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作物学报 ›› 2016, Vol. 42 ›› Issue (03): 407-414.doi: 10.3724/SP.J.1006.2016.00407

• 作物遗传育种·种质资源·分子遗传学 • 上一篇    下一篇

农作物种质资源本体构建研究

陈丽娜1,2,方沩1,司海平3,曹永生1,*   

  1. 1中国农业科学院作物科学研究所，北京100081；2商丘师范学院计算机与信息技术学院，河南商丘476000；3河南农业大学信息与管理科学学院，河南郑州450002
  • 收稿日期:2015-08-09 修回日期:2015-11-20 出版日期:2016-03-12 网络出版日期:2015-12-18
  • 通讯作者: 曹永生, E-mail: caoyongsheng@caas.cn, Tel: 010-62186693
  • 基金资助:

    本研究由国家农作物种质资源平台(2005DKA21001)和国家星火计划(2014GA750011)项目资助。

Ontology Construction of Crop Germplasm Resources

CHEN Li-Na1,2,FANG Wei1,SI Hai-Ping3,CAO Yong-Sheng1,*   

  1. 1Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing100081, China;2Department of Computer and Information Technology, Shangqiu Normal College, Shangqiu476000, China；3College of Information and Management Science, Henan Agricultural University, Zhengzhou450002,China
  • Received:2015-08-09 Revised:2015-11-20 Published:2016-03-12 Published online:2015-12-18
  • Contact: 曹永生, E-mail: caoyongsheng@caas.cn, Tel: 010-62186693
  • Supported by:

    This study was supported by National Infrastructure for Crop Germplasm Resources(2005DKA21001) and ChinaSpark Program(2014GA750011).

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摘要：

本体是一种能够有效提高农作物种质资源整合、共享和利用效率的组织方式。在分析传统本体构建方法的基础上，结合中国农作物种质资源自身的特点，提出结构化数据与非结构化数据相结合的半自动化本体构建方法。该方法首先基于面向对象的思想从关系数据库中抽取概念及其关系建立初始本体；然后从非结构化的网站数据中提取概念，并利用在线字典WordNet和网络百科全书Wikipedia丰富概念的语义，完善初始本体。使用本体构建工具Protégé构建了农作物种质资源本体模型。实验表明，该方法既充分利用了数据库中的资源，又考虑了非结构化数据的补充作用，减少了构建成本，本体更加完善。探讨了本体进化的途径，指出了本研究的优点和局限性。

关键词: 农作物种质资源, 本体, 结构化数据, 非结构化数据

Abstract:

Ontology is an efficient organization for improving integration, sharing and use efficiency of crop germplasm resources.On the basis of analyzing traditional ontology construction methods and characteristics of national crop germplasm resources, a semi-automated ontology construction method combining structured data and unstructured data was proposed. The method established initial ontology by extracting concepts and their relationship from relational database based on object-oriented approach, then,extracted concepts from unstructured web data, and enriched the semantic of these concepts using online dictionaries such as WordNet and online encyclopedia Wikipedia, so as to improve the initial ontology. Crop germplasm resources ontology modelwas constructed using Protégé, an ontology construction tool. The experimental results showed that the method made the database resources fully utilized, the complementary role of unstructured data considered, the cost of ontology construction reduced, and the ontology more perfected. The paper discussed ontology evolutionway, and pointed out the advantages and disadvantages of the study.

Key words: Crop germplasm resources, Ontology, Structured data, Unstructured data

[1]卢新雄,曹永生. 作物种质资源保存现状与展望.中国农业科技导报,2001,3(3):43–47

Lu X X, CaoY S. Current status and prospect of crop germplasm resources for Ex situ conservation.Revi China Agric Sci Technol,2001, 3(3):43–47 (in Chinese with English abstract)

[2]Ashburner M, Ball C A, Blake J A, Botstein D, Butler H, Cherry J M, Davis A P, Dolinski K,Dwight S S, Eppig J T, Harris M A,Hil D P, Issel-Tarver L, Kasarskis A, Lewis S, MateseJ C, Richardson J E, Ringwald M, Rubin G M, Sherlock G. Gene Ontology: tool for the unification of biology. Nat Genet, 2000,25(1): 25–29

[3]Kawtrakul A. Ontology engineering and knowledge services for agriculture domain. J Integr Agric, 2012, 11: 741–751

[4]常春. 联合国粮食与农业组织AOS项目. 农业图书情报学刊, 2003, (2): 14–15

Chang C. AOS project of Food and Agricultural Organization of the United Nation. J Lib Inform Sci Agric, 2003, (2): 14–15 (in Chinese with English abstract)

[5]Cooper L, Walls R L, Elser J, Gandolfo M A, Stevenson D W, Smith B, Preece J, Athreya B, MungallC J, Rensing S, Hiss M, Lang D, Reski R, Berardini T Z, Li D H, Huala E, Schaeffer M, Menda N, Arnaud E, Shrestha R, Yamazaki Y,and Jaiswal P. The plant ontology as a tool for comparative plant anatomy and genomic analyses. Plant Cell Physiol, 2013, 54(2): e1

[6]Matteis L, Chibon P Y, Espinosa H, Skofic M, Finkers R, Bruskiewich R,Hyman G,Arnaud E. Crop ontology: vocabulary for crop-related concepts. Semant Biodiversity (S4BioDiv 2013), 2013,979: 37–45

