingapore 637371Singapore

As a common active substructure,hydrazone has attracted increasing attention and is considered essential for pesticide *** has been widely regarded as a potential insecticidal,antibacterial,antifungal,antiviral,and herbicidal *** this review,we highlight the pesticide versatility of hydrazone fragments and provide a comprehensive summary of the biological activity,structure-activity relationship analysis(SARs),and primary mechanism of their *** profile is expected to give valuable information for discovering new pesticides.

关键词： Hydrazone Agrochemicals biological activity Structure-activity relationship Preliminary mechanism

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Carbon sequestration in a bamboo plantation:a case study in a Mediterranean area

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Journal of Forestry Research 2024年第3期35卷 231-238页

作者： Tommaso Chiti Emanuele Blasi Maria Vincenza Chiriaco Department for Innovation in biological Agro-Food and Forest Systems(DIBAF)University of TusciaVia San C.De Lellis snc01100 ViterboItaly Foundation Euro-Mediterranean Center on Climate Change(CMCC) Division on Climate Change Impacts on AgricultureForests and Ecosystem Services(IAFES)Via Garbini5101100 ViterboItaly

In the Mediterranean region,despite bamboo being an alien species that can seriously alter plant and ani-mal biocoenosis,the area occupied by bamboo plantations continues to increase,especially for the purpose to seques-ter carbon(C).However,the C dynamics in the soil-plant system when bamboo is grown outside its native area are poorly *** we investigated the C mitigation potential of the fast-growing Moso bamboo(Phyllostachys edulis)introduced in Italy for climate-change *** analyzed aboveground(AGB)and belowground(as root/shoot ratio)biomass,litter and soil organic C(SOC)at O-15-and 15-30-cm depths in a 4-year-old bamboo plantation in comparison with the former annual cropland on which the bamboo was *** have an idea of the maximum C stored at an ecosystem level,a natural forest adjacent the two sites was also *** the plantation,C accumulation as AGB was stimulated,with 14.8±3.1 Mg C ha^(-1) stored in 3 years;because thinning was done to remove culms from the first year,the mean sequestration rate was 4.9 Mg C ha^(-1) a^(-1).The sequestration rates were high but comparable to other fast-growing tree species in Italy(e.g.,Pinus nigra).SOC was significantly higher in the bamboo plantation than in the cropland only at the 0-15 cm depth,but SOC stock did not *** 4 years were not enough time for a clear increase in SOC,or the high nutrient uptake by bamboos might have depleted the soil nutrients,thus inhibiting the soil organic matter formation by *** comparison,the natural forest had significantly higher C levels in all the *** C dynamics at an ecosystem level,the bamboo plantation on the former annual cropland led to substantial C removal from the atmosphere(about 12 Mg C ha^(-1) a^(-1)).However,despite the promising C sequestration rates by bamboo,its introduction should be carefully considered due to potential ecological problems caused by this species in overexploited environments such as the Med

关键词： Carbon sequestration Climate change mitigation Mediterranean area Moso bamboo Soil organic carbon

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Impacts of Defoliation on Morphological Characteristics and Non-Structural Carbohydrates of Populus talassica × Populus euphratica Seedlings

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Phyton-International Journal of Experimental Botany 2024年第7期93卷 1689-1703页

作者： Mengxu Su Zhanjiang Han Zhen Zhao Xiaofeng Wu Jiaju Wu College of Life Science and Technology Tarim UniversityXinjiang Production and Construction Corps Key Laboratory of Protection and Utilization of Biological Resources in Tarim BasinAlar843300China Agricultural Science Research Institute of the First division Xinjiang Production and Construction CorpsAlar843300China

Leaves are important‘source’organs that synthesize organic matter,providing carbon sources for plant ***,we used Populus talassica×Populus euphratica,the dominant species in ecological and timber forests,to simulate carbon limitation through artiﬁcial 25%,50%,and 75%defoliation treatments and explore the effects on root,stem,and leaf morphology,biomass accumulation,and carbon allocation *** the 60th d after treat-ment,under 25%defoliation treatment,the plant height,speciﬁc leaf weight,root surface area and volume,and concentrations of non-structural carbohydrates in stem and root were signiﬁcantly increased by 9.13%,20.00%,16.60%,31.95%,5.12%,and 9.34%,respectively,relative to the *** was no signiﬁcant change in the growth indicators under 50%defoliation treatment,but the concentrations of non-structural carbohydrates in the leaf and stem signiﬁcantly decreased,showing mostly a negative correlation between *** opposite was observed in the *** 75%defoliation treatment,the plant height,ground diameter,leaf number,single leaf area,root,stem,and total biomass were signiﬁcantly reduced by 14.15%,10.24%,14.86%,11.31%,11.56%,21.87%,and 16.82%,respectively,relative to the *** concentrations of non-structural carbohydrates in various organs were signiﬁcantly reduced,particularly in the consumption of the starch concentrations in the stem and *** results indicated that carbon allocation strategies can be adjusted to increase the con-centration of non-structural carbohydrates in root and meet plant growth needs under 25%and 50%***,75%defoliation signiﬁcantly limited the distribution of non-structural carbohydrates to roots and stems,reduced carbon storage,and thus inhibited plant ***-induced carbon limitation altered the carbon allocation pattern of ***×***,and the relationship between carbon reserves in roots and tree growth recovery after defoliation was *** study

