生物数据标准化研究进展

随着生物测序技术的快速发展,积累了海量的生物数据。生物数据资源作为生物分析研究及应用的核心和源头,为保证数据的正确性、可用性和安全性,对生物数据资源进行标准化的管理非常重要和迫切。本文综述了目前国内外生物数据标准化研制进展,目前国内外对生物数据缺少一个总体的规划,生物数据语义存在大量的不兼容性,数据格式多种多样,在生物数据收集、处理、存储和共享等方面缺乏统一的标准。国内外生物数据标准化处于起步阶段,但各国生物专家都在努力进行标准研制工作。文章最后从生物数据术语、生物数据资源收集、处理和交换、存储、生物数据库建设和生物数据伦理规范等方面出发,对标准研制工作进行一一探讨,期望能为生物数据标准制定提供一定的参考和依据。     

生物地理学的新认识及其方法在多样性保护中的应用

近年来,众多分子证据和古生物学证据的出现促进了对生物地理学领域一些关键问题(如,扩散和隔离)的理解,并达成了较为统一的认识:1)扩散和隔离都是解释生物地理学格局的重要假说,并可能同时影响了生物的分布格局;2)历史生物地理学和生态生物地理学不是截然割裂的,两者结合起来有助于从不同层次上理解生物地理和生物多样性格局;3)不同的生物地理学研究方法应相互补充以揭示复杂的生物地理过程。学科思想的演变也使得生物地理学研究内容发生变化,本文还综述了当今生物地理学所关注的科学问题,并重点论述了生物地理学方法在生物多样性保护中的应用。     

生物多样性产品价值实现的路径与制度安排——国外生物多样性银行经验借鉴与启示

实现生物多样性价值是激励保护者保护生物多样性、构建保护者与受益者的良性互动关系、推动生物多样性保护、实现经济社会可持续发展的重要手段。美国、澳大利亚等国家通过实施生物多样性银行制度,借助市场力量交易生物多样性信用,实现生物物种的价值,实现了生物多样性保护目标。在明确生物多样性概念和价值的基础上,系统梳理了国外生物多样性银行制度的产生与发展、生物多样性银行的设立与运营,重点阐释了如何交易“生物多样性信用”。在此基础上,总结生物多样性银行制度对我国的经验借鉴,并从制度保障、市场体系构建和保护绩效评价三方面提出我国建立生物多样性银行的政策建议。研究结论可为我国推动生物多样性产品价值实现提供参考与借鉴。     

第一届全国生物多样性监测研讨会第一轮通知

<正>生物多样性监测是对生物多样性组成和变化进行的有计划的观察和记录,对生物多样性进行监测是生态学研究、物种保护管理和资源可持续利用的核心环节,是评估生物多样性保护进展的最有效途径。为了中国生物多样性实施全面长期监测,在全国范围内组建生物多样性专业监测和研究队伍,建立全国生物多样性监测信息数据共享平台,定期发布生物多样性动态变化数据和综合分析研究成果,中国科学院科技促进发展局、国际生物多样性计划中国委员会、中国科学院生物多样性委     

四川省生物多样性基础数据库信息系统

生物多样性本底信息是开展生物多样性评价的基础,现有的生物多样性数据分布比较分散,不同的数据掌握在不同的部门,没有得到很好整合。同时,由于缺乏物种分布的空间信息,生物多样性数据很难满足环境影响评价中生物多样性评价的需求,生物多样性评价一般只限于简单的定性分析。为了促使生物多样性评价工作能更深入的开展,切实有效地保护生物多样性资源,以四川省(重点以甘孜州)为研究案例,整合了现有的生物多样性数据资源,主要包括四川省自然保护区生物多样性数据、甘孜州水生和陆生生物多样性数据、四川省环境敏感区数据以及生物多样性现场调查数据等,建立了四川省生物多样性基础数据库,同时通过数据库开发和网络开发,建立了数据库信息系统,实现了生物多样性空间数据库和属性数据库的查询检索、数据显示等功能。     

