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In silico analysis for SARS-CoV-2 detection in the context of genetic variability of the Algerian omicron variant. 在阿尔及利亚奥米克隆变体基因变异的背景下,对 SARS-CoV-2 检测进行硅学分析。
IF 1.5 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2024-01-01 DOI: 10.22099/mbrc.2024.50192.1985
Chahinez Amira Dahmani, Asmaa Azzoune, Abdallah Boudjema

The risk to public health conferred by the Omicron variant is still not completely clear, although its numerous gene mutations have raised concerns regarding its potential for increased transmissibility and immune escape. In this study, we test the compatibility of the different primers and probes available in different commercial kits sold internationally with all the sequences of SARS-CoV-2 analyzed in Algeria until March 2023. The Algerian SARS-CoV-2 Omicron variant sequences were aligned with the Muscle tool using Genious software. We also used primers and probes sequences of seven international RT-qPCR kits; CDC China, Charite Germany, HKU Hong Kong, NIH Thailand, NIID Japan, CDC US, and Pasteur Institute. We used the primer check v2.0 developed by VIROSCIENCE LAB, To identify the different mutations located at the level of primers and probes about the Algerian sequences of SARS-CoV2. Statistical tests were carried out by calculating the x 2 test. We found regarding the Forward primer sequences that the two Thailand and Japan kits are less specific to the Algerian version of the SARS-CoV-2 Omicron variant genome compared to the other kits (p=10-6). Furthermore, regarding the Reverse primers and fluorescent Probes, the three kits; Thailand, Japan, and CDC US; are less effective (p=10-6). Regarding all primers and probes, this work allowed us to conclude that the four RT-qPCR kits: CDC China, Charite Germany, NHD Hong Kong, and Pasteur Institute seem to be more specific for the Algerian omicron genome detection and therefore for diagnosis of COVID-19 in Algeria.

尽管 Omicron 变体的大量基因突变引起了人们对其传播性和免疫逃逸潜力的担忧,但其对公共卫生造成的风险仍不完全清楚。在这项研究中,我们测试了国际上销售的不同商业试剂盒中的不同引物和探针与阿尔及利亚 2023 年 3 月之前分析的所有 SARS-CoV-2 序列的兼容性。阿尔及利亚的 SARS-CoV-2 Omicron 变异序列使用 Genious 软件的 Muscle 工具进行了比对。我们还使用了七个国际 RT-qPCR 试剂盒的引物和探针序列:中国疾病预防控制中心、德国 Charite、香港大学、泰国国立卫生研究院、日本国立卫生研究院、美国疾病预防控制中心和巴斯德研究所。我们使用了 VIROSCIENCE LAB 开发的引物检查 v2.0,以确定阿尔及利亚 SARS-CoV2 序列引物和探针水平上的不同突变。通过 x 2 检验进行了统计检验。我们发现,在正向引物序列方面,泰国和日本的两种试剂盒与其他试剂盒相比,对阿尔及利亚版本的 SARS-CoV-2 Omicron 变异基因组的特异性较低(p=10-6)。此外,在反向引物和荧光探针方面,泰国、日本和美国 CDC 这三种试剂盒的效果较差(p=10-6)。就所有引物和探针而言,这项工作使我们得出结论:四种 RT-qPCR 试剂盒都有效:中国疾病预防控制中心、德国 Charite、香港国家卫生署和巴斯德研究所的四种 RT-qPCR 试剂盒似乎对阿尔及利亚奥米克基因组的检测更具特异性,因此对阿尔及利亚 COVID-19 的诊断也更具特异性。
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引用次数: 0
Association between rs3761548 polymorphism of FOXP3 and the risk of gastric cancer: a case-control study. FOXP3的rs3761548多态性与胃癌风险的关系:一项病例对照研究。
IF 1.5 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2024-01-01 DOI: 10.22099/mbrc.2024.49125.1989
Shamimeh Validi, Iraj Saadat

