Upcoming Webinar: April 14th!

Qi Sun, Cheng Zou, Avinash Karn Headshots

April 14th, 2PM EST (1PM CST)

Click here to register

A low-cost core genome marker platform that works well across the diverse Vitis genus.
rhAmpSeq delivers 2000 markers from 22,000 individuals, 91% transferable, covering 97% of the core grape genome should be broadly applicable in other organisms.

Dr. Qi Sun, Senior Research Associate, Cornell Bioinformatics Service Unit, Ithaca, NY

Dr. Cheng Zou, Postdoctoral Associate, Cornell University Institute of Biotechnology, Ithaca, NY

Dr. Avinash Karn, Postdoctoral Associate, School Integrative Plant Science, Horticulture Section, Cornell AgriTech, Geneva, NY

Several considerations determine whether a DNA marker platform will be widely used, including cost, throughput, genome coverage, information content, simple interpretation, and transferability across diverse taxa and programs. The VitisGen2 project has a marker strategy called ‘rhAmpSeq’ that meets these requirements and should be of broad interest to biologists.

To develop it, we first identifed the ‘core genome’ shared by diverse Vitis species from North America, Europe and Asia, then used it to discover 2000 robust DNA markers covering 97% of the Vitis genome. This rhAmpSeq platform increased transferability of markers from 2% with previous SNP-based markers to 91% across the Vitis genus, including species 30 million-years diverged.

In this webinar, we will present some challenges with previous marker platforms, our approach to marker design, some exciting results, and our strategy to make this marker platform openly accessible and useful for the grape community.

Registration Link: https://cornell.zoom.us/webinar/register/WN_GitbNiqPRjGuGrIU9m6-zQ


Please email rjw256@cornell.edu with any questions.

Follow us on Twitter! @VitisGen

Funded by the USDA-NIFA Specialty Crop Research Initiative VitisGen2 project (Award No. 2017- 51181-26829)

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Anne Fennell named Distinguished Professor!

Dr. Anne Fennell recognized for numerous research contributions Professor Anne Fennell's headshot

A primary investigator and member of the VitisGen2 breeding and genetics teams, Anne was named as a distinguished professor at the SDSU’s annual Celebration of Faculty Excellence.

Read more about the event and Anne’s accomplishments here

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New Date for (Some of) the Economics of Grape Varietal Innovations!

Thursday, February 20th, 1PM EST (12 noon CST)

Images of Dr. Julian Alston and Dr. Olena SambucciIn this presentation, Professor Julian Alston and Dr. Olena Sambucci from UC Davis will give an overview of the basic economics of grape varietal innovations and how those methods and ideas are being used in the Trait Economics element of VitisGen2. This will include (1) a general overview of how economists approach the issue of valuing the past and prospective returns to investments in developing new crop varieties, (2) some discussion of the special features of perennial crops and grapes in this context, (3) some illustrative examples with results from work they have completed already, on pest and disease resistance traits, and (4) an overview of new work the Trait Economics team has underway for VitisGen2, focusing on consumer and producer demand for new table grape varieties.

 

Julian Alston is a distinguished professor in the department of Agricultural and Resource Economics at UC Davis. His research is primarily focused on the implications of government policies for the agricultural sector, and the economics of incorporating traits into new grape varieties. He also teaches courses on agricultural policy and market analysis.

Olena Sambucci is postdoctoral scholar in the department of Agricultural and Resource Economics at UC Davis. Her work has focused on the use of forecasting tools to mitigate production risk from disease in vineyards. Particularly, her work with VitisGen involves estimating the economic value of powdery mildew resistance.

Please email rjw256@cornell.edu with any questions

Register for the upcoming webinar at this link

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Grape Selections from the VitisGen and VitisGen2 Projects

The VitisGen and VitisGen2 projects represent major investments in understanding grapevine genetics – and particularly in identifying markers associated with desirable traits for use in ‘marker-assisted selection’.   DNA markers identified by geneticists and breeders are now incorporated into several selections and mapping populations by grape breeding programs in California, Minnesota, New York, and Missouri.