生物同质化研究透视

生物同质化是指特定时间段内两个或多个生物区在生物组成和功能上的趋同化过程, 包括遗传同质化、 种类组成同质化和功能同质化三个方面。近年来, 生物同质化问题已引起生态学界的高度重视, 成为保护生物地理学的一个全新议题, 但在国内的相关研究较少。本文从生物同质化概念的发展历程入手, 对生物同质化三个方面的度量方法和驱动因素分别做了介绍和评述, 指出外来物种入侵和本土物种灭绝是导致生物同质化的最主要原因, 其他能促进这两个过程的活动, 如环境退化和干扰、城市化和生境同质化等都会对生物同质化有影响; 生物同质化具尺度效应, 在不同生物地理区域以及不同生态系统和生物类群之间, 生物同质化程度不同, 主要驱动力也各异。探讨了生物同质化在生态、生物进化和人文经济方面的影响以及生物同质化与生物多样性保护的关系。最后对我国开展生物同质化研究的必要性和需要解决的问题做了探讨, 以期能推动生物同质化研究在我国的发展。     

生物基聚酰胺研究进展

生物基聚酰胺是指制备聚酰胺的原料来源于生物质材料,生物基聚酰胺的原料主要有生物基氨基酸、生物基内酰胺、生物基二元酸、生物基二元胺等。本文论述了不同生物基原料的来源、制备方法以及相应的生物基聚酰胺的性能;重点论述了生物基聚酰胺PA11和PA1010的原料制备方法、合成方法以及改性研究进展;对生物基聚酰胺的种类、产业化研究现状进行了总结,并对我国生物基聚酰胺的发展提出建议。     

植物细胞大规模培养生物反应器研制概况

本文对植物细胞培养中使用的搅拌式生物反应器,气升式生物反应器,固定化细胞生物反应器,光照培养生物反应器和其它新型生物反应器装置进行了全面的评述。     

生物基化学品生产合成橡胶技术正在脱颖而出

虽然生物基化学品仍然处于发展阶段,但是生物质原料转化成能源已经是一个成熟的技术,生物基化学品（尤其是生物基异丁烯、生物基丁二烯、生物基异戊二烯和生物基乙烯）生产合成橡胶技术正在脱颍而出。     

国内简讯

生物柴油联产乳酸完善产业链中国科学院西双版纳热带植物园生物能源组日前在生物柴油制备及副产物甘油高附加值转化方面取得新进展。新工艺在获得生物柴油高转化率的同时,还充分利用了副产物甘油,使生物柴油生产链更加完整。该生物能源组经过大量实验研究,提出生物柴油与乳酸联产的新工艺——以固体硅酸钠为催化剂,联     

Book reviews

Books reviewed in this article:
BICKEL, P. J. and DOKSUM, K. A. Mathematical Statistics: Basic Ideas and Selected Topics, Volume I, 2nd edition.
BALDI, P. and BRUNAK, S. Bioinformatics: The Machine Learning Approach, 2nd edition.
GATSONIS, C., KASS, R. E., CARLIN, B., CARRIQUIRY, A., GELMAN, A., VERDINELLI, I. and WEST, M. (editors). Case Studies in Bayesian Statistics: Volume V.
LAWSON, A. B. and WILLIAMS, F. L. R. An Introductory Guide to Disease Mapping.
MACLEOD, N. and FOREY, P. L. (editors). Morphology, Shape, and Phylogeny.
FINKELSTEIN, M. O. and LEVIN, B. Statistics for Lawyers, 2nd edition.
ZWILLINGER, D. and KOKOSKA, S. CRC Standard Probability and Statistics Tables and Formulae.
WILSON, R. and CROUCH, E. A. C. Risk-Benefit Analysis.
IBRAHIM, J. G., CHEN, M.-H. and SINHA, D. Bayesian Survival Analysis.     

