A database for medicinal plants used in the treatment of diabetes and its secondary complications

Effective treatment of diabetes is increasingly dependent on active constituents of medicinal plants capable of controlling hyperglycemia as well as its secondary complications. Sensing the importance of documenting such medicinal plants, here we describe a web database containing information (name, literature citation, active compounds and few related full text articles) of the diabetes medicinal plants exhibiting hypoglycemic, antioxidant and antimicrobial effects. AVAILABILITY: http://www.autogeneralfilters.com/holycross/Home.html.     

A database for anti-diabetic plants with clinical / experimental trials

A number of plants have been described in Ayurveda and other traditional medicine for the management of diabetes. However, information about them is not easily available. Active constituents of any medicinal plant define the efficacy and safety of treatment to control hyperglycemia. We describe the database to maintain the record of medicinal plants having anti-hyperglycemic or anti-diabetic activity. The database contains information such as plant name, its geographical distribution, useful plant part, known dosage, active constituents, mechanism of action and clinical/experimental data. The database also includes information about plant raw material suppliers or manufacturers in India. The current database includes 238 plants species and 123 Indian industries using them. AVAILABILITY: The database is freely available at http://www.biotechpark.org.in/antidia/index.html.     

Database on pharmacophore analysis of active principles, from medicinal plants

Plants continue to be a major source of medicines, as they have been throughout human history. In the present days, drug discovery from plants involves a multidisciplinary approach combining ethnobotanical, phytochemical and biological techniques to provide us new chemical compounds (lead molecules) for the development of drugs against various pharmacological targets, including cancer, diabetes and its secondary complications. In view of this need in current drug discovery from medicinal plants, here we describe another web database containing the information of pharmacophore analysis of active principles possessing antidiabetic, antimicrobial, anticancerous and antioxidant properties from medicinal plants. The database provides the botanical, taxonomic classification, biochemical as well as pharmacological properties of medicinal plants. Data on antidiabetic, antimicrobial, anti oxidative, anti tumor and anti inflammatory compounds, and their physicochemical properties, SMILES Notation, Lipinski's properties are included in our database. One of the proposed features in the database is the predicted ADMET values and the interaction of bioactive compounds to the target protein. The database alphabetically lists the compound name and also provides tabs separating for anti microbial, antitumor, antidiabetic, and antioxidative compounds. AVAILABILITY: http://www.hccbif.info /     

MPDB 1.0: a medicinal plant database of Bangladesh

The term of medicinal plants include a various types of plants used in herbalism with medicinal activities. These plants are considered as rich resources of ingredients which can be used as complementary and alternative medicines and, also in drug developments and synthesis. In addition, some plants regarded as valuable origin of nutrition. Thus, all these plants are recommended as therapeutic agents. Information related to medicinal plants and herbal drugs accumulated over the ages are scattered and unstructured which make it prudent to develop a curated database for medicinal plants. MPDB 1.0 database is dedicated to provide the first window to find the plants around Bangladesh claimed to have medicinal and/or nutritive values by accumulating data from the published literatures. This database contains 406 medicinal plants with their corresponding scientific, family and local names as well as utilized parts for treatment from different districts of Bangladesh. Information regarding ailments is available for 353 plants. In addition, we have found active compounds for 78 plants with their corresponding PubMed ID.

Availability

www.medicinalplantbd.net     

A database of 389 medicinal plants for diabetes

Medicinal plants used to treat hypoglycemic and hyperglycemic conditions are of considerable interest to ethno-botanical community as they are recognized to contain valuable medicinal properties in different parts of the plant. The active principles of many plant species with desired properties are isolated to cure ailments such as diabetes type-1 and type-2, respectively. Here, we describe DiaMedBase, a database containing information of medicinal plants for diabetes. AVAILABILITY: http://www.progenebio.in/DMP/DMP.htm.     

A database for the predicted pharmacophoric features of medicinal compounds

Pharmacophore feature is defined by a set of chemical structure patterns having the active site of drug like molecule. Pharmacophore can be used to assist in building hypothesis about desirable chemical properties in drug molecule and hence it can be used to refine and modify drug candidates. We predicted the pharmacophoric features of 150 medicinal compounds from plants for anti-cancer, anti-carcinogenic, anti-diabetic, anti-microbial, and anti-oxidant. Estimation of pharmacophoric feature is necessary to ensure the optimal supramolecular interaction with a biological target and to trigger or block its biological response. We subsequently make this data available to open access using a database at the URL: http://www.hccbif.info/index.htm AVAILABILITY: The database is available for free at http://www.hccbif.info/index.htm.     

