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THE PREDICTION ACCURACY OF 1H AND 13C NMR CHEMICAL SHIFTS OF COUMARIN DERIVATIVES BY CHEMO/BIOINFORMATICS METHODS 化学/生物信息学方法预测香豆素衍生物1h和13c核磁共振化学位移的准确性
D. Bešlo, M. Molnár, D. Agić, S. Roca, B. Lučić
In plant biochemistry and physiology, coumarins are known as antioxidants, enzyme inhibitors and precursors of toxic substances. Nuclear magnetic resonance (NMR) spectra are primary sources of molecular structural data. NMR provides detailed information about the local environment of the atom which can be used to determine the atomic connectivity, stereochemistry, and molecular conformation. For many years the molecular structure has been determined by NMR spectroscopy and chemical shifts are determined manually with the help of computer programs. However, recent progress in computational chemistry and chemo/bioinformatics opened the possibility for the prediction of chemical shifts (especially those of 1H and 13C nuclei) of new chemicals. We analyzed the accuracy of three available chemoinformatics methods developed for the prediction of 1H and 13C chemical shifts based on deep neural networks CASCADE [1], an older prediction method based on classical neural networks NMRshiftDB [2,3], and group-contribution method in ChemDraw [4]. The mean absolute errors (MAEs) in the prediction of NMR shifts of four newly synthesized coumarins [5] by CASCADE, NMRshiftDB and ChemDraw are (respectively) 0.39, 0.65 and 0.32 ppm for 1H, and 1.5, 6.5 and 2.3 ppm for 13C atoms, shoving relatively big differences between these prediction methods.
在植物生物化学和生理学中,香豆素被认为是抗氧化剂、酶抑制剂和有毒物质的前体。核磁共振波谱是分子结构数据的主要来源。核磁共振提供了有关原子局部环境的详细信息,可用于确定原子连通性,立体化学和分子构象。多年来,分子结构一直是通过核磁共振波谱法确定的,化学位移是在计算机程序的帮助下人工确定的。然而,计算化学和化学/生物信息学的最新进展为预测新化学物质的化学位移(特别是1H和13C核的化学位移)开辟了可能性。我们分析了基于深度神经网络CASCADE[1]、基于经典神经网络NMRshiftDB[2,3]的较旧预测方法以及ChemDraw[4]中的群贡献方法开发的三种可用化学信息学方法的准确性。CASCADE、NMRshiftDB和ChemDraw预测4种新合成香豆素[5]1H核磁共振位移的平均绝对误差(MAEs)分别为0.39、0.65和0.32 ppm, 13C原子预测的平均绝对误差分别为1.5、6.5和2.3 ppm,预测方法之间差异较大。
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引用次数: 0
ANTIBIOFILM ACTIVITY OF SELECTED PLANT SPECIES 选定植物的抗生物膜活性
Jelena N. Terzić, M. Stanković, O. Stefanović
Bacterial biofilm is a complex community of bacterial cells enclosed in a polymer matrix and attached to a biotic or abiotic substrate. In this living form the bacteria are more resistant to antimicrobial agents than in the form of planktonic cells. Biofilm is a common cause of chronic infections in humans, so due to the growing resistance to antibiotics, alternative methods for controlling infections using medicinal plants have been proposed. In this study, the antibiofilm activity of ethanol and acetone extracts of plants Lamium album, Achillea millefolium and Agrimonia eupatoria against eight clinical isolates of human pathogenic bacteria was examined. Inhibition of biofilm formation was demonstrated using the crystal violet test and the effect on metabolic activity was confirmed by the use of resazurin dye test. Ethanol extract of L. album showed the greatest activity against P. aeruginosa (PA9) at a concentration of 20 mg/ml (> 80% of inhibition), while acetone extract acted at a concentration of 5 mg/ml (≥ 18%) against Klebsiella sp. (K9). At a concentration of 10 mg/ml, the ethanol extract of A. millefolium was effective against E. coli (E16) and P. aeruginosa (PA8) (> 70%), while the acetone extract was effective at 2.5 mg/ml (> 80%) against E. coli (E16). Ethanol and acetone extracts of A. eupatoria were effective at a concentration of 10 mg/ml (> 50%) against E. coli (E16). The antibiofilm activity of the tested plant extracts on certain clinical isolates indicates their great potential in the treatment of infections caused by biofilm-producing bacteria.
