基于文献分析的国际国内种间关系知识图谱分析
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摘要
针对国际国内种间关系研究科技文献数量过多、无法快速和有效分析等问题,利用信息可视化、共引分析、共词分析等方法和技术,以种间关系(Interspecific relationship)为检索词,借助Citespace软件对相关研究文献的学科分布、高被引文献进行图谱绘制,直观地展示和分析国际国内的研究热点。结果表明:种间关系检索结果包括不同种之间的相互作用关系和同种的遗传系统学关系2个方面,国际上的研究主要集中在微观的分子遗传系统学方面,而国内目前则在较为宏观的生态学物种相互作用方面。国际上关于种间关系的研究主要分布在环境科学、生态学、植物科学、动物科学和生物进化学等学科领域。为科研人员提供了极大的帮助和服务而受到广泛引用的、关于种间关系研究的软件(程序)信息具有高共被引频次。在研究热点方面,有关同一物种的进化(特别是分子水平)、发展方面的研究较多,随着分子生物学技术的发展,一些关于分子系统学的新方法和新技术为相关研究提供了新的视野,成为种间关系研究的热点。国内关于种间关系的研究起步较早,但有研究空白期,关于生态系统中混交林种群内或种群间的生态位以及功能与作用方面的研究较多,在遗传分子水平方面的相关研究迟滞于国际上,以遗传多样性、系统发育、RAPD技术、亲缘关系等关键词为研究热点的出现,相关研究发展迅速。
This study has done visual analysis of international and domestic interspecific relationship.Based on analytic techniques such as information visualization,co-citation analysis and co-appearance analysis,which mapped the co-citation network,hot words of most cited papers and frontier on interspecific relationship using the Citespace software.The study conducted the co-citation and network analysis and subject areas,keyword and term co-appearance analysis of interspecific relationship on the data downloaded from the Web of Science at Institute for Scientific Information,used the basedata sources,conducted the keyword co-appearance network analysis of domestic interspecific relationship on the data download from the China National Knowledge Infrastructure(CNKI),which was one of the toppest number published platforms.The results showed that,the search results of interspecific relationship included two aspects of content:one was the interaction of different populations,another was the genetic systematics of the one species.International research mainly concentrated in the field of molecular genetic systematics,and in national research currently in the aspect of ecological interaction of different populations.The subject areas of international research about interspecific relationship were mainly distribution in environmental science,ecology,plant science,animal science and biological chemistry.The softwares(or programs)which could provide great helps and study services had the high co-citation frequency.In the study of hot spots,the evolution(especially molecular level)and development of same species had more research results,with the development of molecular biology,molecular systematics of the new methods and technologies for related research which provided the new field of vision,had become a hot research topic.The domestic studies on interspecific relationship started earlier,but the there was the blank period of studies,there were more studies on the ecological system of mixed forests within the group or the niche and the functions or effects between the population,however,the studies about genetic and molecular level were later than other countries in the world.With the keywords of genetic diversity,phylogenetic relationship,RAPD technology,etc.the related researches had developed rapidly.
This study has done visual analysis of international and domestic interspecific relationship.Based on analytic techniques such as information visualization,co-citation analysis and co-appearance analysis,which mapped the co-citation network,hot words of most cited papers and frontier on interspecific relationship using the Citespace software.The study conducted the co-citation and network analysis and subject areas,keyword and term co-appearance analysis of interspecific relationship on the data downloaded from the Web of Science at Institute for Scientific Information,used the basedata sources,conducted the keyword co-appearance network analysis of domestic interspecific relationship on the data download from the China National Knowledge Infrastructure(CNKI),which was one of the toppest number published platforms.The results showed that,the search results of interspecific relationship included two aspects of content:one was the interaction of different populations,another was the genetic systematics of the one species.International research mainly concentrated in the field of molecular genetic systematics,and in national research currently in the aspect of ecological interaction of different populations.The subject areas of international research about interspecific relationship were mainly distribution in environmental science,ecology,plant science,animal science and biological chemistry.The softwares(or programs)which could provide great helps and study services had the high co-citation frequency.In the study of hot spots,the evolution(especially molecular level)and development of same species had more research results,with the development of molecular biology,molecular systematics of the new methods and technologies for related research which provided the new field of vision,had become a hot research topic.The domestic studies on interspecific relationship started earlier,but the there was the blank period of studies,there were more studies on the ecological system of mixed forests within the group or the niche and the functions or effects between the population,however,the studies about genetic and molecular level were later than other countries in the world.With the keywords of genetic diversity,phylogenetic relationship,RAPD technology,etc.the related researches had developed rapidly.
