Improvements to the International Survey of Herbicide Resistant Weeds - PowerPoint Presentation

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Improvements to the International Survey of Herbicide Resistant WeedsHRAC 2019

Ian Heap,

Director of the International Survey of Herbicide Resistant Weeds

Overhaul of WebsiteTargeting completion by the end of 2019 – all three tiers proposed is included. Website will not be down significantly (not more than few minutes). Will also make an App and to make it compatible with future technology.Ian to share total hours required as FYI to GHRAC. Certain amount is already covered under the current contract and there will some additional cost which Ian will share for itemized steps.

For cosmetic look improvement- Ian will pick some popular formats and try to use that format. Ian will come up with 4 options. HRAC may seek some input on the 4 of Ian’ options within company website experts.

Overhaul of First Tier (Presentation Layer)

Re-design the presentation layer so it is primarily built with HTML5,

Javascript

, and CSS. This will enable next-gen applications

Remove traditional html tables (so that the site will provide better support for mobile devices like cell phones) –Get feedback on desired visual presentation of data

Modification Second Tier (Application Layer)

Re-program parts of the second tier which to enable support of next-gen applications (desktop, laptop, tablet, phone, and other mobile devices)

Modification to Third Tier (Data layer)

Design and add new tables that will be necessary to store data for new features (requested by users) in the database

Add required data views

Design and program stored procedures to quickly extract data and feed it to the second tier.

Survey MonkeyAim: Get feedback from primary users on features that they would like to see added to the site.We can discuss the questions, however the following slides show some of the new modules I would like to add to the website.Ian to send ~ 5 questions for HRAC to provide input, refine and finalize. Once finalized, the survey will be sent to both academics and industry (global outreach). Let’s think of phased survey with selected folks first and then larger audience.

Ian to send questions to Chandra within 2 weeks.

Non-Target Site Resistance DatabaseIan to follow up to proceed with these modules working with already identified individuals. Focus one top priority model first, do well before addressing other modules. HRAC can help prioritizing these modules (non–target, portal, genetic database and genomics).

Genomics module –already linked weedscience.org with weedgenomics.com.

Genetics database takes more Ian’s time followed by non-target= portal, least is Genomics database. Non-target may be more relevant for prioritization content wise.

Collaborators

Roland Beffa

Christophe

Delye

Doug Sammons

Document all reported types of Non-Target site resistance

Metabolic resistance (Cytochrome P450 etc.)

Translocation

Sequestration

Gene Amplification (will try to get Todd Gains to take this on)

ALSO OTHER TARGET SITE MUTATIONS

Pat

Tranel

will add the two PPO both mutations are in the PPX2 gene

Triazine Mutations – Collaborator to be chosen – Francois Tardif has shown interest.

Herbicide Resistant Weed Genetics DatabaseSimilar to the mutation databaseCollaboratorsMarie JaseniukHenri DarmencyList all known genetic details in one placeSummarize

Single genes vs

Multigentic

Dominant vs Recessive

Breeding systems of Resistant Weeds vs Weeds in General

DNA data

Ploidy

level

Chromosome number

Genome size

Molecular Biology/Genomics ComponentProposed by Pat TranelThey (Pat/others) would do the work and moderate the incoming data, I would provide a way for them to display it on the website.

Tables on ALS mutations already on site – data maintained/edited by Pat Tranel.

Extend these tables to include:

All other target sites

sequence data for target-site genes in weeds

Protocols (e.g., primers) for amplifying genes and for DNA-based assays for specific mutations

A repository for weed

transcriptome

datasets (or at least links to such datasets)

Weed Genomic Data RepositoryCross Reference and integrate with the Weed Genomic Data Repositoryhttps://www.weedgenomics.com/

Provide links from individual resistance cases to relevant data in the weed genomic data repository

Determine other ways that our sites can be linked.

At present they have the “International Survey of Herbicide-Resistant Weeds” as a Partner Link.

Portal for most Important Resistant Weeds/GeneraAim: Pool together knowledge about the most important herbicide-resistant weeds and promote collaboration between researchers on problem weeds.Choose individuals to be in charge of a portal for the top herbicide-resistant weedsKey Weeds

Amaranthus sp.

Lolium

sp.

Avena

fatua

Alopecurus

myosuroides

Kochia

scoparia

Conyza

sp.

Echinochloa

sp.

Sorghum

halepense

Portal would provide a living summary of resistance research on each of these weeds.

Ian has already have commitments from some scientists saying that they would be willing to take on a weed/genera. HRAC prioritization will be helpful.

Interactive Graphs/Custom DataProvide tools for people to create their own graphs/download dataProvide tools that will allow people to create their own datasets based on a wide range of criteriaTools would allow people to drill down using filters on crops, species, genera, site of action, year of first occurrence, individual herbicides etc. all in one query.

This data would then be provided to them in an Excel spreadsheet download, or allow them to plot the data online.

Linking Abstracts to CasesDecided to continue as routine update.Cases can be posted without peer reviewed publication, however after a few years almost all cases have been published in peer reviewed journals.Aim: Link peer reviewed publications with casesGives people a starting point to find out more about the case

Provides increased credibility to the site if 95% of cases more than two years old are linked to peer reviewed publications

Eventually all 5,200+ references should be able to be linked to at least one case

Two approaches

Systematic – Go through list of all references that have not been linked to a case yet

Opportunistic – Links can be added as I browse the site doing other things

Development of User Manual UpdateGoal: To carry on the weedscience.org in absence of Ian.

Timeline: Targeting by the end of 2019 to have a copy with HRAC.

Ian has all the information needed to build the User Manual. Manual has everything except the login information which will be in the Ian’s Will.