Gastric cancer is one of the most prevalent malignancies in the world. Various factors play a role in the development of this disease as risk factors. One of these genes is the FOXP3, which is located on the short arm of the X chromosome (Xp11.23). The rs3761548 polymorphism in the promoter region of this gene increases cell proliferation. In the current study, the association between this genetic polymorphism and the risk of gastric cancer was investigated. This study included 147 patients (55 women, 92 men) with gastric cancer and 147 healthy individuals (53 women, 94 men). The PCR-RFLP method is used for genotyping. Statistical analysis showed that there was no significant association between this polymorphism and the risk of gastric cancer. However, the analysis of genotype, family history and smoking risk factors simultane-oussly revealed a significant relationship between simultaneous occurrence of two (OR=3.79, 95% CI=1.77-8.09, p=0.001) and three risk factors (OR=6.44, 95% CI=1.76-23.5, p=0.017) and the risk of gastric cancer.

胃癌是世界上最常见的恶性肿瘤之一。在这种疾病的发病过程中,有多种风险因素在起作用。其中一个基因是位于 X 染色体短臂(Xp11.23)上的 FOXP3。该基因启动子区域的 rs3761548 多态性会增加细胞增殖。本研究调查了该基因多态性与胃癌风险之间的关系。这项研究包括 147 名胃癌患者(55 名女性,92 名男性)和 147 名健康人(53 名女性,94 名男性)。采用 PCR-RFLP 方法进行基因分型。统计分析表明,该多态性与胃癌风险无明显关联。然而,同时对基因型、家族史和吸烟风险因素进行分析后发现,同时出现两种风险因素(OR=3.79,95% CI=1.77-8.09,P=0.001)和三种风险因素(OR=6.44,95% CI=1.76-23.5,P=0.017)与胃癌风险之间存在显著关系。
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引用次数: 0
The effects of NLRP3 rs10754558 and rs4612666 polymorphisms on preeclampsia susceptibility, onset, and severity: a case-control study and in silico analysis. NLRP3 rs10754558 和 rs4612666 多态性对子痫前期易感性、发病和严重程度的影响:一项病例对照研究和硅学分析。
IF 1.5 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2024-01-01 DOI: 10.22099/mbrc.2024.49510.1936
Mahnaz Rezaei, Marzieh Ghasemi, Mohsen Saravani, Rahele Ghasemian- Moghadam, Hossein Shahraki-Ghadimi, Mahtab Norouzi, Saeedeh Salimi

Preeclampsia (PE) is one of the serious complications of pregnancy and its exact etiology is unknown. Inflammasomes are multiportion complexes whose relation with PE has been described. Evidence showed the effect of NLRP3 inflammasome in PE pathogenesis. In the current study, we investigated the possible impacts of NLRP3 polymorphisms on PE. A total of 252 PE and 258 control pregnant women were selected for the study. The PCR-RFLP method was employed to genotype rs10754558 and rs4612666 polymorphisms. The RNAsnp and SpliceAid 2 software were used for in silico analysis. There was no relationship between NLRP3 polymorphisms and PE. In comparison to control women, the NLRP3 rs10754558 could increase the risk of severe PE in codominant and dominant models (OR=1.89, 95% CI=1.19-3.01, P=0.012, OR=1.95, 95% CI=1.24-3.06, P=0.0037, respectively). The findings of the in silico analysis revealed the effects of rs10754558 C to G and rs4612666 C to T substitutions on protein binding sites and rs10754558 C to G substitution on secondary RNA structure. These findings could confirm the finding those studies reported the impacts of these variants on various diseases. In conclusion, the NLRP3 rs10754558 variant was associated with an increased risk of EOPE and severe PE.

