Second Science Symposium
January 18 - 21, 2005
Application of rapid on-site PCR (TaqMan®) for Phytophthora ramorum under US conditions
Kelvin Hughes, Jenny Tomlinson, Neil Boonham, Plant Heath Group, Central Science Laboratory (CSL), York, UK. YO41 1LZ, * firstname.lastname@example.org, Tel. +44 1904 462000; Kelly Ivors and Matteo Garbelotto, Dept of ESPM-ES, University of California, Berkeley, Berkeley, California, USA & Ian Barker, Plant Heath Group, Central Science Laboratory (CSL), York, UK. YO41 1LZ
Currently diagnosis of Phytophthora ramorum involves sending samples to a laboratory for traditional isolation and morphological characterisation, and / or PCR analysis. This can take up to two weeks from sampling to final diagnosis. However CSL have produced on-site DNA extraction and real-time PCR (TaqMan®) methods, which use field-stable reagents for diagnosis of symptomatic infections of P. ramorum, in under 2 hours. In March 2004 this method was evaluated, with the help of the University of Berkeley and the USDA Forest Service, on leaf and stem samples from 20 plant species collected from 5 sites around San Francisco, California, USA. DNA was extracted from each sample using a Bio-Nobile QuickPick? plant kit and added to a TaqMan® reaction mix developed for on-site use. This contained reagents for specific amplification of P. ramorum DNA and a universal plant gene (cytochrome oxidase (COX), used as an internal reaction control). Each sample was subjected to thermal cycling in a Cepheid SmartCycler® and the real-time data from these reactions interpreted.
The majority of testing was performed at the University
of California in Berkeley for logistical reasons. However, on one day
samples were tested in the field at China Camp State Park using the complete
on-site protocol in less than 2 hours, confirming this protocol can be
performed independent of all laboratory support. At UC Berkeley plant
material was plated out onto a Phytophthora-specific media (PARP) for
comparative purposes to determine the presence of P. ramorum
in each sample. COX amplification was achieved for all 20 host species
with P. ramorum being detected by TaqMan® and isolation from
leaf samples of tan oak, Douglas fir, honeysuckle and bay laurel.
P. ramorum was also identified by TaqMan® from stem samples of
madrone, Shreve’s oak, tan oak, redwood and Douglas fir but only
isolated from madrone and tan oak.
| Coordinated by:
USDA Forest Service Pacific Southwest Research Station
University of California Integrated Hardwood Range Management Program,
Center for Forestry, Division of Agriculture and Natural Resources, and
California Oak Mortality Task Force
|© Copyright, 2004. The Regents of the University of California. University of California Integrated Hardwood Range Management Program, UC Berkeley. For questions and comments, contact webmaster.|