细菌生物膜是一种复杂的细菌细胞群落,包裹在聚合物基质中,附着在生物或非生物基质上。在这种活的形式下,细菌比浮游细胞形式下的细菌对抗菌剂更有抵抗力。生物膜是人类慢性感染的常见原因,因此由于对抗生素的耐药性日益增强,人们提出了利用药用植物控制感染的替代方法。本实验研究了植物千叶阿基那(Lamium album)、千叶阿基那(Achillea millefolium)和羊毛草(Agrimonia eupatoria)的乙醇和丙酮提取物对8种临床分离的人致病菌的抗菌活性。用结晶紫试验证实了其对生物膜形成的抑制作用,用瑞祖林染料试验证实了其对代谢活性的影响。乙醇提取物对铜绿假单胞菌(P. aeruginosa, PA9)的抑制率为20 mg/ml(> 80%),丙酮提取物对克雷伯氏菌(Klebsiella sp., K9)的抑制率为5 mg/ml(≥18%)。在浓度为10 mg/ml时,千叶乙醇提取物对大肠杆菌(E16)和铜绿假单胞菌(PA8)的抑制效果大于70%,而在浓度为2.5 mg/ml时,丙酮提取物对大肠杆菌(E16)的抑制效果大于80%。乙醇和丙酮提取物浓度为10 mg/ml(> 50%)时,对大肠杆菌(E16)有较好的抑制作用。所测试的植物提取物对某些临床分离物的抗生物膜活性表明它们在治疗由产生生物膜的细菌引起的感染方面具有很大的潜力。
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引用次数: 1
SYNTHESIS AND BIOLOGICAL ACTIVITY OF THE NEW PINCER TYPE RUTHENIUM(III) COMPLEX 新型钳型钌(iii)配合物的合成及生物活性研究
Pub Date : 2021-01-01 DOI: 10.46793/iccbi21.316rs
Ana Rilak Simović, D. Lazić, Milica Međedović, D. Ćoćić, B. Petrović
We synthesized and characterized the ruthenium(III) pincer-type complex [RuCl3(H2Lt-Bu] (H2Lt- Bu = 2,6-bis(5-tert-butyl-1H-pyrazol-3-yl)pyridine, 1) by elemental analysis, IR and UV-Vis spectroscopy, and mass spectrometry (MS) method ESI Q-TOF. For comparison reason, we also studied ruthenium(III) terpyridine complexes of the general formula [Ru(N-N-N)Cl3] where N-N-N = 4′-chloro- terpyridine (Cl-tpy; 2) or 4′-chlorophenyl-terpyridine (Cl-Ph-tpy; 3). Kinetic study of the substitution reactions of 1–3 with biomolecules showed that the rate constants depend on the properties of the spectator ligand and the nature of the entering nucleophile. To gain further insight into the reactivity of ruthenium complexes with potential biological targets, we examined the interactions of 1 – 3 with DNA and HSA. The DNA/HSA binding study showed that in comparison to complex 1 (bis– pyrazolylpyridine), the other two (2 and 3) terpyridine complexes had a slightly better binding affinity to calf thymus DNA (CT DNA), while in the case of human serum albumin (HSA), complex 1 exhibited the most strong quenching ability.