MAPS Database: Medicinal plant Activities,Phytochemical and Structural Database

Drug development from natural sources is an important and fast developing area. Natural sources (plants) have been used to cure a range of diseases for Thousands of years. Different online medicinal plant databases provide information about classifications, activities, phytochemicals and structure of phytochemicals in different formats. These databases do not cover all aspects of medicinal plants. MAPS (Medicinal plant Activities, Phytochemicals & structural database) has been constructed with uniqueness that it combines all information in one web resource and additionally provides test targets on which particular plant found to be effective with reference to the original paper as well. MAPS database is user friendly information resource, including the data of > 500 medicinal plants. This database includes phytochemical constituents, their structure in mol format, different activities possessed by the medicinal plant with the targets reported in literature.

Availability

http://www.mapsdatabase.com     

DIACAN: Integrated Database for Antidiabetic and Anticancer Medicinal Plants

Medicinal plants and plant derived molecules are widely used in traditional cultures all over the world and they are becoming large popular among biomedical researchers and pharmaceutical companies as a natural alternative to synthetic medicine. Information related to medicinal plants and herbal drugs accumulated over the ages are scattered and unstructured which make it prudent to develop a curated database for medicinal plants. The Antidiabetic and Anticancer Medicinal Plants Database (DIACAN) aims to collect and provide an integrated platform for plants and phytochemiclas having antidiabetic or anticancer activity.

Availability

http://www.kaubic.in/diacan     

InDiaMed: A Comprehensive Database of Indian Medicinal plants for Diabetes

According to International Diabetes Federation (IDF), India has 62.4 million people with diabetes and by 2030 it is predicted that the number will rise to 100 million. Studies claim that there are around 410 experimentally proven Indian medicinal plants which have anti-diabetic activity, of which the mechanism of action of 109 plants has been elucidated or reported. So, the need of the hour is to explore the claims of Indian medicinal flora and open up the facets of many Indian plants which are being examined for their beneficial role in diabetes. So, we created a database (InDiaMed) of Indian medicinal plants that captures their role in anti-diabetic activity. InDiaMed''s features include chemical, pharmacological, biochemical and geographical information of the medicinal plant, scientifically relevant information of the plant, and the coherent research done on it in the field of diabetes. The database also includes the list of poly-herbal formulations which are used for treatment of diabetes in India.

Availability

http://www.indiamed.info     

药用植物基因组及EST研究

以生物信息学数据库GenBank的生物信息为基础 ,对包括《中国药典》2 0 0 0年版一部、《新编中药志》第 1～ 3卷、《中国大百科全书》(中国传统医学分册 )、中国医学科学院药物研究所编写的《中草药现代研究》及《天然药物化学》第三版中所涉及的 2 30 0多种药用植物的基因组、蛋白质及表达序列标签 (EST)的注册情况进行了初步统计 ,就相关进展进行了综述。到 2 0 0 3年 9月底截止的数据分析表明 ,66%的药用植物没有核酸序列报道 ,77%的药用植物没有蛋白质序列注册。进行药用植物基因组研究的植物与国家十分有限 ,而进行药用植物EST研究的国家相对较多 ,涉及的植物也相对集中 。     

Prediction of eukaryotic mRNA translational properties.

MOTIVATION: It is well known that eukaryotic mRNAs are translated at different levels depending on their sequence characteristics. Evaluation of mRNA translatability is of importance in prediction of the gene expression pattern by computer methods and to improve the recognition of mRNAs within cloned nucleotide sequences. It may also be used in biotechnological experiments to optimize the expression of foreign genes in transgenic organisms. RESULTS: The sets of 5' untranslated region characteristics, significantly different between mRNAs encoding abundant and scarce polypeptides, were determined for mammals, dicot plants and monocot plants, and collected in the LEADER_RNA database. Computer tools for the prediction of mRNA translatability are presented. AVAILABILITY: Programs for mRNA translatability prediction are available at http://wwwmgs.bionet.nsc. ru/programs/acts2/mo_mRNA.htm (for monocots), http://wwwmgs.bionet. nsc.ru/programs/acts2/di_mRNA.htm (for dicots) and http://wwwmgs. bionet.nsc.ru/programs/acts2/ma_mRNA.htm (for mammals). The LEADER_RNA database may be accessed at: http://wwwmgs.bionet.nsc. ru/systems/LeaderRNA/.     

