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Biodiversity Informatics最新文献

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Where and how to manage: Optimal selection of conservation actions for multiple species. 何处及如何管理:多物种保护行动的最佳选择。
Biodiversity Informatics Pub Date : 2008-01-20 DOI: 10.17161/BI.V5I0.39
A. Teeffelen, A. Moilanen
{"title":"Where and how to manage: Optimal selection of conservation actions for multiple species.","authors":"A. Teeffelen, A. Moilanen","doi":"10.17161/BI.V5I0.39","DOIUrl":"https://doi.org/10.17161/BI.V5I0.39","url":null,"abstract":"Multiple alternative options are frequently available for the protection, maintenance or restoration of conservation areas. The choice of a particular management action can have large effects on the species occurring in the area, because different actions have different effects on different species. Together with the fact that conservation funds are limited and particular management actions are costly, it would be desirable to be able to identify where, and what kind of management should be applied to maximize conservation benefits. Currently available site-selection algorithms can identify the optimal set of sites for a reserve network. However, these algorithms have not been designed to answer what kind of action would be most beneficial at these sites when multiple alternative actions are available. We describe an algorithm capable of solving multi-species planning problems with multiple management options per site. The algorithm is based on benefit functions, which translate the effect of a management action on species representation levels into a value, in order to identify the most beneficial option. We test the performance of this algorithm with simulated data for different types of benefit functions and show that the algorithm’s solutions are optimal, or very near globally optimal, partially depending on the type of benefit function used. The good performance of the proposed algorithm suggests that it could be profitably used for large multi-action multi-species conservation planning problems.","PeriodicalId":269455,"journal":{"name":"Biodiversity Informatics","volume":"3 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2008-01-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"124160584","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 36
Online Biodiversity Resources - Principles for Usability 在线生物多样性资源-可用性原则
Biodiversity Informatics Pub Date : 2007-11-13 DOI: 10.17161/BI.V4I0.35
Sophie Neale, M. Pullan, M. Watson
{"title":"Online Biodiversity Resources - Principles for Usability","authors":"Sophie Neale, M. Pullan, M. Watson","doi":"10.17161/BI.V4I0.35","DOIUrl":"https://doi.org/10.17161/BI.V4I0.35","url":null,"abstract":"Online biodiversity portals and databases enabling access to large volumes of biological information represent a potentially extensive set of resources for a variety of user groups. However, in order for these resources to live up to their promise they need to be both useful and easy to use. We discuss a number of principles for designing systems for usability, examine how these have been applied to the development of online biodiversity resources and compare this with a portal project developed by the Astrophysics community. We highlight a lack of user involvement and formalised requirements analysis by biodiversity projects resulting in a poor understanding of both the users and their tasks. We suggest a change in the way large biodiversity portal projects are structured, that is by providing infrastructure and supporting user groups developing individual interfaces.","PeriodicalId":269455,"journal":{"name":"Biodiversity Informatics","volume":"86 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2007-11-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"127029988","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 8
Ecological Niche Modeling Approaches to Conservation of Endangered and Threatened Birds in Central and Eastern Europe 中欧和东欧濒危和受威胁鸟类保护的生态位建模方法
Biodiversity Informatics Pub Date : 2007-08-21 DOI: 10.17161/BI.V4I0.37
M. Papeş
{"title":"Ecological Niche Modeling Approaches to Conservation of Endangered and Threatened Birds in Central and Eastern Europe","authors":"M. Papeş","doi":"10.17161/BI.V4I0.37","DOIUrl":"https://doi.org/10.17161/BI.V4I0.37","url":null,"abstract":"Comprehensive biodiversity surveys are unavailable for most Central and Eastern European countries. Although birds in general are well-studied, distributional information in the region is sparse and largely out-of of-date; I used museum specimen locality records and raster GIS data layers summarizing environmental dimensions to produce distributional hypotheses for the 36 threatened and endangered bird species in the region using ecological niche modeling. These ecological niche models were also used to predict likely future (2055) distributional shifts owing to global climate change. The entire suite of distributional information that resulted was used to evaluate strategies for conservation via simple heuristic place-prioritization algorithms based on complementarity and rarity considerations. These analyses identified priority areas in southern and eastern Romania, as well as other areas across the region, as priority targets for conservation action in the region.","PeriodicalId":269455,"journal":{"name":"Biodiversity Informatics","volume":"13 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2007-08-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"131617352","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 9