采用元素分析、红外光谱、紫外-可见光谱、质谱(MS)等方法合成了钌(III)螯合物[RuCl3(H2Lt-Bu] (H2Lt-Bu = 2,6-二(5-叔丁基- 1h -吡唑-3-基)吡啶1),并对其进行了表征。为了比较,我们还研究了通式[Ru(N-N-N)Cl3]的钌(III)三联吡啶配合物,其中N-N-N = 4′-氯-三联吡啶(Cl-tpy;2)或4′-氯基三联吡啶(Cl-Ph-tpy;3) 1-3与生物分子取代反应的动力学研究表明,速率常数取决于旁观配体的性质和进入的亲核试剂的性质。为了进一步了解钌配合物与潜在生物靶点的反应性,我们研究了1 - 3与DNA和HSA的相互作用。DNA/HSA结合研究表明,与配合物1(双吡唑基吡啶)相比,另外两个(2和3)三联吡啶配合物对小牛胸腺DNA (CT DNA)的结合亲和力略好,而对于人血清白蛋白(HSA),配合物1表现出最强的猝灭能力。
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引用次数: 0
DNA PROTECTIVE ACTIVITY OF TWO SPECIES OF THE „SCROPHULARIA“ GENUS 2021ICCBIKG (2021) “玄伞”属两种植物DNA保护活性的研究
S. Matić, P. Mašković, Katarina Šipovac
Plants from the genus Scrophularia, family Scrophulariaceae have numerous biological activities such as antibacterial, antioxidant, antiprotozoal, antitumor, hepatoprotective, and antidiabetic. However, as far as we know, genotoxic and antigenotoxic effects of these two plant species remain unexplored. The present study aimed to evaluate possible in vivo protective effects of the methanol extracts of two plant species of the Scrophularia genus, Scrophularia canina L. and S. alata Gilib., against carbon tetrachloride (CCl4)-induced DNA damage in albino Wistar rat. A significant increase in total comet score has been shown in animals receiving CCl4 compared with the negative control. Treatment with either S. alata or S. canina extracts reduced CCl4 induced DNA damage as indicated by the percentage of reduction in total comet score with a value above 50%.
玄参科玄参属植物具有抗菌、抗氧化、抗原虫、抗肿瘤、保肝、抗糖尿病等多种生物活性。然而,据我们所知,这两种植物的基因毒性和抗基因毒性作用仍未被探索。本研究旨在评价两种玄参属植物——犬玄参(Scrophularia canina L.)和木犀草(S. alata Gilib)甲醇提取物在体内可能的保护作用。对四氯化碳(CCl4)诱导的白化Wistar大鼠DNA损伤的影响。与阴性对照相比,接受CCl4治疗的动物的总彗星评分显著增加。用金针叶提取物或犬金针叶提取物治疗均可减少CCl4诱导的DNA损伤,其彗星总评分降低百分比高于50%。
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引用次数: 0
DIVERSITY OF EARTHWORMS (CLITELLATA: OLIGOCHAETA) FROM SERBIAN SIDE OF ŠAR MOUNTAIN Šar山塞尔维亚一侧蚯蚓的多样性(cliitellata: oligochaeta)
J. Sekulić, M. Stojanović, Tanja B. Trakić, S. Radosavljević, Filip Popović
This paper presents the currently known records on the diversity of earthworm fauna on Šar Mountain. The Šar Mt. is located in the south part of Serbia and is a part of the Šar-Pindus Mountain system. The complete list of present taxa of the family Lumbricidae in the researches area was formed by reviewing data from old collections, relevant literary sources and by its own field research in the period from 2019 to 2020. The list comprises 24 taxa, belonging to 10 genera of the family Lumbricidae. The genera with the largest number of the registered taxa are Dendrobaena (7) and Aporrectodea (5), while the genera Bimastos, Eiseniella, Helodrilus, Octodrilus and Octolasion are represented by one taxon. With respect to the zoogeographical analysis, the majority of the recorded taxa belong to the group of peregrine species (12). The endemic species are represented by two taxa and belong to the genera Dendrobaena and Helodrilus. The Balkan endemic subspecies Helodrilus balcanicus plavensis (Karaman, 1972) and illyric Dendrobaena illyrica (Cognetti, 1906), were recorded on new sites from the Šar Mt., that represent the southernmost limits of the geographical range of these species at the moment.
本文介绍了目前已知的Šar山蚯蚓区系多样性记录。Šar山位于塞尔维亚南部,是Šar-Pindus山系的一部分。2019 - 2020年,笔者通过查阅旧资料、相关文献资料和实地考察,形成了研究区蚓科现有分类群的完整列表。该名单包括24个分类群,隶属于蚓科10属。登记分类群数量最多的属为Dendrobaena(7个)和Aporrectodea(5个),Bimastos、Eiseniella、Helodrilus、octodrus和Octolasion属各1个。在动物地理分析方面,大多数记录的分类群属于游隼种群(12)。特有种由两个分类群代表,分别属于石斛属和海螺属。巴尔干特有亚种Helodrilus balcanicus plavensis (Karaman, 1972)和illyric Dendrobaena illyrica (Cognetti, 1906)在Šar山的新址上被记录,这些新址代表了这些物种目前地理范围的最南端。
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引用次数: 0
SYNTHESIS AND CHARACTERIZATION OF PLATINUM(II/IV) COMPLEXES WITH 2-AMINO-5-METHYL-4-PHENYLTHIAZOLE 2-氨基-5-甲基-4-苯噻唑铂(ii / iv)配合物的合成与表征
D. Stojković, V. Jevtić, Đ. Petrović, Sandra S. Jovičić Milić, N. Vukovic, Milena D. Vukić, B. Stojanovic
This paper examines the synthesis of two new complexes of platinum(II/IV) ion, general formula [PtL2]Cl2 and [PtL2]Cl4, where L is 2-amino-5-methyl-4-phenylthiazole. The structures of the above mentioned compounds were determined by elemental microanalysis, infrared, 1H and 13C NMR spectroscopy.