广西靖西端午节药市民族药用植物数据库系统的设计与构建

药用植物数据库的建立与相关数据挖掘,对民族药物学的研究具有重要意义。该研究在顶层设计的基础上,对广西靖西端午节药市及周边地区实地调查时获得的药用植物标本和照片进行形态学特征、药用价值、民族传统利用方式等信息的整理,由此设计和建立开放的民族药用植物数据库系统。主要应用Microsoft Office Access和Java编程对数据进行管理、查询和统计,通过提取药用植物特征的不同权值来计算不同科属和类别之间的相似度。结果表明:该数据库系统能以柱状图或饼状图的形式将数据之间的关系直观地展示出来,从而反映出各种植物特征和各种功能属性之间的联系。同时该数据库系统还可以用于数据的管理、检索和查询相关民族药用植物的背景资料、药用价值等信息,并能进行相应的统计分析,有利于挖掘数据和发现新线索。     

KNApSAcK family databases: integrated metabolite-plant species databases for multifaceted plant research

A database (DB) describing the relationships between species and their metabolites would be useful for metabolomics research, because it targets systematic analysis of enormous numbers of organic compounds with known or unknown structures in metabolomics. We constructed an extensive species-metabolite DB for plants, the KNApSAcK Core DB, which contains 101,500 species-metabolite relationships encompassing 20,741 species and 50,048 metabolites. We also developed a search engine within the KNApSAcK Core DB for use in metabolomics research, making it possible to search for metabolites based on an accurate mass, molecular formula, metabolite name or mass spectra in several ionization modes. We also have developed databases for retrieving metabolites related to plants used for a range of purposes. In our multifaceted plant usage DB, medicinal/edible plants are related to the geographic zones (GZs) where the plants are used, their biological activities, and formulae of Japanese and Indonesian traditional medicines (Kampo and Jamu, respectively). These data are connected to the species-metabolites relationship DB within the KNApSAcK Core DB, keyed via the species names. All databases can be accessed via the website http://kanaya.naist.jp/KNApSAcK_Family/. KNApSAcK WorldMap DB comprises 41,548 GZ-plant pair entries, including 222 GZs and 15,240 medicinal/edible plants. The KAMPO DB consists of 336 formulae encompassing 278 medicinal plants; the JAMU DB consists of 5,310 formulae encompassing 550 medicinal plants. The Biological Activity DB consists of 2,418 biological activities and 33,706 pairwise relationships between medicinal plants and their biological activities. Current statistics of the binary relationships between individual databases were characterized by the degree distribution analysis, leading to a prediction of at least 1,060,000 metabolites within all plants. In the future, the study of metabolomics will need to take this huge number of metabolites into consideration.     

BRENDA: a resource for enzyme data and metabolic information.

BRENDA (BRaunschweig ENzyme DAtabase), founded in 1987 by Dietmar Schomburg, is a comprehensive protein function database, containing enzymatic and metabolic information extracted from the primary literature. Presently, the database holds data on more than 40 000 enzymes and 4460 different organisms, and includes information about enzyme-ligand relationships with numerous chemical compounds. The collection of molecular and biochemical information in BRENDA provides a fundamental resource for research in biotechnology, pharmacology, medicinal diagnostics, enzyme mechanics, and metabolism. BRENDA is accessible free of charge to the academic community at http://www.brenda.uni-koeln.de/; commercial users need a license available from http://www.science-factory.com/     

A database for medicinal and aromatic plants of JK (Jammu and Kashmir) in India

High throughput screening of small molecules for a given drug target is achieved using plant materials of medicinal value. Therefore, it is important to document the availability and location of such medicinal plants in the form of a database. Here, we describe a web database containing information (botanical name, common name, local name, botany, chemistry, folklore medicinal use and medicinal uses) about the medicinal and aromatic plants available in JK (Jammu and Kashmir). The database is available for free in public domain.