引文
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[8]陈伟,薛立.根系间的相互作用—竞争与互利[J].生态学报,2004,24(6):1243-1251.
[9]王政权,张彦东.水曲柳落叶松根系之间的相互作用研究[J].植物生态学报,2000,24(3):346-350.
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[13]贾呈鑫卓,李帅锋,苏建荣,等.择伐对思茅松天然林乔木种间与种内关系的影响[J].植物生态学报,2014,38(12):1296-1306.
[14]胡秀芳,赵军,查书平,等.生态安全研究的主题漂移与趋势分析[J].生态学报,2015,35(21):6934-6946.
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[17]吴健,王敏,靳志辉,等.土壤环境中多环芳烃研究的回顾与展望:基于Web of Science大数据的文献计量分析[J].土壤学报,2016,53(5):1085-1096.
[18]党占海,赵蓉英,陈瑞,等.油料作物研究的知识图谱分析[J].中国农业大学学报,2011,16(3):178-186.
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[21]赵慧莎,李向韬,王金莲.1998-2014年国内区域旅游研究发展知识图谱:基于CiteSpace的科学计量分析[J].干旱区资源与环境,2016,30(4):203-208.
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[23]CHEN C M.Predictive effects of structural variation on citation counts[J].Journal of the American Society for Information Science and Technology,2012,63(3):431-449.
[24]CHEN C M,HU Z,LIU S,et al.Emerging trends in regenerative medicine:A scientometric analysis in CiteSpace[J].Expert Opinion on Biological Therapy,2012,12(5):593-608.
[25]CHEN C M.Searching for intellectual turning points:progressive knowledge domain visualization[J].Proceedings of the National Academy of Sciences of the United States of America,2004,101(suppl):5303-5310.
[26]CHEN C M,LEYDESDORFF L.Patterns of connections and movements in dual-map overlays:A new method of publication portfolio analysis[J].Journal of the Association for Information Science and Technology,2014,65(2):334-351.
[27]陈超美,陈悦,侯剑华,等.CiteSpaceⅡ:科学文献中新趋势与新动态的识别与可视化[J].情报学报,2009,28(3):401-421.
[28]TAMURA K,PETERSON D,PETERSON N,et al.MEGA5:Molecular evolutionary genetics analysis using maximum likelihood,evolutionary distance,and maximum parsimony methods[J].Molecular Biology&Evolution,2011,28(10):2731-2739.
[29]TAMURA K.MEGA4:Molecular evolutionary genetics analysis(MEGA)software Version 4.0[J].Mol Biol Evol,2007,24(8):1596-1599.
[30]SWOFFORD D.PAUP:Phylogenetic analysis using parsimony(*and Other Methods)Version 4.0b10[C].Sunderland:Sinauer Associates,2002.
[31]CHEN C M,MORRIS S.Visualizing evolving networks:Minimum spanning trees versus pathfinder networks[C].Seattle:IEEE Computer Society,2003.
[32]姜春林,刘盛博,丁堃.《中国科技期刊研究》研究热点及其演进知识图谱[J].中国科技期刊研究,2008,19(6):954-958.
[33]POSADA D,CRANDALL K A.MODELTEST:Testing the model of DNA substitution[J].Bioinformatics,1998,14(9):817-818.
[34]HUELSENBECK J P,RONQUIST F.MRBAYES:Bayesian inference of phylogenetic trees[J].Bioinformatics,2001,17(8):754-755.
[35]RONQUIST F,HUELSENBECK J P.MrBayes 3:Bayesian phylogenetic inference under mixed models[J].Bioinformatics,2003,19(12):1572-1574.
[36]POSADA D.Model test:Phylogenetic model averaging.[J].Molecular Biology&Evolution,2008,25(7):1253-1256.
[37]LIBRADO P,ROZAS J.DnaSP v5:A software for comprehensive analysis of DNA polymorphism data[J].Bioinformatics,2009,25(11):1451.