子痫前期(PE)是妊娠期严重并发症之一,其确切病因尚不清楚。炎症小体是一种多比例复合体,它与子痫前期的关系已被描述。有证据显示,NLRP3 炎症小体在 PE 发病机制中起作用。在本研究中,我们调查了 NLRP3 多态性对 PE 的可能影响。研究共选取了 252 名 PE 孕妇和 258 名对照组孕妇。采用 PCR-RFLP 方法对 rs10754558 和 rs4612666 多态性进行基因分型。采用 RNAsnp 和 SpliceAid 2 软件进行硅分析。NLRP3 多态性与 PE 之间没有关系。与对照组女性相比,NLRP3 rs10754558 可在显性和隐性模型中增加严重 PE 的风险(OR=1.89,95% CI=1.19-3.01,P=0.012;OR=1.95,95% CI=1.24-3.06,P=0.0037)。硅学分析结果显示,rs10754558 C 到 G 和 rs4612666 C 到 T 的置换对蛋白质结合位点有影响,而 rs10754558 C 到 G 的置换对二级 RNA 结构有影响。这些研究结果证实了这些变异对各种疾病的影响。总之,NLRP3 rs10754558变异与EOPE和重症PE风险增加有关。
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引用次数: 0
Hijacking the epigenetic mechanisms of A. baumannii. 劫持鲍曼不动杆菌的表观遗传机制。
IF 1.6 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2024-01-01 DOI: 10.22099/MBRC.2024.48801.1899
S A Smiline Girija

Epigenetic mechanisms attribute to the resistance and virulence of Acinetobacter baumannii sparking a renewed area of research. Unveiling the targets pertained to the epigenetic modulation in the bacterium would aid in the curbing its complications in various recalcitrant infections. This review thus throws light on the various epigenetic mechanisms exhibited by A. bauamnnii, urging the need to implement epigenetic based novel strategies in precision medicine.

表观遗传学机制是鲍曼不动杆菌产生抗药性和毒性的原因之一,这引发了一个新的研究领域。揭示与鲍曼不动杆菌表观遗传调控有关的靶标将有助于遏制其在各种顽固感染中的并发症。因此,这篇综述揭示了鲍曼不动杆菌表现出的各种表观遗传学机制,敦促人们在精准医疗中实施基于表观遗传学的新策略。
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引用次数: 0
Genome-wide mining and characterization of MATE transporters in Coriandrum sativum L. 芫荽中 MATE 转运体的全基因组挖掘和特征描述
IF 1.5 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2024-01-01 DOI: 10.22099/mbrc.2024.49840.1954
Deepu Mathew, Ravisankar Valsalan, M Shijili

Multidrug and Toxic Compound Extrusion (MATE) proteins are responsible for the transport of a wide range of metabolites out of plant cells. This helps to protect the cells from toxins and other harmful compounds. MATE proteins also play a role in plant development, by regulating the transport of hormones and other signalling molecules. They transport a wide variety of substances, including organic acids, plant hormones, flavonoids, alkaloids, terpenes and other secondary metabolites. MATE proteins are thought to play similar roles in Coriander, in addition to stress responses. The MATE genes in the coriander genome have been identified and characterized. Detailed genome homology search and domain identification analysis have identified 91 MATE proteins in the genome assembly of coriander. A phylogenetic analysis of the identified proteins divided them into five major clades. The functions of the transporters in each cluster were predicted based on the clustering pattern of the functionally characterized proteins. The amino acid sequences, exon-intron structures and motif details of all the 91 proteins are identified and described. This is the first work on the MATE transporters in coriander and the results deliver clues for the molecular mechanisms behind the stress responses and secondary metabolite transport in coriander.