Comparative Evaluation of Trace Metal Distribution and Correlation in Human Malignant and Benign Breast Tissues

Selected trace metals were analyzed in human malignant and nonmalignant (benign) breast tissue samples by the flame atomic absorption spectrophotometric method. In malignant tissues, dominant mean concentrations were revealed by Na, K, Ca, Mg, Fe, Zn, and Al at 927, 552, 231, 61.7, 36.5, 18.3, and 8.94 microg/g, respectively, while the mean metal levels in benign tissues were 903, 435, 183, 63.3, 24.7, 14.5, and 10.1 microg/g, respectively. Average concentrations of Cd, Co, Cr, Cu, Fe, Mn, K, Ca, and Zn were noted to be significantly higher in the malignant tissues compared with the benign tissues. Significantly strong correlations (r > 0.50) in malignant tissues were observed between Mn and Co, Mn and Cd, Cd and Cr, Fe and Mn, Cd and Co, Fe and Co, Mg and Pb, Cd and Fe, Mg and Ni, Pb and Ni, Ni and Sr, and Fe and Pb, whereas, Cd and Co, Cd and Mn, Co and Mg, Co and Mn, Cu and Mn, Co and Ni, Mg and Ni, Cd and Cu, Cd and Ni, Ca and Mg, Mn and Pb, Cu and Ni, Fe and Ni, Cd and Mg, Co and Cu, Cr and Na, and Cd and Cr revealed strong and significant relationships in benign tissues at p < 0.001. Principal component analysis of the metals data yielded six principal components for malignant tissues and five principal components for benign tissues, with considerably different loadings, duly supported by cluster analysis. The study revealed a considerably different pattern of distribution and mutual correlations of trace metals in the breast tissues of benign and cancerous patients.     

中国14个特殊旁系族群的头面部特征比较

头面部特征是人类学各人种进行分类的重要依据,在人类学的研究中被用作亲缘关系的证据。2006-2016年在四川、云南、西藏、贵州、海南、新疆、内蒙古共调查14个族群成人2989人(男性1434人,女性1555人)的16项头面部指标,比较这些族群头面部特征差异。研究结果如下:1)在男性族群中木雅人、尔苏人、临高人、白马人的面宽、头宽均较大。图瓦人、布里亚特人、摩梭人的面宽、头宽、形态面高、鼻高值均较大。僜人、革家人、莽人的面宽、头宽较小,而形态面高、鼻高值较大。空格人的面宽、头宽、形态面高、鼻高值均较小。2)在女性族群中图瓦人、布里亚特人的头宽、面宽、鼻高、耳上头高均较大。革家人、空格人的头宽、面宽、鼻高、耳上头高均较小。木雅人、尔苏人、八甲人、白马人、夏尔巴人的头宽、面宽较大,鼻高、耳上头高较小。僜人、克木人、莽人的头宽、面宽较小,而鼻高、耳上头高较大。3)头宽、容貌耳长跟纬度、年平均气温、年降雨量等环境因子相关性较高。4)通过聚类分析和主成分分析木雅人、尔苏人、白马人与羌族头面部特征比较接近。克木人与佤族头面部特征最为接近。革家人、僜人、莽人头面部特征比较接近。图瓦人、布里亚特人头面部...     