[38]CORE R D.R:A language and environment for statistical computing[J].Computing,2012(1):12-21.
[39]DRUMMOND A J,RAMBAUT A.BEAST:Bayesian evolutionary analysis by sampling trees[J].BMC Evolutionary Biology,2007,7(1):214.
[40]祖艳红,张慧,傅倩,等.基于CiteSpace的学科领域研究热点与前沿可视化分析:以液体燃料在催化化学领域为例[J].复旦学报(自然科学版),2016,55(4):527-533.
[41]BAIL N R,JURADO-ALAMEDA E,RUIZ-B A R,et al.Analysis of the field of physical chemistry of surfactants with the Unified Scienctometric Model.Fit of relational and activity indicators[J].Scientometrics,2005,63(2):259-276.
[42]BELVAUX G,WOLSEY L A.Bc-prod:A specialized branch-and-cut system for lot-sizing problems[J].Management Science,2000,46(5):724-738.
[43]陈悦,陈超美,胡志刚,等.引文空间分析原理与应用:CITESPACE实用指南[M].北京:科学出版社,2014.
[2]王正文,祝廷成.松嫩草原主要草本植物种间关系及其对水淹干扰的响应[J].应用生态学报,2003,14(6):892-896.
[3]张炜平,潘莎,贾昕,等.植物间正相互作用对种群动态和群落结构的影响:基于个体模型的研究进展[J].Journal of Plant Ecology,2013,37(6):571-582.
[4]张全国,张大勇,葛剑平,等.生物多样性整合研究的进展及热点:第88期“双清论坛”综述[J].生命科学,2014,26(2):97-99.
[5]BROOKER R W.Plant-plant interactions and environmental change[J].New Phytologist,2006,171(2):271-284.
[6]BROOKER R W,MAESTRE F T,CALLAWAY R M,et al.Facilitation in plant communities:The past,the present,and the future[J].Journal of Ecology,2008,96(1):18-34.
[7]VELLEND M.Effects of diversity on diversity:Consequences of competition and facilitation[J].Oikos,2008,117(7):1075-1085.
[8]陈伟,薛立.根系间的相互作用—竞争与互利[J].生态学报,2004,24(6):1243-1251.
[9]王政权,张彦东.水曲柳落叶松根系之间的相互作用研究[J].植物生态学报,2000,24(3):346-350.
[10]BRUNO J F,STACHOWICZ J J,BERTNESS M D.Inclusion of facilitation into ecological theory[J].Trends in Ecology&Evolution,2003,18(3):119-125.
[11]CALLAWAY R M.Positive interactions and interdependence in plant communities[M].Dordrecht:Springer,2007.
[12]CALLAWAY R M,WALKER L R.Competition and facilitation:A synthetic approach to interactions in plant communities[J].Ecology,1997,78(7):1958-1965.
[13]贾呈鑫卓,李帅锋,苏建荣,等.择伐对思茅松天然林乔木种间与种内关系的影响[J].植物生态学报,2014,38(12):1296-1306.
[14]胡秀芳,赵军,查书平,等.生态安全研究的主题漂移与趋势分析[J].生态学报,2015,35(21):6934-6946.
[15]肖明,孔成果.大数据:何去何从,基于文献计量学的视角[J].图书馆学刊,2014(11):110-117.
[16]陈海滨,杨禹,姜维,等.基于知识图谱的城市生活垃圾研究前沿分析[J].环境卫生工程,2015(2):1-5.
[17]吴健,王敏,靳志辉,等.土壤环境中多环芳烃研究的回顾与展望:基于Web of Science大数据的文献计量分析[J].土壤学报,2016,53(5):1085-1096.
[18]党占海,赵蓉英,陈瑞,等.油料作物研究的知识图谱分析[J].中国农业大学学报,2011,16(3):178-186.
[19]孙雨生,仇蓉蓉,邓兴.国内知识图谱研究进展:基于CiteSpaceⅡ的分析[J].现代情报,2014,34(1):84-88.
[20]CHEN C M.CiteSpace:Visualizing patterns and trends in scientific literature[EB/OL].http://cluster.ischool.drexel.edu/~cchen/citespace/download.2017-02-22.