多药和有毒化合物挤压(MATE)蛋白负责将多种代谢物从植物细胞中运出。这有助于保护细胞免受毒素和其他有害化合物的侵害。MATE 蛋白还通过调节激素和其他信号分子的运输,在植物发育过程中发挥作用。它们运输的物质种类繁多,包括有机酸、植物激素、类黄酮、生物碱、萜烯和其他次生代谢物。除了应激反应外,MATE 蛋白被认为在芫荽中也起着类似的作用。芫荽基因组中的 MATE 基因已被鉴定和表征。通过详细的基因组同源性搜索和结构域鉴定分析,在芫荽基因组中发现了 91 个 MATE 蛋白。对已鉴定蛋白质的系统进化分析将其分为五大支系。根据功能表征蛋白的聚类模式,预测了每个聚类中转运体的功能。对所有 91 个蛋白质的氨基酸序列、外显子内含子结构和主题细节进行了鉴定和描述。这是首次对芫荽中的 MATE 转运体进行研究,研究结果为芫荽胁迫响应和次生代谢物转运背后的分子机制提供了线索。
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引用次数: 0
The effects of thymidylate synthase 3'UTR genotype on methylation of tumor-specific genes promoter in 22 colorectal cancer patients from southern Iran. 伊朗南部 22 名结直肠癌患者胸苷酸合成酶 3'UTR 基因型对肿瘤特异基因启动子甲基化的影响
IF 1.6 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2024-01-01 DOI: 10.22099/mbrc.2023.48009.1850
Maryam Niknam, Fakhraddin Naghibalhossaini, Mozhdeh Zamani, Seyed Vahid Hosseini, Pooneh Mokarram

To investigate the effects of thymidylate synthase (TS) 3'UTR genotype on promotor methylation of tumor-related genes in 22 patients with sporadic colorectal cancer (CRC) from southern Iran. We evaluated the correlations of TS 3'UTR genotype with promoter methylation of hTERT, hMLH1, MSH2, MMP2, CDH1, p14, p16, and p21 genes in CRC patients. The polymorphism of TS 3'UTR was evaluated through mutagenically specific PCR. The genes promoter methylation was determined using methylation-specific PCR. For 10 patients, the gene expression profile of epigenetic regulating enzymes, histone deacetylases (HDACs) and DNA methyltransferases (DNMTs), was also examined in both tumor and normal adjacent tissues by quantitative real time PCR. There was a significant association between the hMLH1 methylation and age of patients (P= 0.039) and also between MSH2 methylation and tumor site (P= 0.036). There was insignificant association between gene-specific methylation and TS 3'UTR genotype. However, all polymorphic genotypes of TS were associated with higher methylation of hMLH1 and CDH1 and lower methylation of MSH2. The -6bp/+6bp (heterozygous mutant) and [-6bp/+6bp, +6bp/+6bp] (homozygous mutant) genotypes resulted in higher methylation of p16, and -6bp/+6bp and [-6bp/+6bp, +6bp/+6bp] genotypes were correlated with lower methylation of MMP2. The overexpression of epigenetic enzymes, HDACs and DNMTs, was also demonstrated. There was no association between DNMTs transcript levels and gene-specific hypermethylation. The polymorphic TS genotypes, especially -6bp/+6bp, could affect methylation frequencies of studied genes. Moreover, promoter methylation status was not dependent on DNMTs gene expression. Large sample size studies may contribute to validate these findings.