We asked VitisGen2 breeders to provide photos and brief descriptions of a few of their selections and mapping populations and the traits they incorporate.

Read the full article: Grape Selections from the VitisGen and VitisGen2 Projects.

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International collaboration advances research into grape disease resistance

Daniel Zendler

The effectiveness of a collaboration between two research teams can be greater than the sum of its parts. This was part of the incentive for German scientist Daniel Zendler, a leading expert on the Ren3 and Ren9 genes for powdery mildew resistance, to spend the summer working with the VitisGen2 team at Cornell AgriTech’s campus.

Daniel, Lance Cadle-Davidson and David Gadoury teamed up to combine equipment, manpower and expertise from each team, to move forward on targeting the location on the genome of these resistance markers, as well as determining how broadly effective they are against different strains of powdery mildew. You can read more about their research goals and findings in our article: “International collaboration advances research into grape disease resistance“.

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Staff spotlight with new project manager, Ugo Ikeogu

Ugo IkeoguWe recently mentioned that VitisGen2 has a new project manager, Ugo Ikeogu. We’re very excited to have him on board! We’ve asked him a few questions about his background, extensive experience with genetics and phenotyping, what he’s looking forward to most in joining the project, and what advice he would give to another young scientist in the field. I hope you enjoy reading our Staff Spotlight on Ugo Ikeogu!

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RIPE article and staff spotlight on Olena Sambucci

Olena SambucciOlena Sambucci, a postdoctoral researcher at UC Davis, focuses her research on the economic trade-offs between grape traits, including disease resistance, wine varietal name, flavor profiles, and many other factors. She is part of VitisGen2’s economics team, under the guidance of Julian Alston.

Learn more about VitisGen2’s economics team by reading the new “Research in Plain English” article summarizing research conducted by Olena, Julian and collaborators Kate Fuller and Jayson Lusk.

RIPE ARTICLE: The pecuniary and non-pecuniary costs of powdery mildew and the potential value of resistant varieties in California grapes

Olena also talked more about her current responsibilities, her background, and which podcasts help get her through long days in the most recent staff spotlight.

STAFF SPOTLIGHT on Olena Sambucci.

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New “Research In Plain English” article on foliar phylloxera resistance

Our new “Research In Plain English” article is now available: “New resistance genes mapped for an important foliar insect pest of some hybrid grape cultivars

The VitisGen2 team members at the University of Minnesota have been studying the genetic underpinnings of foliar phylloxera resistance. Rootstocks resistant to this important grape pest have been available for some time — and a new article by Matthew Clark et al. explains how their research helps breeders come closer to breeding resistance to foliar phylloxera as well. The RIPE article provides a “plain English” explanation of the research described in the full article, linked below.

Quantitative trait loci identified for foliar phylloxera resistance in a hybrid grape population. Authors: Matthew D. Clark, Soon L. Teh, Eric Burkness, Laise Moreira, Grace Watson, Lu Yin, William D. Hutchison and James J. Luby. Australian Journal of Grape and Wine Research, 24 (3), pages 292-300.

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Using neural networks to identify Powdery Mildew

Leaf disk and powdery mildew.‘Practice makes perfect’ is undeniably cliché, but its truth is evident to everyone who has ever tried to learn a new skill.  Whether it’s hitting baseballs, pushing piano keys, or pipetting off supernatant, this inevitable cycle of trial and error eventually yields to increasing expertise.

What’s true for humans is also true for computer systems.

Learn more about machine learning in article by Anna Underhill: “VitisGen2 scientists train neural networks to identify Powdery Mildew

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New staff spotlight featuring Mélanie Massonnet from UC Davis

Melanie MassonetMélanie is a postdoctoral associate in Dario Cantu’s lab in the Department of Viticulture and Enology at the University of California in Davis.

She is in charge of the genome-wide transcriptional analyses of the breeding populations for powdery mildew resistance gene stacking and wine grape quality. Mélanie explains what this mouthful means, along with telling us how her background growing up in France influenced her decision to work with wine, and much more, in this Staff Spotlight on Mélanie Massonnet.

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