Phytophthora database 2.0: Update and future direction

Bongsoo Park; Frank Martin; David M. Geiser; Hye Seon Kim; Michele A. Mansfield; Ekaterina Nikolaeva; Sook Young Park; Michael D. Coffey; Joseph Russo; Seong H. Kim; Yilmaz Balci; Gloria Abad; Treena Burgess; Niklaus J. Grünwald; Kyeongchae Cheong; Jaeyoung Choi; Yong Hwan Lee; Seogchan Kang

doi:10.1094/PHYTO-01-13-0023-R

Phytophthora database 2.0: Update and future direction

Bongsoo Park, Frank Martin, David M. Geiser, Hye Seon Kim, Michele A. Mansfield, Ekaterina Nikolaeva, Sook Young Park, Michael D. Coffey, Joseph Russo, Seong H. Kim, Yilmaz Balci, Gloria Abad, Treena Burgess, Niklaus J. Grünwald, Kyeongchae Cheong, Jaeyoung Choi, Yong Hwan Lee, Seogchan Kang

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16 Scopus citations

Abstract

The online community resource Phytophthora database (PD) was developed to support accurate and rapid identification of Phytophthora and to help characterize and catalog the diversity and evolutionary relationships within the genus. Since its release in 2008, the sequence database has grown to cover 1 to 12 loci for .2,600 isolates (representing 138 described and provisional species). Sequences of multiple mitochondrial loci were added to complement nuclear loci-based phylogenetic analyses and diagnostic tool development. Key characteristics of most newly described and provisional species have been summarized. Other additions to improve the PD functionality include: (i) geographic information system tools that enable users to visualize the geographic origins of chosen isolates on a global-scale map, (ii) a tool for comparing genetic similarity between isolates via microsatellite markers to support population genetic studies, (iii) a comprehensive review of molecular diagnostics tools and relevant references, (iv) sequence alignments used to develop polymerase chain reaction-based diagnostics tools to support their utilization and new diagnostic tool development, and (v) an online community forum for sharing and preserving experience and knowledge accumulated in the global Phytophthora community. Here we present how these improvements can support users and discuss the PDfs future direction.

Original language	English (US)
Pages (from-to)	1204-1208
Number of pages	5
Journal	PHYTOPATHOLOGY
Volume	103
Issue number	12
DOIs	https://doi.org/10.1094/PHYTO-01-13-0023-R
State	Published - Dec 2013

All Science Journal Classification (ASJC) codes

Agronomy and Crop Science
Plant Science

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Park, B., Martin, F., Geiser, D. M., Kim, H. S., Mansfield, M. A., Nikolaeva, E., Park, S. Y., Coffey, M. D., Russo, J., Kim, S. H., Balci, Y., Abad, G., Burgess, T., Grünwald, N. J., Cheong, K., Choi, J., Lee, Y. H., & Kang, S. (2013). Phytophthora database 2.0: Update and future direction. PHYTOPATHOLOGY, 103(12), 1204-1208. https://doi.org/10.1094/PHYTO-01-13-0023-R

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abstract = "The online community resource Phytophthora database (PD) was developed to support accurate and rapid identification of Phytophthora and to help characterize and catalog the diversity and evolutionary relationships within the genus. Since its release in 2008, the sequence database has grown to cover 1 to 12 loci for .2,600 isolates (representing 138 described and provisional species). Sequences of multiple mitochondrial loci were added to complement nuclear loci-based phylogenetic analyses and diagnostic tool development. Key characteristics of most newly described and provisional species have been summarized. Other additions to improve the PD functionality include: (i) geographic information system tools that enable users to visualize the geographic origins of chosen isolates on a global-scale map, (ii) a tool for comparing genetic similarity between isolates via microsatellite markers to support population genetic studies, (iii) a comprehensive review of molecular diagnostics tools and relevant references, (iv) sequence alignments used to develop polymerase chain reaction-based diagnostics tools to support their utilization and new diagnostic tool development, and (v) an online community forum for sharing and preserving experience and knowledge accumulated in the global Phytophthora community. Here we present how these improvements can support users and discuss the PDfs future direction.",

author = "Bongsoo Park and Frank Martin and Geiser, {David M.} and Kim, {Hye Seon} and Mansfield, {Michele A.} and Ekaterina Nikolaeva and Park, {Sook Young} and Coffey, {Michael D.} and Joseph Russo and Kim, {Seong H.} and Yilmaz Balci and Gloria Abad and Treena Burgess and Gr{\"u}nwald, {Niklaus J.} and Kyeongchae Cheong and Jaeyoung Choi and Lee, {Yong Hwan} and Seogchan Kang",

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doi = "10.1094/PHYTO-01-13-0023-R",

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AU - Coffey, Michael D.

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AU - Kim, Seong H.

AU - Balci, Yilmaz

AU - Abad, Gloria

AU - Burgess, Treena

AU - Grünwald, Niklaus J.

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Phytophthora database 2.0: Update and future direction

Abstract

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