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Agronomy
Special Issues
Phenomic and Genomic Tools for the Enhancement of Vegetable Crops
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Phenomic and Genomic Tools for the Enhancement of Vegetable Crops

A special issue of Agronomy (ISSN 2073-4395). This special issue belongs to the section "Crop Breeding and Genetics".

Deadline for manuscript submissions: closed (1 October 2021) | Viewed by 7159

Special Issue Editor

Dr. David De Koeyer

E-Mail Website
Guest Editor
Agriculture and Agri-Food Canada, Fredericton, NB E3B 4Z7, Canada
Interests: genetics; breeding; genomics; potato; marker-assisted selection; crop bioinformatics; breeding values; population improvement
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

Vegetables are critically important in human diets to provide beneficial nutrients. They can be consumed fresh or processed into value-added products. Vegetable crops are grown on varying scales—from less than 1 hectare to several thousand hectares—in all regions of the world. Vegetables are generally of higher value than other crop types, and the level of domestication varies greatly. Similarly, the mode of propagation can be sexual (seed) or asexual (clonal). Vegetable crops face significant challenges from biotic and abiotic stresses and have specific quality or consumer preference attributes. Breeders and geneticists studying vegetable crops can benefit from genomics and phenomic tools to improve their understanding of basic and value-added traits. Genomic studies using genotyping, genome sequencing, transcriptome profiling, or genome editing can lead to new knowledge and strategies for crop enhancement. Phenomics, or phenotyping plants with high-throughput/high-resolution technology, generates data sets that can dissect genetic differences in large breeding populations grown in diverse environments. This Special Issue of Agronomy will highlight applications of genomics and phenomics to vegetable crop improvement.

Dr. David De Koeyer
Guest Editor

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Agronomy is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2600 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • phenomics
  • genomics
  • phenotyping
  • vegetables
  • genotyping
  • genome sequencing
  • transcriptome profiling
  • genome editing
  • breeding

Published Papers (2 papers)

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Research

15 pages, 3110 KiB  
Article
Kompetitive Allele Specific PCR (KASP) Markers for Potato: An Effective Tool for Increased Genetic Gains
by Moctar Kante, Hannele Lindqvist-Kreuze, Leticia Portal, Maria David and Manuel Gastelo
Agronomy 2021, 11(11), 2315; https://doi.org/10.3390/agronomy11112315 - 16 Nov 2021
Cited by 9 | Viewed by 3353
Abstract
Potato virus Y (PVY) and Phytophthora infestans (Mont.) de Bary that causes potato late blight (LB), pose serious constraints to cultivated potatoes due to significant yield reduction, and phenotyping for resistance remains challenging. Breeding operations for vegetatively propagated crops can lead to genotype [...] Read more.
Potato virus Y (PVY) and Phytophthora infestans (Mont.) de Bary that causes potato late blight (LB), pose serious constraints to cultivated potatoes due to significant yield reduction, and phenotyping for resistance remains challenging. Breeding operations for vegetatively propagated crops can lead to genotype mislabeling that, in turn, reduces genetic gains. Low-density and low-cost molecular marker assessment for phenotype prediction and quality control is a viable option for breeding programs. Here, we report on the development of kompetitive allele specific PCR (KASP) markers for LB and PVY resistance, and for routine quality control assessment of different breeding populations. Two KASP markers for LB resistance and two for PVY Ryadg were validated with an estimated assay power that ranged between 0.65 and 0.88. The developed QC KASP markers demonstrated the capability of discriminating tetraploid calls in breeding materials, including full-sibs and half-sibs. Routine implementation of the developed markers in a breeding program would assist with better allocation of resources and enable precise characterization of breeding material, thereby leading to increased genetic gains. Full article
(This article belongs to the Special Issue Phenomic and Genomic Tools for the Enhancement of Vegetable Crops)
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14 pages, 2593 KiB  
Article
Potato Tuber Shape Phenotyping Using RGB Imaging
by Jonathan A. D. Neilson, Anne M. Smith, Lilia Mesina, Rachel Vivian, Susan Smienk and David De Koyer
Agronomy 2021, 11(9), 1781; https://doi.org/10.3390/agronomy11091781 - 06 Sep 2021
Cited by 6 | Viewed by 3202
Abstract
Potato tuber shape is an important quality trait for breeding and variety development. Length to width (L/W) ratio is a commonly used method to score potato tubers for suitability for different markets and is relatively easy to measure, though labor intensive when done [...] Read more.
Potato tuber shape is an important quality trait for breeding and variety development. Length to width (L/W) ratio is a commonly used method to score potato tubers for suitability for different markets and is relatively easy to measure, though labor intensive when done manually. L/W also does not adequately capture secondary growth and other tuber malformations that contribute to tuber shape. Tuber shape has a genetic component and is a prime target for early breeding selection. In the current study we developed an image analysis pipeline to extract tuber shape statistics from images taken using inexpensive, commercially available cameras. The image processing pipeline was used to evaluate greenhouse grown tubers from 32 unique crosses. Tubers from greenhouse grown plants were then grown in a field located in Vauxhall, AB, Canada, and evaluated for tuber shape. Randomly selected tuber images were also shown to industry agronomists and potato growers located in Southern Alberta and their shape scored for suitability for processing (French fry and chipping) markets. Based on measurements taken from greenhouse grown tubers we were able to classify whether mean tuber shape from field grown plants were within ideal shape parameters for processing markets with ~76–86% accuracy. Based on performance of progeny we identified parents which show higher breeding value for tuber shape. Full article
(This article belongs to the Special Issue Phenomic and Genomic Tools for the Enhancement of Vegetable Crops)
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