研究伊朗南部 22 名散发性结直肠癌(CRC)患者胸苷酸合成酶(TS)3'UTR 基因型对肿瘤相关基因启动子甲基化的影响。我们评估了 TS 3'UTR 基因型与 CRC 患者中 hTERT、hMLH1、MSH2、MMP2、CDH1、p14、p16 和 p21 基因启动子甲基化的相关性。通过诱变特异性 PCR 评估了 TS 3'UTR 的多态性。使用甲基化特异性 PCR 测定基因启动子甲基化。还通过实时定量 PCR 检测了 10 例患者肿瘤和邻近正常组织中表观遗传调控酶、组蛋白去乙酰化酶(HDACs)和 DNA 甲基转移酶(DNMTs)的基因表达谱。hMLH1甲基化与患者年龄(P= 0.039)和MSH2甲基化与肿瘤部位(P= 0.036)之间有明显的相关性。基因特异性甲基化与 TS 3'UTR 基因型之间的关系不明显。然而,TS的所有多态基因型都与hMLH1和CDH1的较高甲基化和MSH2的较低甲基化相关。-6bp/+6bp(杂合子突变体)和[-6bp/+6bp, +6bp/+6bp](同源突变体)基因型导致p16的甲基化程度较高,而-6bp/+6bp和[-6bp/+6bp, +6bp/+6bp]基因型与MMP2的甲基化程度较低相关。表观遗传酶、HDACs 和 DNMTs 的过度表达也得到了证实。DNMTs 转录水平与基因特异性高甲基化之间没有关联。多态的TS基因型,尤其是-6bp/+6bp,会影响所研究基因的甲基化频率。此外,启动子甲基化状态与 DNMTs 基因表达无关。大样本量研究可能有助于验证这些发现。
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引用次数: 0
A survey of resistance mutations to reverse transcriptase inhibitors (RTIs) among HIV-1 patients in northeast of Iran. 伊朗东北部 HIV-1 患者对逆转录酶抑制剂 (RTI) 的耐药性突变调查。
IF 1.5 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2024-01-01 DOI: 10.22099/mbrc.2024.48729.1895
Zahra Mazaheri, Sahar Tahaghoghi-Hajghorbani, Kazem Baesi, Kiarash Ghazvini, Saeid Amel-Jamehdar, Masoud Youssefi

The use of a combination of three-drug regimen has improved HIV-1 infected patients' life span and quality; however the emergence of drug-resistant strains remains a main problem. Reverse transcriptase inhibitors (RTIs) consist of a main part of highly active anti-retroviral therapy (HAART) regimen. The present study aimed to investigate resistant mutations to RTI drugs in both treatment naïve and under treatment HIV patients in Mashhad city, north-eastern Iran. RNA was extracted from sera of 22 treatment naïve and 22 under treatment patients. The mean age of under treated and treatment naive groups were 38.5±6.7 and 40.8±7.9 respectively. cDNA was synthesized and amplified with Nested PCR assay targeting specific sequences of RT gene. The PCR products were sent for sequencing. Bidirectional sequencing results were analysed using HIV drug resistance database supplied by Stanford University (HIV Drug Resistance Database, https://hivdb.stanford.edu). Among under treatment patients 10 out of 22 (45%) had at least one high-level resistance mutation which was higher than high level resistance mutation rate among treatment naive cases (P<0.01). Detected resistance mutations were as follows: K101E, K103N, K103E, V106M, V108I, E138A, V179T, Y181C, M184V, Y188L, Y188H, Y188F, G190A, L210W, T215F, T215Y, K219Q, and P225H. A high level of resistance mutations to RT inhibitors was observed that causes drug resistance especially against lamivudine (3TC). Such mutations should be considered as probable responsible for therapeutic failure. Serial surveillance studies of circulating drug resistance mutations are recommended.

三药联合疗法的使用改善了 HIV-1 感染者的寿命和质量,但耐药菌株的出现仍是一个主要问题。逆转录酶抑制剂(RTI)是高效抗逆转录病毒疗法(HAART)的主要组成部分。本研究旨在调查伊朗东北部马什哈德市未接受治疗和正在接受治疗的艾滋病患者对 RTI 药物的耐药突变。研究人员从 22 名治疗无望和 22 名治疗不足患者的血清中提取了 RNA。针对 RT 基因的特定序列合成 cDNA 并用巢式 PCR 方法进行扩增。PCR 产物被送去测序。双向测序结果通过斯坦福大学提供的 HIV 耐药性数据库(HIV 耐药性数据库,https://hivdb.stanford.edu)进行分析。在接受治疗的患者中,22 人中有 10 人(45%)至少出现了一种高水平耐药性突变,高于未接受治疗病例的高水平耐药性突变率(P<0.05)。
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引用次数: 0
Using several pseudo amino acid composition types and different machine learning algorithms to classify and predict archaeal phospholipases. 利用几种伪氨基酸组成类型和不同的机器学习算法对古菌磷脂酶进行分类和预测。
IF 1.6 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2023-01-01 DOI: 10.22099/mbrc.2023.47756.1845
Nour Samman, Hassan Mohabatkar, Parisa Rabiei