Book Reviews

McCONWAY, K. J., JONES, M. C., and TAYLOR, P. C. Statistical Modelling using Genstat. SCHINAZI, R. B. Classical and Spatial Point Processes. PERRY, J. E., SMITH, R. H., WOIWOD, I. P., and MORSE, D. R. (editors). Chaos in Real Data: The Analysis of Non‐linear Dynamics from Short Ecological Time Series. BURTON, R. F. Physiology by Numbers, 2nd edition. BERLINER, L. M., NYCHKA, D., and HOAR, T. (editors). Studies in the Atmospheric Sciences. PRAKASA RAO, B. L. S. Statistical Inference for Diffusion Type Processes. DONNER, A. and KLAR, N. Design and Analysis of Cluster Randomization Trials in Health Research. MATIS, J. H. and KIFFE, T. R. Stochastic Population Models: A Compartmental Perspective. LINDSEY, J. K. Models for Repeated Measurements, 2nd edition. FORD, E. D. Scientific Method for Ecological Research. BURNHAM, K. P. and ANDERSON, D. R. Model Selection and Inference: A Practical Information‐Theoretic Approach. COX, D. R. and REID, N. The Theory of the Design of Experiments. PINHEIRO, J. C. and BATES, D. M. Mixed‐effects models in S and S‐PLUS. VENABLES, W. N. and RIPLEY, B. D. S Programming. KRAUSE, A. and OLSON, M. The Basics of S and S‐PLUS. CHEN, M.‐H., SHAO, Q.‐M., and IBRAHIM, J. G. Monte Carlo Methods in Bayesian Computation. SAHAI, H. and AGEEL, M. L. The Analysis of Variance: Fixed, Random, and Mixed Models. EVERITT, B. S. and DUNN, G. Statistical Analysis of Medical Data: New Developments. MUKHOPADHYAY, N. Probability and Statistical Inference. KNIGHT, K. Mathematical Statistics. Brief reports by the editor MILLER, R. E. Optimization: Foundations and Applications. BLAND, M. An Introduction to Medical Statistics, 3rd edition. RABE‐HESKETH, S. and EVERITT, B. A Handbook of Statistical Analyses using Stata, 2nd edition. KOO, J. O. (editor). American Series in Mathematical and Management Sciences Volume 42. Modern Mathematical, Management, and Statistical Sciences, The Index to the 20th Century, Prologue to the 21st Century. MISHRA, S. N. and SHARMA, B. D. (editors). American Series in Mathematical and Management Sciences Volume 43. FIM‐I, Forum for Interdisciplinary Mathematics Proceedings on Statistical Inference, Combinatorics and Related Areas, Volume I of Proceedings of Banaras Hindu University (BHU) Conference (Varanasi, India, December 1997). VENABLES, W. N. and RIPLEY, B. D. Modern Applied Statistics with S‐PLUS, 3rd edition.     

Quantification and characterisation of cyclo-oxygenase and lipid peroxidation inhibitory anthocyanins in fruits of Amelanchier

The levels of bioactive anthocyanins in the fruits of Amelanchier alnifolia, A. arborea and A. canadensis have been determined by HPLC. Cyanidin 3-galactoside (1) was present in the fresh fruit of the three species at concentrations of 155, 390 and 165 mg/100 g, respectively. Cyanidin 3-glucoside (2) was present only in A. alnifolia and A. canadensis at concentrations of 54 and 48 mg/100 g, respectively. The anthocyanins were confirmed by LC-ESI/MS and NMR studies. At 100 ppm, anthocyanin mixtures from the three species inhibited cyclo-oxygenase (COX)-1 and -2 enzymes at 66 and 67%, 60 and 72%, and 51 and 76%, respectively. The positive controls used in the COX assays were aspirin, Celebrex and Vioxx at 180, 1.67 and 1.67 ppm, respectively, and showed 74 and 69%, 5 and 82% and 0 and 85% COX-1 and COX-2 inhibition, respectively. Anthocyanins 1 and 2 and cyanidin (3) inhibited COX-1 enzyme 50.5, 45.62 and 96.36%, respectively, at 100 ppm, whereas COX-2 inhibition was the highest for 3 at 75%. In the lipid peroxidation inhibitory assay, anthocyanin mixtures at 10 ppm from the three species showed activities of 72, 73 and 68%, respectively, compared with 89, 87 and 98% for commercial anti-oxidants butylated hydoxyanisole, butylated hydroxytoluene, and tert-butylhydroxyquinone at 1.67, 2.2 and 1.67 ppm, respectively. At 10 ppm, compounds 1-3 inhibited lipid peroxidation by 70, 75 and 78%, respectively.     

