Grünwald Niklaus J, Martin Frank N, Larsen Meredith M, Sullivan Christopher M, Press Caroline M, Coffey Michael D, Hansen Everett M, Parke Jennifer L
Horticultural Crops Research Laboratory, United States Department of Agriculture-Agricultural Research Service (USDA-ARS), Corvallis, OR 97330.
Crop Improvement of Protection Research Unit, USDA-ARS, Salinas, CA 93905.
Plant Dis. 2011 Mar;95(3):337-342. doi: 10.1094/PDIS-08-10-0609.
Contemporary species identification relies strongly on sequence-based identification, yet resources for identification of many fungal and oomycete pathogens are rare. We developed two web-based, searchable databases for rapid identification of Phytophthora spp. based on sequencing of the internal transcribed spacer (ITS) or the cytochrome oxidase (cox) 1 and 2 spacer region, followed by BLAST searching the databases. Both databases are highly selective. For ITS, only sequences associated with published Phytophthora spp. descriptions or classic Phytophthora phylogenetics references are included. For the cox spacer region, only data obtained by resequencing select isolates reported in published work were included. Novel taxa tentatively named are selectively included in the database and labeled as Phytophthora taxon "X"; as in, for example, P. taxon "asparagi". The database was validated with 700 Phytophthora isolates collected from nursery environments during 2006 to 2009. This resource, found at www.Phytophthora-ID.org , is a robust and validated tool for molecular identification of Phytophthora spp. and is regularly being updated.
当代物种鉴定在很大程度上依赖基于序列的鉴定方法，然而用于鉴定许多真菌和卵菌病原体的资源却很稀缺。我们开发了两个基于网络的可搜索数据库，用于基于内部转录间隔区（ITS）或细胞色素氧化酶（cox）1和2间隔区测序，随后在数据库中进行BLAST搜索，从而快速鉴定疫霉属物种。这两个数据库都具有高度的选择性。对于ITS，仅包含与已发表的疫霉属物种描述或经典疫霉系统发育学参考文献相关的序列。对于cox间隔区，仅纳入通过对已发表研究中选定分离株重新测序获得的数据。暂定命名的新分类单元被有选择地纳入数据库，并标记为疫霉分类群“X”；例如，疫霉分类群“芦笋疫霉”。该数据库使用2006年至2009年期间从苗圃环境中收集的700株疫霉分离株进行了验证。这个可在www.Phytophthora-ID.org上找到的资源，是用于疫霉属物种分子鉴定的强大且经过验证的工具，并且会定期更新。
