Dataset Information

Admixture Analysis Using Genotyping-by-Sequencing Reveals Genetic Relatedness and Parental Lineage Distribution in Highbush Blueberry Genotypes and Cross Derivatives.

ABSTRACT: Blueberries (Vaccinium section Cyanococcus) are perennial shrubs widely cultivated for their edible fruits. In this study, we performed admixture and genetic relatedness analysis of northern highbush (NHB, primarily V. corymbosum) and southern highbush (SHB, V. corymbosum introgressed with V. darrowii, V. virgatum, or V. tenellum) blueberry genotypes, and progenies of the BNJ16-5 cross (V. corymbosum × V. darrowii). Using genotyping-by-sequencing (GBS), we generated more than 334 million reads (75 bp). The GBS reads were aligned to the V. corymbosum cv. Draper v1.0 reference genome sequence, and ~2.8 million reads were successfully mapped. From the alignments, we identified 2,244,039 single-nucleotide polymorphisms, which were used for principal component, haplotype, and admixture analysis. Principal component analysis revealed three main groups: (1) NHB cultivars, (2) SHB cultivars, and (3) BNJ16-5 progenies. The overall fixation index (F_ST) and nucleotide diversity for NHB and SHB cultivars indicated wide genetic differentiation, and haplotype analysis revealed that SHB cultivars are more genetically diverse than NHB cultivars. The admixture analysis identified a mixture of various lineages of parental genomic introgression. This study demonstrated the effectiveness of GBS-derived single-nucleotide polymorphism markers in genetic and admixture analyses to reveal genetic relatedness and to examine parental lineages in blueberry, which may be useful for future breeding plans.

SUBMITTER: Kulkarni KP

PROVIDER: S-EPMC7796047 | biostudies-literature | 2020 Dec

REPOSITORIES: biostudies-literature

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Admixture Analysis Using Genotyping-by-Sequencing Reveals Genetic Relatedness and Parental Lineage Distribution in Highbush Blueberry Genotypes and Cross Derivatives.

Kulkarni Krishnanand P KP Vorsa Nicholi N Natarajan Purushothaman P Elavarthi Sathya S Iorizzo Massimo M Reddy Umesh K UK Melmaiee Kalpalatha K

International journal of molecular sciences 20201226 1

Blueberries (Vaccinium section Cyanococcus) are perennial shrubs widely cultivated for their edible fruits. In this study, we performed admixture and genetic relatedness analysis of northern highbush (NHB, primarily V. corymbosum) and southern highbush (SHB, V. corymbosum introgressed with V. darrowii, V. virgatum, or V. tenellum) blueberry genotypes, and progenies of the BNJ16-5 cross (V. corymbosum × V. darrowii). Using genotyping-by-sequencing ...[more]

PMID: 33375261

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Project description:This study examined the effects of nitrogen fertilization on populations of Rotylenchus robustus, Pratylenchus crenatus, and Paratrichodorus renifer, and indices of free-living nematode community structure, in relation to highbush blueberry production in British Columbia, Canada. The field experiment was established in fall of 2008 with six replicate plots of each of four experimental N fertilization treatments: 0, 100, 150, and 200% of the annual application rate recommended for conventional blueberry production in the region. Nematode populations were quantified annually from 2009 through 2015, and then nematode populations and root biomass were quantified at seven sample dates from 2016 through 2019. Population densities of R. robustus were consistently greater in the 100% treatment than in the 0, 150, and 200% treatments which did not differ from each other. Population densities of P. crenatus were consistently greater in the 150% treatment than in the 0, 100%, and 200% treatments. The nematode structure index and two indices of diversity declined monotonically with N fertilizer rate, indicating broader changes in the soil food web that could have had indirect, feedback effects on population dynamics of the plant-parasitic nematodes.This study examined the effects of nitrogen fertilization on populations of Rotylenchus robustus, Pratylenchus crenatus, and Paratrichodorus renifer, and indices of free-living nematode community structure, in relation to highbush blueberry production in British Columbia, Canada. The field experiment was established in fall of 2008 with six replicate plots of each of four experimental N fertilization treatments: 0, 100, 150, and 200% of the annual application rate recommended for conventional blueberry production in the region. Nematode populations were quantified annually from 2009 through 2015, and then nematode populations and root biomass were quantified at seven sample dates from 2016 through 2019. Population densities of R. robustus were consistently greater in the 100% treatment than in the 0, 150, and 200% treatments which did not differ from each other. Population densities of P. crenatus were consistently greater in the 150% treatment than in the 0, 100%, and 200% treatments. The nematode structure index and two indices of diversity declined monotonically with N fertilizer rate, indicating broader changes in the soil food web that could have had indirect, feedback effects on population dynamics of the plant-parasitic nematodes.

Dataset Information

Admixture Analysis Using Genotyping-by-Sequencing Reveals Genetic Relatedness and Parental Lineage Distribution in Highbush Blueberry Genotypes and Cross Derivatives.

Publications

Admixture Analysis Using Genotyping-by-Sequencing Reveals Genetic Relatedness and Parental Lineage Distribution in Highbush Blueberry Genotypes and Cross Derivatives.

Similar Datasets

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