A QUANTITATIVE COMPARISON OF XML SCHEMAS FOR TAXONOMIC PUBLICATIONS 分类学出版物的XML模式的定量比较
Biodiversity Informatics Pub Date : 2007-08-21 DOI: 10.17161/BI.V4I0.36
Guido Sautter, Klemens Böhm, D. Agosti
{"title":"A QUANTITATIVE COMPARISON OF XML SCHEMAS FOR TAXONOMIC PUBLICATIONS","authors":"Guido Sautter, Klemens Böhm, D. Agosti","doi":"10.17161/BI.V4I0.36","DOIUrl":"https://doi.org/10.17161/BI.V4I0.36","url":null,"abstract":"Large numbers of legacy taxonomic publications are currently being digitized to make them online available and ready for full text search. The documents are being marked up with XML for two purposes: To preserve the document structure, and to facilitate access via standard query languages like XQuery. With regard to the second aspect, the choice of an appropriate XML schema is crucial. It affects both query performance and the correctness of query results. Over the last few years, several different XML schemas have been proposed as markup standards for taxonomic publications. In this paper, we report on a thorough evaluation and com¬parison of these schemas. We have examined if they facilitate formulation and correct processing of queries that are common when it comes to taxonomic literature. We also compare the performance of these queries on documents that are marked up with the different schemas. Finally, we propose extensions to the schemas that enhance correctness of query results.","PeriodicalId":269455,"journal":{"name":"Biodiversity Informatics","volume":"60 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2007-08-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"128593777","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 11
Uses and requirements of ecological niche models and related distributional models 生态位模型及相关分布模型的用途和要求
Biodiversity Informatics Pub Date : 2006-12-01 DOI: 10.17161/BI.V3I0.29
A. Peterson
{"title":"Uses and requirements of ecological niche models and related distributional models","authors":"A. Peterson","doi":"10.17161/BI.V3I0.29","DOIUrl":"https://doi.org/10.17161/BI.V3I0.29","url":null,"abstract":"Modeling approaches that relate known occurrences of species to landscape features to discover ecological properties and predict geographic occurrences have seen extensive recent application in ecology, systematics, and conservation. A key component in this process is estimation or characterization of species' distributions in ecological space, which can then be useful in understanding their potential distributions in geographic space. Hence, this process is often termed ecological niche modeling or (less boldly) species distribution modeling. Applications of this approach vary widely in their aims, products, and requirements; this variety is reviewed herein, examples are provided, and differences in data needs and possible interpretations are discussed.","PeriodicalId":269455,"journal":{"name":"Biodiversity Informatics","volume":"47 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2006-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"122686400","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 421
A synecological framework for systematic conservation planning 系统保护规划的协同框架
Biodiversity Informatics Pub Date : 2006-10-15 DOI: 10.17161/BI.V3I0.26
J. Hortal, J. Lobo
{"title":"A synecological framework for systematic conservation planning","authors":"J. Hortal, J. Lobo","doi":"10.17161/BI.V3I0.26","DOIUrl":"https://doi.org/10.17161/BI.V3I0.26","url":null,"abstract":"Biodiversity conservation design, though difficult with fragmentary or insufficient biological data, can be planned and evaluated with several methods. One of them, the complementarity criterion, is commonly used nowadays to deal with the distribution of number of species (i.e., an autoecological approach). At the same time, the patchiness and spatial bias of available distribution data has also been dealt with through distribution modelling. However, both the uncertainty of the ranges estimated, and the changes in species distribution in response to changing climates, limit single-species the biodiversity attribute to be used in complementarity strategies. Several technical and theoretical advantages of composite biodiversity variables (i.e., a synecological approach) may, however, make them ideal biodiversity indicators for conservation area selection. The drawbacks associated with current biodiversity data are discussed herein, along with the possible advantages and disadvantages of conservation planning through a synecological or autoecological approach.","PeriodicalId":269455,"journal":{"name":"Biodiversity Informatics","volume":"138 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2006-10-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"123281512","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 30
Taxonomic names, metadata, and the Semantic Web 分类名称、元数据和语义网
Biodiversity Informatics Pub Date : 2006-06-02 DOI: 10.17161/BI.V3I0.25
R. Page
{"title":"Taxonomic names, metadata, and the Semantic Web","authors":"R. Page","doi":"10.17161/BI.V3I0.25","DOIUrl":"https://doi.org/10.17161/BI.V3I0.25","url":null,"abstract":"Life Science Identifiers (LSIDs) offer an attractive solution to the problem of globally unique identifiers for digital objects in biology. However, I suggest that in the context of taxonomic names, the most compelling benefit of adopting these identifiers comes from the metadata associated with each LSID. By using existing vocabularies wherever possible, and using a simple vocabulary for taxonomy-specific concepts we can quickly capture the essential information about a taxonomic name in the Resource Description Framework (RDF) format. This opens up the prospect of using technologies developed for the Semantic Web to add ``taxonomic intelligence\" to biodiversity databases. This essay explores some of these ideas in the context of providing a taxonomic framework for the phylogenetic database TreeBASE.","PeriodicalId":269455,"journal":{"name":"Biodiversity Informatics","volume":"62 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2006-06-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"131234492","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 50