Availability     

Capacities of computer evaluation of hidden potential of phytochemicals of medicinal plants of the traditional Indian Ayurvedic medicine

Applicability of our computer programs PASS and PharmaExpert for prediction of biological activity spectra of rather complex and structurally diverse phytocomponents of medicinal plants, both separately and in combinations has been evaluated. For this purpose we have created the web-resource containing known information about structural formulas and biological activity of 1906 phytocomponents of 50 Ayurvedic medicinal plants used in Traditional Indian Medicine (TIM) (http://ayurveda.pharmaexpert.ru). The PASS training set was updated by addition of information about structure and biological activity of 946 natural compounds; then the training procedure and validation were performed, to estimate the quality of PASS prediction. It was shown that the differences between the average accuracy of prediction obtained in leave-5%-out cross-validation (94.467%) and in leave-one-out cross-validation (94.605%) are very small thus demonstrating high predictive ability of the program. Results of biological activity spectra prediction for all phytocomponents included in our database coincided in 83.5% of cases with known experimental data. Additional types of biological activity predicted with high probability indicate further promising directions for further studies of certain phytocomponents of some medicinal plants. The analysis of prediction results of sets of phytocomponents in each of 50 medicinal plants was made by the PharmaExpert software. Based on this analysis, we found that the combination of phytocomponents from Passiflora incarnata may exhibit nootropic, anticonvulsant, and antidepressant effects. Experiments carried out in mice models confirmed the predicted effects of P. incarnata extracts.     

基于DNA条形码的半夏属及其伪品分子鉴别

利用DNA条形码技术对半夏属及其伪品进行分子鉴定, 研究半夏属药用植物鉴定的新方法。该实验使用matK序列对半夏(Pinellia ternata)及其伪品进行扩增测序, 结合GenBank数据库数据, 分析ITS、ITS2、psbA-trnH、rbcL和matK各序列的种内与种间变异及barcoding gap, 并采用最近距离法(nearest distance)和相似性搜索算法(BLAST1)评价不同序列的鉴定能力。结果显示, matK序列的种间变异最大, rbcL序列的种内变异最小; rbcL序列的种内和种间遗传变异重叠比例最小, 其次为matK序列; 各序列的Neighbor Joining树均可明显地将不同种分开。实验结果表明, 利用DNA条形码能够准确地鉴别半夏属药用植物及其伪品, matK和rbcL序列为鉴别半夏属及其伪品的较理想条形码组合。该研究为半夏属植物的分子鉴别提供了科学依据与新的思路。     

Indigenous oral knowledge of wild medicinal plants from the Peren district of Nagaland,India in the Indo Burma hot-spot

The paper report the oral traditional knowledge of wild medicinal plants usage by the indigenous ethnic tribal community from the Peren district of Nagaland, India in the Indo-Burma Hotspot. The pioneer study was based on the semi-structured interview of locals (N = 240) in the 12 villages of the Peren District during 2014 ‐ 2018. In total, 179 ethnomedicinal plants from 140 genera and 72 families were documented and identified. The medicinal plants were used for the treatment of 96 different ailments grouped into 18 categories. The medicinal plants also showed high versatile nature with 85 species reported to treat five / eleven different ailments, respectively. The ethnobotanical information obtained from the field documentation will contribute in the development of potential drugs in the future from the diverse wild medicinal plants of the region and contribute towards the preservation of the oral tradition that is disappearing.     

基于专利分析的转基因药用植物技术发展趋势研究

据世界卫生组织不完全统计,药用植物在发展中国家和发达国家的使用量均逐年上升。随着对药用植物需求和消耗的不断增加,许多药用植物资源急剧减少。面对日趋严峻的药用植物资源,利用转基因技术进行品种改良,提高其有效成分含量成为研究的重要方向之一。基于德温特数据库的专利信息,对收录的有关转基因药用植物领域的专利文献进行统计分析,分别从全球和中国本土两个层面对转基因药用植物的研究现状、核心技术、研究热点、技术分布与格局等方面进行研究。结果表明,在转基因药用植物领域美国技术实力最强,而中国专利数量名列前茅,但其国际影响力尚且不足。研究结果为相关企业和科研机构掌握转基因药用植物的发展趋势提供必要的情报支持。