本文研究了两种新型铂(II/IV)离子配合物的合成,通式为[PtL2]Cl2和[PtL2]Cl4,其中L为2-氨基-5-甲基-4-苯噻唑。通过元素微量分析、红外光谱、1H和13C核磁共振光谱对上述化合物的结构进行了表征。
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引用次数: 0
APPLICATION OF ARTIFICIAL INTELLIGENCE-BASED IMAGE ANALYSIS IN BIOINFORMATICS 基于人工智能的图像分析在生物信息学中的应用
Z. Car, N. Anđelić, I. Lorencin, J. Musulin, D. Štifanić, Sandi Baressi Baressi Šegota
The collection of image data is an extremely common procedure in clinical practice today. Many of the diagnostic approaches generate such data – computed tomography (CT), X-ray radiography, magnetic resonance imaging (MRI), and others. This data collection process allows for the use of computer vision approaches to be applied with the goal of analysis and diagnostics. Artificial Intelligence (AI) based algorithms have repeatedly been shown to be the best performing computer vision algorithms, in many fields including medicine. AI-based – or more precisely machine learning (ML) based, algorithms have capabilities which allow them to learn the patterns contained in the data from the data itself. Among the best performing algorithms are artificial neural networks (ANNs), or more precisely convolutional neural networks (CNNs). Their pitfall is the need for the large amounts of data – but as it has been previously mentioned, the amount of data collected in today’s clinical practice is large and ever increasing. This allows for the development of Smart Diagnostic systems which are meant to serve as support systems to the health professionals. In this paper first, the standard practices and review of the field is given – with the focus on challenges and best practices. Then, multiple examples of the research applying AI-based algorithm analysis are given – including diagnostics of various cancer types (bladder and oral) as well as COVID-19 severity diagnostics and image quality determination.
在今天的临床实践中,图像数据的收集是一个非常常见的程序。许多诊断方法产生这样的数据——计算机断层扫描(CT)、x射线照相、磁共振成像(MRI)等。这个数据收集过程允许使用计算机视觉方法来进行分析和诊断。在包括医学在内的许多领域,基于人工智能(AI)的算法一再被证明是性能最好的计算机视觉算法。基于人工智能——或者更准确地说是基于机器学习(ML)——的算法具有从数据本身学习数据中包含的模式的能力。其中表现最好的算法是人工神经网络(ann),或者更准确地说是卷积神经网络(cnn)。他们的缺点是需要大量的数据——但正如前面提到的,在今天的临床实践中收集的数据量很大,而且还在不断增加。这允许开发智能诊断系统,该系统旨在作为卫生专业人员的支持系统。在本文中,首先给出了该领域的标准实践和回顾-重点是挑战和最佳实践。然后,给出了多个应用人工智能算法分析的研究实例,包括各种类型癌症(膀胱癌和口腔癌)的诊断,以及COVID-19严重程度诊断和图像质量确定。
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引用次数: 0
APPLICABILITY OF BRAY-LIEBHAFSKY REACTION FOR CHEMICAL COMPUTING bray-liebhafsky反应在化学计算中的适用性
Ž. Čupić, Ana I vanović Šašić, S. Maćešić, S. Anic, Ljiljana Kolar- Anić
The first discovered homogeneous oscillatory reaction was the Bray-Liebhafsky (BL) one, described in a paper published exactly 100 years ago. However, the applicability of oscillatory reactions in chemical computing was recently discovered. Here we intend to expose the native computing concept applied to intermittent states of the BL reaction, because we believe that this particular state may have some advantages. For this purpose, numerical simulations will be used based on the known model. Sequences of perturbations will be introduced by adding iodate (IO3-) and hydrogen peroxide (H2O2), separately, as well as in various combinations with one another. It will be shown that dynamic states obtained after perturbations with same species depend very much on the sequence in which these species were used in perturbations. Additionally, it will be shown that obtained dynamic states shift the system from chaotic intermittent dynamic state to different complex periodic states. Hence, the applicability of the BL reaction system in chemical computing was demonstrated.