RESOLVING TAXONOMIC DISCREPANCIES: ROLE OF ELECTRONIC CATALOGUES OF KNOWN ORGANISMS 解决分类差异:已知生物电子目录的作用
Biodiversity Informatics Pub Date : 2005-11-13 DOI: 10.17161/BI.V2I0.16
V. Chavan, N. Rane, A. Watve, M. Ruggiero
{"title":"RESOLVING TAXONOMIC DISCREPANCIES: ROLE OF ELECTRONIC CATALOGUES OF KNOWN ORGANISMS","authors":"V. Chavan, N. Rane, A. Watve, M. Ruggiero","doi":"10.17161/BI.V2I0.16","DOIUrl":"https://doi.org/10.17161/BI.V2I0.16","url":null,"abstract":"There is a disparity in availability of nomenclature change literature to the taxonomists of the developing world and availability of taxonomic papers published by developing world scientists to their counterparts in developed part of the globe. This has resulted in several discrepancies in the naming of organisms. Development of electronic catalogues of names of known organisms would help in pointing out these issues. We have attempted to highlight a few such discrepancies found while developing IndFauna, an electronic catalogue of known Indian fauna, and comparing it with existing global and regional databases.","PeriodicalId":269455,"journal":{"name":"Biodiversity Informatics","volume":"25 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2005-11-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"121939467","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 11
CHALLENGES BUILDING ONLINE GIS SERVICES TO SUPPORT GLOBAL BIODIVERSITY MAPPING AND ANALYSIS: LESSONS FROM THE MOUNTAIN AND PLAINS DATABASE AND INFORMATICS PROJECT 建立在线地理信息系统服务以支持全球生物多样性制图和分析的挑战:来自山地和平原数据库和信息学项目的经验教训
Biodiversity Informatics Pub Date : 2005-08-08 DOI: 10.17161/BI.V2I0.19
R. Guralnick, D. Neufeld
{"title":"CHALLENGES BUILDING ONLINE GIS SERVICES TO SUPPORT GLOBAL BIODIVERSITY MAPPING AND ANALYSIS: LESSONS FROM THE MOUNTAIN AND PLAINS DATABASE AND INFORMATICS PROJECT","authors":"R. Guralnick, D. Neufeld","doi":"10.17161/BI.V2I0.19","DOIUrl":"https://doi.org/10.17161/BI.V2I0.19","url":null,"abstract":"We argue that distributed mapping and analysis of biodiversity information becoming available on global distributed networks is a lynchpin activity linking together research and development challenges in biodiversity informatics. Online mapping is a core activity because it allows users to visually explore the spatial context of biodiversity information and quickly assemble the datasets needed to ask and answer biodiversity research and management questions. We make the case that a free, online global biodiversity mapping tool utilizing distributed species occurrence records is now within reach and discuss how such a system can be built using existing technology. We also discuss additional challenges and solutions given experiences building a regional distributed GIS tool called MaPSTeDI (Mountain and Plains Spatio-Temporal Database and Informatics Initiative). We focus on solutions to three challenges in particular: Returning result queries in a reasonable amount of time given network limitations; Accessing multiple data sources using different transmission mechanisms; Scaling from a solution for a handful of data providers to hundreds or thousands of providers. We close by discussing the future challenges and potential solutions for integrating analysis tools into distributed mapping applications.","PeriodicalId":269455,"journal":{"name":"Biodiversity Informatics","volume":"1 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2005-08-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"124340976","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 26
Climate Change and Biodiversity: Some Considerations in Forecasting Shifts in Species' Potential Distributions 气候变化与生物多样性:预测物种潜在分布变化的一些考虑
Biodiversity Informatics Pub Date : 2005-05-26 DOI: 10.17161/BI.V2I0.8
E. Martínez‐Meyer
{"title":"Climate Change and Biodiversity: Some Considerations in Forecasting Shifts in Species' Potential Distributions","authors":"E. Martínez‐Meyer","doi":"10.17161/BI.V2I0.8","DOIUrl":"https://doi.org/10.17161/BI.V2I0.8","url":null,"abstract":"Global climate change and its broad spectrum of effects on human and natural systems has become a central research topic in recent years; biodiversity informatics tools?particularly ecological niche modeling (ENM)?have been used extensively to anticipate potential effects on geographic distributions of species. Misuse of these tools, however, is counterproductive, as biased conclusions might be reached. In this paper, I discuss some issues related to niche theory, geographic distributions, data quality, and algorithms, all of which are relevant when using ENM in climate change projections for biodiversity. This assortment of opinions and ideas is presented in the hope that ENM applications to climate change questions can be made more realistic and more predictive.","PeriodicalId":269455,"journal":{"name":"Biodiversity Informatics","volume":"27 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2005-05-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"115743438","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 132
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