关键词： Populus talassica×Populus euphratica defoliation carbon limitation carbon allocation non-structural carbohydrates

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Recent applications of macrocycles in supramolecular catalysis

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Chinese Chemical Letters 2024年第4期35卷 132-141页

作者： Conghui Wang Lei Xu Zhenhua Jia Teck-Peng Loh College of Advanced Interdisciplinary Science and Technology Henan University of TechnologyZhengzhou 450001China division of Chemistry and biological Chemistry School of Chemistry Chemical Engineeringand BiotechnologyNanyang Technological UniversitySingapore 637371Singapore Institute of Advanced Synthesis School of Chemistry and Molecular Engineering Nanjing Tech UniversityNanjing 211816China

Numerous supramolecular macrocycles have been utilized for developing catalysts by exploiting their specific molecular recognition and ability to form inclusion complexes through noncovalent interactions. The cyclic structure and modified functional groups of these macrocycles can influence substrate and transition state stability, as well as reaction selectivity. The inner cavities of these macrocycles are particularly beneficial, as they enable substrates to adopt preorganized arrangements and serve as versatile platforms for highly efficient supramolecular catalytic systems. This minireview provides an overview of recent advancements in supramolecular catalysis using various macrocycles, such as crown ethers, cyclodextrins,calixarenes, pillararenes, cucurbiturils, and other novel macrocycles.

关键词： Supramolecular catalysis Macrocycle Host-guest interactions Confinement Selectivity

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Engineered stem cells by emerging biomedical stratagems

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Science Bulletin 2024年第2期69卷 248-279页

作者： Jinglin Wang Xiaoxuan Zhang Hanxu Chen Haozhen Ren Min Zhou Yuanjin Zhao Department of Vascular Surgery.Nanjing Drum Tower Hospital Affliated Hospital of Medical SchoolNanjing UniversityNanjing 210008China division of Hepatobiliary Surgery and Transplantation Surgery Department of General SurgeryNanjing Drum Tower HospitalSchool of Biological Science and Medical EngineeringSoutheast UniversityNanjing 210096China Shenzhen Research Institute Southeast UniversityShenzhen 518038China

Stem cell therapy holds immense potential as a viable treatment for a widespread range of intractable *** the safety of stem cell transplantation having been demonstrated in numerous clinical trials,various kinds of stem cells are currently utilized in medical *** the achievements,the therapeutic benefits of stem cells for diseases are limited,and the data of clinical researches are *** optimize tthe effectiveness of stem cells,engineering approaches have been developed to enhance their inherent abilities and impart them with new functionalities,paving the way for the next generation of stem cell *** review offers a detailed analysis of engineered stem cells,including their clinical applications and potential for future *** begin by briefly introducing the recent advances in the production of stem cells(induced pluripotent stem cells(ipsCs),embryonic stem cells(ESCs),mesenchymal stem cells(MSCs)and hematopoietic stem cells(HSCs).Furthermore,we present the latest developments of engineered strategies in stem cells,including engineered methods in molecular biology and biomaterial fields,and their application in biomedical ***,we summarize the current obstacles and suggest future prospects for engineered stem cells in clinical translations and biomedical applications.

关键词： Stem cells Genetic modification Biomaterials Microfluidics Organ-on-a-chip Bioprinting

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Changes in Metabolites and Allelopathic Effects of Non-Pigmented and Black-Pigmented Lowland Indica Rice Varieties in Phosphorus Deficiency

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Rice science 2024年第4期31卷 434-448,I0025,I0026页

作者： Liyana SARA Sompop SAEHENG Panupong PUTTARAK Lompong KLINNAWEE division of biological Science Faculty of SciencePrince of Songkla UniversitySongkhla 90110Thailand division of Health and Applied Sciences Faculty of SciencePrince of Songkla UniversitySongkhla 90110Thailand Plant Cell and Physiology for Sustainable Agriculture Research Unit Faculty of SciencePrince of Songkla UniversitySongkhla 90110Thailand Department of Pharmacognosy and Pharmaceutical Botany Faculty of Pharmaceutical SciencesPrince of Songkla UniversitySongkhla 90110Thailand Phytomedicine and Pharmaceutical Biotechnology Excellence Center Prince of Songkla UniversitySongkhla 90110Thailand