第一个发现的均相振荡反应是布雷-利勃哈夫斯基反应(BL),该反应在整整100年前发表的一篇论文中有描述。然而,振荡反应在化学计算中的适用性最近才被发现。在这里,我们打算将原生计算概念应用于BL反应的间歇状态,因为我们相信这种特定的状态可能有一些优势。为此,将在已知模型的基础上进行数值模拟。通过分别添加碘酸盐(IO3-)和过氧化氢(H2O2),以及以各种组合方式引入扰动序列。将会证明,在相同物种的扰动后得到的动态状态在很大程度上取决于在扰动中使用这些物种的顺序。此外,所获得的动态状态将使系统从混沌的间歇动态状态转变为不同的复杂周期状态。从而证明了BL反应体系在化学计算中的适用性。
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引用次数: 0
RADIOACTIVITY ASSESSMENT OF NATURAL RADIONUCLIDES AND 137CS IN COMMONLY CONSUMED FOODS 常见食物中天然放射性核素及铯- 137的放射性评估
Milena Živković, D. Nikezic, T. Miladinović, J. Stajic, D. Krstić
The goal of this research is to determine the levels of natural and artificial radioactivity in 13 different samples of commonly consumed foods from Serbian markets. A gamma spectrometry was used to measure the activity concentrations of 226Ra, 232Th, 40K, and 137Cs. The annual whole-body doses from 137Cs and natural radionuclides, due to the consumption of tea for an adult, are in the range of 2.3– 8.5 nSv for 137Cs, 14.1 – 21.7 nSv for 232Ra, 18.4 – 73.6 nSv for 232Th and for 40K 10.4 – 22.9 nSv. These doses are not harmful to the general public’s health.
这项研究的目的是确定塞尔维亚市场上常见食品的13种不同样品中的天然和人工放射性水平。用伽马能谱法测定了226Ra、232Th、40K和137Cs的活度浓度。成年人每年因饮茶而受到的137Cs和天然放射性核素的全身剂量为:137Cs为2.3 - 8.5 nSv, 232Ra为14.1 - 21.7 nSv, 232Th为18.4 - 73.6 nSv, 40K为10.4 - 22.9 nSv。这些剂量对一般公众的健康没有危害。
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引用次数: 0
GALLIC ACID HYDRAZONES: ‘IN SILICO’ INHIBITION OF THIOREDOXIN REDUCTASE 没食子酸腙:硫氧还蛋白还原酶的“硅”抑制
Jovica Branković, V. Milovanović, Z. Petrović, V. Petrović
Gallic hydrazones, as gallic acid derivatives, are known as pharmacophores of numerous multipotent agents. Among them, antiproliferative activity is one of the most important. On the other hand, thioredoxin reductase (TrxR1) is a part of the thioredoxin system, one of the most important systems responsible for maintaining the redox equilibrium inside the cell. It is overexpressed in different forms of tumors. Bearing this in mind, TrxR1 is a valid target for the development of compounds with potential antiproliferative activity. For this purpose, eight gallic acid-based hydrazones are selected and examined in silico for their potential inhibitory activity towards TrxR1.
没食子腙作为没食子酸衍生物,是许多多能药物的药效团。其中,抗增殖活性是最重要的活性之一。另一方面,硫氧还蛋白还原酶(TrxR1)是硫氧还蛋白系统的一部分,是维持细胞内氧化还原平衡的最重要系统之一。它在不同形式的肿瘤中过度表达。考虑到这一点,TrxR1是开发具有潜在抗增殖活性化合物的有效靶标。为此,我们选择了8个没食子酸基腙,并对它们对TrxR1的潜在抑制活性进行了硅检测。
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引用次数: 0
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