The Strawberry DNA Testing Handbook

Oh, Youngjae; Zurn, Jason D.; Bassil, Nahla V.; Edger, Patrick P.; Knapp, Steven J.; Whitaker, Vance M.; Lee, Seong-Hee

doi:10.21273/hortsci14387-19

Cited by 13 publications

(11 citation statements)

References 13 publications

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“…In addition to the identification of QTLs, new DNA tests were developed and existing DNA tests were validated for strawberry in diverse collections of germplasm 124 – 128 . As a resource for strawberry breeding programs interested in conducting MAS, details on strawberry DNA tests developed by RosBREED and other strawberry research programs were distilled into a compendium 129 . This Strawberry DNA Test Handbook exists as a downloadable document on the GDR and is updated as new or improved tests are reported 12 , 129 .…”

Section: Genomics and Socio-economics Knowledge Informs All Stages Ofmentioning

confidence: 99%

“…As a resource for strawberry breeding programs interested in conducting MAS, details on strawberry DNA tests developed by RosBREED and other strawberry research programs were distilled into a compendium 129 . This Strawberry DNA Test Handbook exists as a downloadable document on the GDR and is updated as new or improved tests are reported 12 , 129 .…”

Section: Genomics and Socio-economics Knowledge Informs All Stages Ofmentioning

confidence: 99%

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RosBREED: bridging the chasm between discovery and application to enable DNA-informed breeding in rosaceous crops

et al. 2020

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The Rosaceae crop family (including almond, apple, apricot, blackberry, peach, pear, plum, raspberry, rose, strawberry, sweet cherry, and sour cherry) provides vital contributions to human well-being and is economically significant across the U.S. In 2003, industry stakeholder initiatives prioritized the utilization of genomics, genetics, and breeding to develop new cultivars exhibiting both disease resistance and superior horticultural quality. However, rosaceous crop breeders lacked certain knowledge and tools to fully implement DNA-informed breeding—a “chasm” existed between existing genomics and genetic information and the application of this knowledge in breeding. The RosBREED project (“Ros” signifying a Rosaceae genomics, genetics, and breeding community initiative, and “BREED”, indicating the core focus on breeding programs), addressed this challenge through a comprehensive and coordinated 10-year effort funded by the USDA-NIFA Specialty Crop Research Initiative. RosBREED was designed to enable the routine application of modern genomics and genetics technologies in U.S. rosaceous crop breeding programs, thereby enhancing their efficiency and effectiveness in delivering cultivars with producer-required disease resistances and market-essential horticultural quality. This review presents a synopsis of the approach, deliverables, and impacts of RosBREED, highlighting synergistic global collaborations and future needs. Enabling technologies and tools developed are described, including genome-wide scanning platforms and DNA diagnostic tests. Examples of DNA-informed breeding use by project participants are presented for all breeding stages, including pre-breeding for disease resistance, parental and seedling selection, and elite selection advancement. The chasm is now bridged, accelerating rosaceous crop genetic improvement.

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Section: Genomics and Socio-economics Knowledge Informs All Stages Ofmentioning

confidence: 99%

Section: Genomics and Socio-economics Knowledge Informs All Stages Ofmentioning

confidence: 99%

RosBREED: bridging the chasm between discovery and application to enable DNA-informed breeding in rosaceous crops

et al. 2020

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“…Importantly, these data also allow sensory evaluations to drive targeted genetic solutions for improving eating quality, for example, γ-decalactone was identified as a flavor target based on sensory evidence ( Schwieterman et al, 2014 ) and the identification of a candidate gene ( FaFAD1 ) responsible for the presence and abundance of this volatile ( Chambers et al, 2014 ; Sánchez-Sevilla et al, 2014 ; Noh et al, 2017 ). An improved codominant DNA maker for FaFAD1 was recently designed, validated, and implemented in a marker-assisted selection ( Oh et al, 2019 ). Thus, a fruit quality improvement paradigm that begins with consumer-desired sensory attributes and progresses to chemical targets and finally to genetic tools is now feasible in strawberry.…”

Section: Resultsmentioning

confidence: 99%

Volatiles Influencing Sensory Attributes and Bayesian Modeling of the Soluble Solids–Sweetness Relationship in Strawberry

et al. 2021

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Descriptive analysis via trained sensory panels has great power to facilitate flavor improvement in fresh fruits and vegetables. When paired with an understanding of fruit volatile organic compounds, descriptive analysis can help uncover the chemical drivers of sensory attributes. In the present study, 213 strawberry samples representing 56 cultivars and advanced selections were sampled over seven seasons and subjected to both sensory descriptive and chemical analyses. Principal component analysis and K-cluster analyses of sensory data highlighted three groups of strawberry samples, with one classified as superior with high sweetness and strawberry flavor and low sourness and green flavor. Partial least square models revealed 20 sweetness-enhancing volatile organic compounds and two sweetness-reducing volatiles, many of which overlap with previous consumer sensory studies. Volatiles modulating green, sour, astringent, overripe, woody, and strawberry flavors were also identified. The relationship between soluble solids content (SSC) and sweetness was modeled with Bayesian regression, generating probabilities for sweetness levels from varying levels of soluble solids. A hierarchical Bayesian model with month effects indicated that SSC is most correlated to sweetness toward the end of the fruiting season, making this the best period to make phenotypic selections for soluble solids. Comparing effects from genotypes, harvest months, and their interactions on sensory attributes revealed that sweetness, sourness, and firmness were largely controlled by genetics. These findings help formulate a paradigm for improvement of eating quality in which sensory analyses drive the targeting of chemicals important to consumer-desired attributes, which further drive the development of genetic tools for improvement of flavor.

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“…Assays for SNP detection such as kompetitive allele-specific polymerase chain reaction (KASP) and high-resolution melting have become the tests of choice for breeding applications due to an abundance of SNP information from array genotyping, accuracy and ease of scoring, and resilience to crude strawberry DNA extracts 62,63 . The Strawberry DNA Testing Handbook was recently developed to assist breeders in identifying published DNA tests and understanding how to apply them 64 . This community resource is available at the Genome Database for Rosaceae 65 and will be continually updated as existing tests are improved and new tests are published ( Table 1).…”

Section: Genome-assisted Breeding In Strawberrymentioning

confidence: 99%

A roadmap for research in octoploid strawberry

et al. 2020

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The cultivated strawberry (Fragaria × ananassa) is an allo-octoploid species, originating nearly 300 years ago from wild progenitors from the Americas. Since that time the strawberry has become the most widely cultivated fruit crop in the world, universally appealing due to its sensory qualities and health benefits. The recent publication of the first highquality chromosome-scale octoploid strawberry genome (cv. Camarosa) is enabling rapid advances in genetics, stimulating scientific debate and provoking new research questions. In this forward-looking review we propose avenues of research toward new biological insights and applications to agriculture. Among these are the origins of the genome, characterization of genetic variants, and big data approaches to breeding. Key areas of research in molecular biology will include the control of flowering, fruit development, fruit quality, and plant-pathogen interactions. In order to realize this potential as a global community, investments in genome resources must be continually augmented.Origin and organization of the octoploid strawberry genome

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The Strawberry DNA Testing Handbook

Cited by 13 publications

References 13 publications

RosBREED: bridging the chasm between discovery and application to enable DNA-informed breeding in rosaceous crops

RosBREED: bridging the chasm between discovery and application to enable DNA-informed breeding in rosaceous crops

Volatiles Influencing Sensory Attributes and Bayesian Modeling of the Soluble Solids–Sweetness Relationship in Strawberry

A roadmap for research in octoploid strawberry

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