Phospholipases, as important lipolytic enzymes, have diverse industrial applications. Regarding the stability of extremophilic archaea's proteins in harsh conditions, analyses of unusual features of their proteins are significantly important for their utilization. This research was accomplished to in silico study of archaeal phospholipases' properties and to develop a pioneering method for distinguishing these enzymes from other archaeal enzymes via machine learning algorithms and Chou's pseudo-amino acid composition concept. The non-redundant sequences of archaeal phospholipases were collected. BioSeq-Analysis sever was used with Support Vector Machine (SVM), Random Forests (RF), Covariance Discrimination (CD), and Optimized Evidence-Theoretic K-nearest Neighbor (OET-KNN) as powerful machine learnings algorithms. Also, different Chou's pseudo-amino acid composition modes were performed and then, 5-fold cross-validation was applied to the sequences. Based on our results, the OET-KNN predictor, with 96% accuracy, yields the best performance in SC-PseAAC mode by 5-fold cross-validation. This predictor also achieved very high values of specificity (95%), sensitivity (96%), Matthews's correlation coefficient (0.92), and accuracy (96%). The present investigation yielded a robust anticipatory model for the archaeal phospholipase prediction utilizing the tenets PseAAC and OET-KNN machine learning algorithm.

磷脂酶是重要的脂溶酶,具有广泛的工业应用。关于极端嗜酸性古菌蛋白质在恶劣条件下的稳定性,分析其蛋白质的异常特征对其利用具有重要意义。本研究完成了对古细菌磷脂酶性质的计算机研究,并通过机器学习算法和Chou的伪氨基酸组成概念开发了一种将这些酶与其他古细菌酶区分开来的开创性方法。收集了古细菌磷脂酶的非冗余序列。BioSeq-Analysis sever采用支持向量机(SVM)、随机森林(RF)、协方差判别(CD)和优化证据理论k近邻(OET-KNN)作为强大的机器学习算法。采用不同的Chou伪氨基酸组成模式,对序列进行5倍交叉验证。基于我们的结果,经5倍交叉验证,OET-KNN预测器在SC-PseAAC模式下表现最佳,准确率为96%。该预测器还具有很高的特异性(95%)、敏感性(96%)、马修斯相关系数(0.92)和准确性(96%)。本研究利用PseAAC和OET-KNN机器学习算法建立了古细菌磷脂酶预测的稳健预测模型。
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引用次数: 0
Comparison of five DNA extraction methods in three medicinal plants: Peganum harmala L., Tamarix ramosissima Ledeb., and Potentilla reptans L. 三种药用植物荆芥、柽柳五种DNA提取方法的比较。和Potentilla reptans L。
IF 1.6 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2023-01-01 DOI: 10.22099/mbrc.2023.45131.1798
Zahra Salehi, Atefe Amirahmadi, Arezou Rezaei, Parisa Farrokh, Javad Ghasemian

