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Agrobiodiversity / / A portable field pathogen detection system for disease-free planting material

A portable field pathogen detection system for disease-free planting material

When it comes to preventing disease damage to crops, time is of the essence – but so is accuracy. This is why growers and crop experts need better means to accurately diagnose diseases and identify causal agents in the field without having to wait several days for laboratory results.

full system.jpg

Full view of portable field pathogen detection system

In a pioneering effort to meet this need, CIAT cassava scientist Elizabeth Alvarez has developed with her team a portable pathogen detection system. About the size of a small toolbox, it offers an immediate “yes” or “no” answer concerning the presence of particular pathogens in cassava fields.

“Contaminated planting materials are the main reason for rapid disease outbreak, particularly in vegetatively propagated crops like cassava,” said Alvarez. This is why we developed a kit that is sensitive enough for testing of seed and other planting materials to make sure they are disease free.”

To use this portable system requires only minimal training, in contrast with the more laborious methods used by skilled personnel to detect pathogens in sophisticated laboratories. The system works on the basis of loop mediated isothermal amplification (LAMP), an established technique that detects plant pathogens by amplifying the target nucleic acid sequence rapidly at a constant temperature without the use of a thermal cycling machine. This enables the system to test pathogens that cannot be cultured under lab conditions, as is the case with phytoplasmas.

The kit consists of a small metallic box with a small solar panel on top, which is connected to a 12V battery inside, where there is also a voltmeter with an on-off switch, a miniature heated water bath, and a test kit. The test kit includes lyophilized primers designed for the specific disease, one micro pipette to drain the samples, 0.2-ml micro centrifuge tubes, and mini envelope-sized pouches to evaluate 40 samples.

Interior view of the pathogen detection system

Interior view of the portable field pathogen detection system

To determine the presence of a particular pathogen, you take a small sample from any part of the test plant, create a suspension with the buffer, add it to the reaction tube with a specific primer, and insert this into the water bath. After an hour, you can determine the result based on changes in color that indicate the pathogen’s presence or absence.

“It has taken a long time to design a pathogen detection system like this; it’s really a dream come true,” said Alvarez. “We want to make this system more useful for farmers in developing countries, especially women, so they have their own means to ensure that planting materials are disease free.”

Alvarez and her team initially designed the system to detect cassava frog skin disease associated pathogen, but they expect to adapt it for detecting other diseases of root and tuber crops as well.

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  • Reinhardt Howeler: Thanks, Keith. It was a pleasure writing this book as it brought back so many good memories of working with cassava, both in Latin America and in Asia. I was lucky that the Nippon Foundation suggested that I write this book and financed its publication. They also wanted a simplified version for farmers and extension workers that could be translated into various languages. The English version of this new book is now going to press in Hanoi, while the Khmer and Vietnamese translations are also ready for printing and the Thai and Chinese translations are still being worked on. In case you are interested in the English version, let me know. My email address is still And let me know where you are working now and what you are doing. Reinhardt
  • Peter de Vroome: Great invention! Could be very usefull in our research in fast detecting CFSD in our planting material. Is this kit already for sale? Peter de Vroome phytopathologist Centre for Agricultural Research in Suriname (C.E.L.O.S.)
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  • Keith Fuglie: An impressive publication! Reinhardt Howeler has done an incredible job of summarizing lessons from nearly 30 years of work on cassava improvement in Asia. This very successful collaboration between CIAT and national research programs demonstrates what can be achieved through modest but persistent investment in agricultural research, even with a relatively neglected crop grown primarily by poor farm families in marginal environments.
  • Unraveling the genetic secrets of the insect ve...: […] Jeff Stuart, an insect molecular geneticist from Purdue University, USA, is bringing new ideas to unravel the genetic secrets of insect vectors of crop virus diseases (RT @CGIAR: News: Unraveling the genetic secrets of the insect vectors of crop virus...  […]
  • Kellan: i am also working on ppd on cassava. can you please help me find find a suitable protocol to analyse ppd.
  • ALI SALEM IBRAHIM: Hi we looking to start collaborations with ciat center if it,s possible.
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