The genetic architectures of vine and skin maturity in tetraploid potato Article Swipe

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Maria V. Caraza‐Harter , Jeffrey B. Endelman ·

YOU? · · 2022 · Open Access · · DOI: https://doi.org/10.1101/2022.04.04.486897

Potato vine and skin maturity, which refer to foliar senescence and adherence of the tuber periderm, respectively, are both important to production and therefore breeding. Our objective was to investigate the genetic architectures of these traits in a genome-wide association panel of 586 genotypes, and through joint linkage mapping in a half-diallel subset (N = 397). Skin maturity was measured by image analysis after mechanized harvest 120 days after planting. To correct for the influence of vine maturity on skin maturity under these conditions, the former was used as a covariate in the analysis. The genomic heritability based on a 10K SNP array was 0.33 for skin maturity vs. 0.46 for vine maturity. Only minor QTL were detected for skin maturity, the largest being on chromosome 9 and explaining 8% of the variation. As in many previous studies, S. tuberosum Cycling DOF Factor 1 (CDF1) had a large influence on vine maturity, explaining 33% of the variation in the panel as a bi-allelic SNP and 44% in the half-diallel as a multi-allelic QTL. From the estimated effects of the parental haplotypes in the half-diallel and prior knowledge of the allelic series for CDF1 , the CDF1 allele for each haplotype was predicted and ultimately confirmed through whole-genome sequencing. The ability to connect statistical alleles from QTL models with biological alleles based on DNA sequencing represents a new milestone in genomics-assisted breeding for tetraploid species.

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Diallel cross Biology Quantitative trait locus Heritability Genetics Vine Allele Genetic architecture Haplotype Horticulture Gene Hybrid

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Type: preprint
Language: en
Landing Page: https://doi.org/10.1101/2022.04.04.486897
PDF: https://www.biorxiv.org/content/biorxiv/early/2022/06/07/2022.04.04.486897.full.pdf
OA Status: green
References: 52
Related Works: 10
OpenAlex ID: https://openalex.org/W4224034199

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DOI: https://doi.org/10.1101/2022.04.04.486897

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Title: The genetic architectures of vine and skin maturity in tetraploid potato

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Type: preprint

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Language: en

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Publication year: 2022

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Publication date: 2022-04-05

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Authors: Maria V. Caraza‐Harter, Jeffrey B. Endelman

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Landing page: https://doi.org/10.1101/2022.04.04.486897

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Concepts: Diallel cross, Biology, Quantitative trait locus, Heritability, Genetics, Vine, Allele, Genetic architecture, Haplotype, Horticulture, Gene, Hybrid

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abstract_inverted_index.tuberosum	140
abstract_inverted_index.variation	157
abstract_inverted_index.bi-allelic	163
abstract_inverted_index.biological	219
abstract_inverted_index.chromosome	126
abstract_inverted_index.explaining	129, 153
abstract_inverted_index.genotypes,	44
abstract_inverted_index.haplotypes	181
abstract_inverted_index.mechanized	65
abstract_inverted_index.production	22
abstract_inverted_index.represents	225
abstract_inverted_index.senescence	10
abstract_inverted_index.sequencing	224
abstract_inverted_index.tetraploid	233
abstract_inverted_index.ultimately	204
abstract_inverted_index.variation.	133
abstract_inverted_index.association	40
abstract_inverted_index.conditions,	84
abstract_inverted_index.genome-wide	39
abstract_inverted_index.investigate	30
abstract_inverted_index.sequencing.	208
abstract_inverted_index.statistical	213
abstract_inverted_index.half-diallel	52, 169, 184
abstract_inverted_index.heritability	97
abstract_inverted_index.whole-genome	207
abstract_inverted_index.architectures	33
abstract_inverted_index.multi-allelic	172
abstract_inverted_index.respectively,	17
abstract_inverted_index.genomics-assisted	230
cited_by_percentile_year
corresponding_author_ids	https://openalex.org/A5021455318
countries_distinct_count	1
institutions_distinct_count	2
corresponding_institution_ids	https://openalex.org/I135310074
citation_normalized_percentile.value	0.01689257
citation_normalized_percentile.is_in_top_1_percent	False
citation_normalized_percentile.is_in_top_10_percent	False