Book Reviews

OWEN, A. B. Empirical Likelihood. GORE, A. and PARANJPE, S. A Course in Mathematical and Statistical Ecology. PAWITAN, Y. In All Likelihood: Statistical Modelling and Inference Using Likelihood. GASTWIRTH, J. L. (editor). Statistical Science in the Courtroom. MUKHOPADHYAY, P. Topics in Survey Sampling. RASHIDI, H. H. and BUEHLER, L. K. Bioinformatics Basics: Applications in Biological Science and Medicine. MUELLER, L. D. and JOSHI, A. Stability in Model Populations. DUFFY, S. W., HILL, C. and ESTEVE, J. (editors). Quantitative Methods for the Evaluation of Cancer Screening. FERNHOLZ, L. T., MORGENTHALER, S. and STAHEL, W. Statistics in Genetics and in the Environmental Sciences. RAYNER, J. C. W. and BEST, D. J. A Contingency Table Approach to Nonparametric Testing. GOLYANDINA, N., NEKRUTKIN, V. and ZHIGLJAVSKY, A. Analysis of Time Series Structure: SSA and Related Techniques. MARI, D. D. and KOTZ, S. Correlation and Dependence. SALSBURG, D. The Lady Tasting Tea: How Statistics Revolutionized Science in the Twentieth Century. W. FAHRMEIR, L. and TUTZ, G. Multivariate Statistical Modelling Based on Generalized Linear Models, 2nd edition. WILCOX, R. R. Fundamentals of Modern Statistical Methods: Substantially Improving Power and Accuracy. DAVID, H. A. and EDWARDS, A. W. F. Annotated Readings in the History of Statistics. ELLIOTT, P., WAKEFIELD, J. C., BEST, N. G. and BRIGGS, D. J. (editors). Spatial Epidemiology: Methods and Applications. Brief reports by the editor BARNDORFF‐NIELSEN, O. E., MIKOSCH, T. and RESNICK, S. I. (editors) LéAvy Processes: Theory and Applications. MACARTHUR, R. H. and WILSON, E. O. The Theory of Island Biogeography. ROGERS, L. Sexing the Brain.     

中国丝孢酵母属的几个新种和新记录

作者从中国的北京、湖北等地的鸟粪,霉变柿子以及酒药中分离到了三株未描述的丝孢酵母菌。本文描述了这三个新种:板仓丝孢酵母(Trichosporon bancangense),北京丝孢酵母(Tr.beijingense)和中国丝孢酵母(Tr.sinense)并讨论了它们与属中近似种的差别。本文还发现了丝孢酵母属的4个新记录:皮刺丝孢酵母(Tr.aculeatum),埃利丝孢酵母(Tr.eriense),斐氏丝孢酵母(Tr.figueriae)和蜜二糖丝孢酵母(Tr.melibiosaceam)。     

藏中矿区珠芽蓼和尼泊尔酸模中重金属含量分析

西藏中部主要是指雅鲁藏布江河谷地带,包括拉萨、日喀则和泽当等地市,是西藏自治区的主要农区和工业矿区。西藏中部矿产资源丰富,其中cu的远景储量居全国第2位[1]。矿产的开发给当地居民带来巨大的经济效益,但同时也排放大量含有重金属的废渣、废水和废气,导致土壤重金属污染严重。土壤是中草药中重金属的主要来源之一,中草药中的重金属含量与地质背景有密切的关系,土壤中重金属元素的多寡在药用植物中都有所表现[2];土壤重金属污染对中草药品质有影响甚至危及人类健康[3]。近年来植物药在国际市场逐渐升温,传统医药在日益受到人们青睐的同时其质量与安全性也成为公众关注的焦点[4-6]。     

Microbial reclamation of shellfish wastes for the production of chitinases

Shrimp and crab shell powder (SCSP), prepared by treating shellfish processing waste with boiling and crushing, was used as a substrate for isolating chitinolytic microorganisms. Three potential strains (E1, J1, and J1-1) were isolated and identified as Bacillus cereus, B. alvei, and B. sphaericus, respectively. Three extracellular chitinases (FB1, FB2, and FB3) were purified from the culture supernatants of Bacillus cereus E1, B. alvei J1, and B. sphaericus J1-1, respectively. The molecular weights of FB1, FB2, and FB3 were 71,000, 71,000, and 65,000, respectively, by SDS-PAGE. The pIs for FB1, FB2, and FB3 were 7.1, 7.2, and 7.4, respectively. The optimum pH, optimum temperature, pH stability, and thermal stability of FB1 were pH 9, 50 degrees C, pH 7 to 10, and 70 degrees C; those of FB2 were pH 9, 60 degrees C, pH 5 to 9, and 70 degrees C; and those of FB3 were pH 7, 50 degrees C, pH 5 to 9, and 60 degrees C. The activities of all enzymes were strongly inhibited by Hg(2+) and completely inhibited by glutathione, dithiothreitol, and 2-mercaptoethanol.