Extracting high-yield, high-quality DNA from plant samples is challenging due to the presence of the cell wall, pigments, and some secondary metabolites. The main CTAB method, two of its modified protocols (beta-mercaptoethanol or ammonium acetate were eliminated), the modified Murray and Thompson method, and the Gene All kit were statistically compared based on the quantity and quality of the total DNA (tDNA) extracted from fresh and dried leaves of three medicinal herbs P. harmala, T. ramosissima, and P. reptans. The suitability of the tDNAs for molecular studies was evaluated by polymerase chain reaction (PCR) of the fragments of the internal transcribed spacer (ITS) in nuclear DNA and the trnL-F region in chloroplast DNA. Some significant differences were found between the tDNAs extracted by five extraction methods. With the exception of P. harmala, where the PCR of both the ITS fragments and the trnL-F region worked successfully in all DNA samples, but only the ITS fragments, not the chloroplast trnL-F region, were amplified in the DNA samples of T. ramosissima and P. reptans. The chloroplast trnL-F region was amplified only in DNA samples extracted from fresh and dried leaves of the three studied herbs using the commercial kit. Gene All kit, the main CTAB method, and its modified protocols were the less time-consuming protocols that yielded DNA suitable for downstream PCR vis-a-vis the modified Murray and Thompson method.

由于细胞壁、色素和一些次生代谢物的存在,从植物样品中提取高产量、高质量的DNA具有挑战性。对主要的CTAB法及其两种改进方案(β -巯基乙醇或乙酸铵)、改进的Murray和Thompson法以及Gene All试剂盒从三种药材的鲜叶和干叶中提取的总DNA (tDNA)的数量和质量进行统计比较。利用核DNA内转录间隔段(ITS)片段和叶绿体DNA trl - f区片段的聚合酶链反应(PCR)对tdna进行分子研究的适宜性评价。五种提取方法提取的tdna存在显著差异。除甘蓝花(P. harmala)的ITS片段和trnL-F区域的PCR在所有DNA样品中都成功扩增外,但在毛毛田鼠(T. ramosissima)和爬行田鼠(P. reptans)的DNA样品中只能扩增ITS片段,而不能扩增叶绿体trnL-F区域。叶绿体trnL-F区域仅在使用商业试剂盒从三种研究草药的新鲜和干燥叶片中提取的DNA样本中扩增。与改进的Murray和Thompson方法相比,主要的CTAB方法Gene All kit及其改进方案是产生适合下游PCR的DNA所需时间较少的方案。
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引用次数: 1
A comparison of phylogenetic and distance-based approaches for the distinction of genetically closed species, Draba rimarum (Rech.f.) A.R. Khosravi & A. Eslami-Farouji, and Draba aucheri Boiss. (Brassicaceae) as a case study. 遗传封闭物种Draba rimarum(Rech.f.)A.R.Khosravi和A.Eslami Farouji和Draba aucheri Boiss的系统发育和基于距离的方法的比较。(十字花科)为例研究。
IF 1.6 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2023-01-01 DOI: 10.22099/mbrc.2023.47706.1842
Atena Eslami-Farouji, Ahmad Reza Khosravi, Mahdi Gholami, Sasan Mohsenzadeh

Circumscribing species boundries is necessary in systematic plant biology. Even a mistake in delimiting taxa may lead to incorrect scientific interpretations. Draba rimarum (Rech.f.) A.R. Khosravi & A. Eslami-Farouji is an endemic Iranian species with a narrow geographic distribution, and is genetically close to D. aucheri. The present study provided a phylogenetic review, time divergence, and planar network of both species to unravel the distinct position of both species along with the prediction of any conflicting or ambiguous signals. Regarding this purpose, here we represent that phylogenetic trees may fail to show reliable results toward the distinct position of genetically close species.

在系统植物生物学中,环绕物种边界是必要的。即使在划分分类群时出现错误,也可能导致不正确的科学解释。Draba rimarum(Rech.f.)A.R.Khosravi和A.Eslami Farouji是一种地理分布狭窄的伊朗特有物种,在基因上与D.aucheri接近。本研究提供了两个物种的系统发育综述、时间差异和平面网络,以揭示两个物种不同的位置,并预测任何冲突或模糊的信号。关于这一目的,我们在这里表示,系统发育树可能无法显示出可靠的结果来确定基因相近物种的独特位置。
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Molecular Biology Research Communications
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