[21]赵慧莎,李向韬,王金莲.1998-2014年国内区域旅游研究发展知识图谱:基于CiteSpace的科学计量分析[J].干旱区资源与环境,2016,30(4):203-208.
[22]CHEN C M.CiteSpace II:Detecting and visualizing emerging trends and transient patterns in scientific literature[J].Journal of the American Society for Information Science and Technology,2006,57(3):359-377.
[23]CHEN C M.Predictive effects of structural variation on citation counts[J].Journal of the American Society for Information Science and Technology,2012,63(3):431-449.
[24]CHEN C M,HU Z,LIU S,et al.Emerging trends in regenerative medicine:A scientometric analysis in CiteSpace[J].Expert Opinion on Biological Therapy,2012,12(5):593-608.
[25]CHEN C M.Searching for intellectual turning points:progressive knowledge domain visualization[J].Proceedings of the National Academy of Sciences of the United States of America,2004,101(suppl):5303-5310.
[26]CHEN C M,LEYDESDORFF L.Patterns of connections and movements in dual-map overlays:A new method of publication portfolio analysis[J].Journal of the Association for Information Science and Technology,2014,65(2):334-351.
[27]陈超美,陈悦,侯剑华,等.CiteSpaceⅡ:科学文献中新趋势与新动态的识别与可视化[J].情报学报,2009,28(3):401-421.
[28]TAMURA K,PETERSON D,PETERSON N,et al.MEGA5:Molecular evolutionary genetics analysis using maximum likelihood,evolutionary distance,and maximum parsimony methods[J].Molecular Biology&Evolution,2011,28(10):2731-2739.
[29]TAMURA K.MEGA4:Molecular evolutionary genetics analysis(MEGA)software Version 4.0[J].Mol Biol Evol,2007,24(8):1596-1599.
[30]SWOFFORD D.PAUP:Phylogenetic analysis using parsimony(*and Other Methods)Version 4.0b10[C].Sunderland:Sinauer Associates,2002.
[31]CHEN C M,MORRIS S.Visualizing evolving networks:Minimum spanning trees versus pathfinder networks[C].Seattle:IEEE Computer Society,2003.
[32]姜春林,刘盛博,丁堃.《中国科技期刊研究》研究热点及其演进知识图谱[J].中国科技期刊研究,2008,19(6):954-958.
[33]POSADA D,CRANDALL K A.MODELTEST:Testing the model of DNA substitution[J].Bioinformatics,1998,14(9):817-818.
[34]HUELSENBECK J P,RONQUIST F.MRBAYES:Bayesian inference of phylogenetic trees[J].Bioinformatics,2001,17(8):754-755.
[35]RONQUIST F,HUELSENBECK J P.MrBayes 3:Bayesian phylogenetic inference under mixed models[J].Bioinformatics,2003,19(12):1572-1574.
[36]POSADA D.Model test:Phylogenetic model averaging.[J].Molecular Biology&Evolution,2008,25(7):1253-1256.
[37]LIBRADO P,ROZAS J.DnaSP v5:A software for comprehensive analysis of DNA polymorphism data[J].Bioinformatics,2009,25(11):1451.
[38]CORE R D.R:A language and environment for statistical computing[J].Computing,2012(1):12-21.
[39]DRUMMOND A J,RAMBAUT A.BEAST:Bayesian evolutionary analysis by sampling trees[J].BMC Evolutionary Biology,2007,7(1):214.
[40]祖艳红,张慧,傅倩,等.基于CiteSpace的学科领域研究热点与前沿可视化分析:以液体燃料在催化化学领域为例[J].复旦学报(自然科学版),2016,55(4):527-533.
[41]BAIL N R,JURADO-ALAMEDA E,RUIZ-B A R,et al.Analysis of the field of physical chemistry of surfactants with the Unified Scienctometric Model.Fit of relational and activity indicators[J].Scientometrics,2005,63(2):259-276.
[42]BELVAUX G,WOLSEY L A.Bc-prod:A specialized branch-and-cut system for lot-sizing problems[J].Management Science,2000,46(5):724-738.
[43]陈悦,陈超美,胡志刚,等.引文空间分析原理与应用:CITESPACE实用指南[M].北京:科学出版社,2014.