Phosphorus(P) levels alter the allelopathic activity of rice seedlings against lettuce seeds. In this study, we investigated the effect of P deficiency on the allelopathic potential of non-pigmented and pigmented rice varieties. Rice seedlings of the white variety Khao Dawk Mali(KDML105, non-pigmented) and the black varieties Jao Hom Nin(JHN, pigmented) and Riceberry(RB, pigmented) were cultivated under high P(HP) and low P(LP) conditions. Morphological and metabolic responses to P deficiency were investigated. P deficiency inhibited shoot growth but promoted root growth of rice seedlings in all three varieties. Moreover, P deficiency led to decreased cytosolic phosphate(Pi) and total P concentrations in both shoot and root tissues. The subsequent reduction in internal P concentration enhanced the accumulation of phenolic compounds in both shoot and root tissues of the seedlings. Subsequently, allelopathy-based inter-and intra-specific interactions were assessed using water extracts from seedlings of the three varieties grown under HP and LP conditions. These extracts were tested on seeds of lettuce, the weed Dactyloctenium aegyptium, and the same rice variety. The shoot and root extracts from P-deficient seedlings reduced the germination of all recipient plants. Specifically, the shoot extract from P-deficient KDML105 seedlings reduced the germination index(GI) of lettuce seeds to 1%, while those from P-deficient RB and JHN seedlings produced GIs of 32% and 42%, respectively. However, when rice seeds were exposed to their own LP shoot and root extracts, their GIs increased up to 4-fold, compared with the HP extracts. Additionally, the shoot extracts from P-deficient plants also stimulated the germination of D. aegyptium by about 2–3-fold, whereas the root extracts did not have this effect. Therefore, P starvation led to the accumulation and exudation of phenolics in the shoots and roots of rice seedlings, altering their allelopathic activities. To adapt to P defici

关键词： phosphorus deficiency non-pigmented and black-pigmented rice phenolics extract allelopathy

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Elucidating regulatory processes of intense physical activity by multi-omics analysis

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Military Medical Research 2024年第4期 479-499页

作者： Ernesto S.Nakayasu Marina A.Gritsenko Young-Mo Kim Jennifer E.Kyle Kelly G.Stratton Carrie D.Nicora Nathalie Munoz Kathleen M. Navarro Daniel Claborne Yuqian Gao Karl K.Weitz Vanessa L. Paurus Kent J. Bloodsworth Kelsey A. Allen Lisa M. Bramer Fernando Montes Kathleen A. Clark Grant Tietje Justin Teeguarden Kristin E.Burnum-Johnson biological Sciences division Pacific Northwest National Laboratory Environmental and Molecular Sciences division Pacific Northwest National Laboratory Centers for Disease Control and Prevention National Institute for Occupational Safety and Health Western States Division Computational Analytics division Pacific Northwest National Laboratory National Security Directorate Pacific Northwest National Laboratory Los Angeles County Fire Department Centers for Disease Control and Prevention National Institute for Occupational Safety and Health Respiratory Health Division Environmental and Molecular Toxicology Oregon State University

Background: Physiological and biochemical processes across tissues of the body are regulated in response to the high demands of intense physical activity in several occupations, such as firefighting, law enforcement, military, and sports. A better understanding of such processes can ultimately help improve human performance and prevent illnesses in the work ***: To study regulatory processes in intense physical activity simulating real-life conditions, we performed a multi-omics analysis of 3 biofluids(blood plasma, urine, and saliva) collected from 11 wildland firefighters before and after a 45 min, intense exercise regimen. Omics profiles post-vs. pre-exercise were compared by Student's t-test followed by pathway analysis and comparison between the different omics ***: Our multi-omics analysis identified and quantified 3835 proteins, 730 lipids and 182 metabolites combining the 3 different types of samples. The blood plasma analysis revealed signatures of tissue damage and acute repair response accompanied by enhanced carbon metabolism to meet energy demands. The urine analysis showed a strong, concomitant regulation of 6 out of 8 identified proteins from the renin-angiotensin system supporting increased excretion of catabolites, reabsorption of nutrients and maintenance of fluid balance. In saliva, we observed a decrease in 3 pro-inflammatory cytokines and an increase in 8 antimicrobial peptides. A systematic literature review identified 6 papers that support an altered susceptibility to respiratory ***: This study shows simultaneous regulatory signatures in biofluids indicative of homeostatic maintenance during intense physical activity with possible effects on increased infection susceptibility, suggesting that caution against respiratory diseases could benefit workers on highly physical demanding jobs.

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