[7]李景. 本体理论及在农业文献检索系统中的应用研究——以花卉学本体建模为例. 中国科学院博士学位论文, 北京, 2004

Li J.Study on the Theory and Practice of Ontology and Ontology-Based Agricultural Document Retrieval System-FloriculturalOntology Modeling.PhD Dissertation of Chinese Academy of Sciences,Beijing, China, 2004 (in Chinese with English abstract)

[8]于红, 刘溪婧. 基于知识库的渔业领域本体学习算法.大连海洋大学学报, 2011, 26(2): 168–172

Yu H, Liu X J. Knowledge base based fisheries ontology learning algorithm. J Dalian Ocean Univ, 2011, 26(2): 168–172 (in Chinese with English abstract)

[9]张柳, 黄春毅. “农作物栽培” 领域本体的构建. 农业图书情报学刊, 2009,21(1): 68–72

Zhang L, Huang C Y. Establishment of ontology on crops cultivation domain.J Lib Inform Sci Agric, 2009, 21(1): 68–72(in Chinese with English abstract)

[10]姜海燕, 朱艳,汤亮, 花登峰, 曹卫星. 基于本体的作物系统模拟框架构建研究.中国农业科学, 2009, 42: 1207–1214

Jiang H Y, Zhu Y, Tang L, Hua D F, Cao W X. Study on ontology-based framework of crop system simulation. Sci Agric Sin, 2009, 42: 1207–1214(in Chinese with English abstract)

[11]Uschold M, Gruninger M. Ontologies: Principles, methods and applications. Knowledge Eng Rev, 1996, 11: 93–136

[12]张文秀, 朱庆华. 领域本体的构建方法研究.图书与情报, 2011, 155(1): 16–19

Zhang W X, Zhu Q X. Research on construction methods of domain ontology. Library and Information, 2011, 155(1): 16–19 (in Chinese with English abstract)

[13]陈琨,张蕾. 基于知识图的领域本体构建方法.计算机应用, 2011, 31: 1664–1666

Chen K, Zhang L. Domain ontology construction method based on knowledge graphs. J Comput Appl, 2011, 31: 1664–1666 (in Chinese with English abstract)

[14]张云中. 一种基于FCA和Folksonomy的本体构建方法.现代图书情报技术, 2011, 27(12): 15–23

Zhang Y Z. A new ontology construction method based on FCA and Folksonomy. New Technol Lib Inform Serv, 2011, 27(12): 15–23(in Chinese with English abstract)

[15]丁晟春, 傅柱. 基于航天叙词表的领域本体半自动化构建研究.情报理论与实践, 2011, 34(11): 113–116

Ding C C, Fu Z. Research on domain ontology semi-automated construction based on aerospace thesaurus. Inform Studies: Theor Appl, 2011, 34(11): 113–116(in Chinese with English abstract)

[16]李亢, 李新明, 刘东.面向数据语义集成的装备领域本体构建研究.系统仿真学报, 2015, 27: 1071–1080

Li K, Li X X, Liu D. Study on equipment domain ontology construction for integration of data semantics. J Syst Simul, 2015, 27: 1071–1080(in Chinese with English abstract)

[17]曹永生,方沩. 国家农作物种质资源平台的建立和应用.生物多样性, 2010, 18: 454–460

Cao Y S, Fang W. Establishment and application of national crop germplasm resources infrastructure in China. Biodiversity Sci, 2010, 18: 454–460 (in Chinese with English abstract)

[18]胡军伟, 秦奕青, 张伟.正则表达式在Web信息抽取中的应用.北京信息科技大学学报, 2011,26(6):86–89

Hu J W, Qin Y Q, Zhang W. Regular expression and its applications to web information extraction. J Beijing Inform Sci Technol Univ, 2011, 26(6):86–89(in Chinese with English abstract)

[19]李朝,彭宏,叶苏南,张欢,杨亲遥. 基于DOM树的可适应性Web信息抽取.计算机科学, 2009, 36(7): 202–203

Li C, Peng H, Ye S N, Zhang H, Yang Q Y. Adaptive Web Information Extraction Based on DOM Tree. Comput Sci, 2009, 36(7): 202–203(in Chinese with English abstract)

[20]Miller G A. WordNet: a lexical database for English. Commun ACM, 1995, 38(11): 39–41

[21]Lehmann J, Isele R, Jakob M, Jentzsch A, Kontokostas D, Mendesf P N, Hellmann S, Morsey M, Kleef P V, Auer S, Bizer C. DBpedia-a large-scale, multilingual knowledge base extracted from wikipedia. Semant Web J, 2014, 5: 1–29

[22]Abburu S, Babu G S. Survey on Ontology Construction Tools.IntJ Sci Eng Res, 2013, 4:1748–1752

[23]李立会, 杨欣明.小麦野生近缘植物种质资源描述规范和数据标准. 北京:中国农业出版社,2006

Li L H, Yang X M. Descriptors and Data Standard for Wild Relatives of Wheat(Wild Species of Triticeae). Beijing: China Agriculture Press, 2006

[24]马文峰, 杜小勇. 领域本体进化研究.图书情报工作, 2006, 50(6): 71–75

Ma W F, Du X Y.A study on domain ontology evolution. Lib Inform Ser, 2006, 50(6): 71–75(in Chinese with English abstract)
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