scholarly journals Development of a 50K SNP Array for Japanese Flounder and its Application in Genomic Selection for Disease Resistance

Engineering ◽  
2020 ◽  
Author(s):  
Qian Zhou ◽  
Ya-dong Chen ◽  
Sheng Lu ◽  
Yang Liu ◽  
Wen-teng Xu ◽  
...  
Keyword(s):  
Disease Resistance ◽  
Genomic Selection ◽  
Snp Array ◽  
Japanese Flounder ◽  
Selection For

scholarly journals Potential of genomic selection for improvement of resistance to Ostreid Herpes virus in Pacific oyster (Crassostrea gigas)

2019 ◽  
Author(s):  
Alejandro P. Gutierrez ◽  
Jane Symonds ◽  
Nick King ◽  
Konstanze Steiner ◽  
Tim P. Bean ◽  
...  
Keyword(s):  
Genomic Selection ◽  
Pacific Oyster ◽  
Snp Array ◽  
Cost Effective ◽  
Snp Markers ◽  
Density Reduction ◽  
Pacific Oysters ◽  
Summer Mortality ◽  
Selection For ◽  
Estimated Breeding Values

AbstractIn genomic selection (GS), genome-wide SNP markers are used to generate genomic estimated breeding values (gEBVs) for selection candidates. The application of GS in shellfish looks promising and has the potential to help in dealing with one of the main issues currently affecting Pacific oyster production worldwide, which is the “summer mortality syndrome”. This causes periodic mass mortality in farms worldwide and has mainly been attributed to a specific variant of the Ostreid herpesvirus (OsHV-1-μvar). In the current study, we evaluated the potential of genomic selection for host resistance OsHV in Pacific oysters, and compared it to pedigree-based approaches. An OsHV-1 disease challenge was performed using an immersion-based virus exposure treatment for oysters for seven days. 768 samples were genotyped using the medium density SNP array for oysters. GWAS was performed for the survival trait using a GBLUP approach in BLUPF90 software. Heritability ranged from 0.25±0.05 to 0.37±0.05 (mean±s.e) based on pedigree and genomic information, respectively. Genomic prediction was more accurate than pedigree prediction, and SNP density reduction had little impact on prediction accuracy until marker densities dropped below ∼500 SNPs. This demonstrates the potential for GS in Pacific oyster breeding programs and importantly, demonstrates that a low number of SNPs might suffice to obtain accurate gEBVs, thus potentially making the implementation of GS more cost effective.

scholarly journals Prediction Accuracies of Genomic Selection for Nine Commercially Important Traits in the Portuguese Oyster (Crassostrea angulata) Using DArT-Seq Technology

Genes ◽  
2021 ◽  
Vol 12 (2) ◽  
pp. 210
Author(s):  
Sang V. Vu ◽  
Cedric Gondro ◽  
Ngoc T. H. Nguyen ◽  
Arthur R. Gilmour ◽  
Rick Tearle ◽  
...  
Keyword(s):  
Moisture Content ◽  
Genomic Selection ◽  
Shell Length ◽  
Prediction Accuracy ◽  
Genomic Information ◽  
Morphometric Traits ◽  
Shell Weight ◽  
Shell Width ◽  
Crassostrea Angulata ◽  
Selection For

Genomic selection has been widely used in terrestrial animals but has had limited application in aquaculture due to relatively high genotyping costs. Genomic information has an important role in improving the prediction accuracy of breeding values, especially for traits that are difficult or expensive to measure. The purposes of this study were to (i) further evaluate the use of genomic information to improve prediction accuracies of breeding values from, (ii) compare different prediction methods (BayesA, BayesCπ and GBLUP) on prediction accuracies in our field data, and (iii) investigate the effects of different SNP marker densities on prediction accuracies of traits in the Portuguese oyster (Crassostrea angulata). The traits studied are all of economic importance and included morphometric traits (shell length, shell width, shell depth, shell weight), edibility traits (tenderness, taste, moisture content), and disease traits (Polydora sp. and Marteilioides chungmuensis). A total of 18,849 single nucleotide polymorphisms were obtained from genotyping by sequencing and used to estimate genetic parameters (heritability and genetic correlation) and the prediction accuracy of genomic selection for these traits. Multi-locus mixed model analysis indicated high estimates of heritability for edibility traits; 0.44 for moisture content, 0.59 for taste, and 0.72 for tenderness. The morphometric traits, shell length, shell width, shell depth and shell weight had estimated genomic heritabilities ranging from 0.28 to 0.55. The genomic heritabilities were relatively low for the disease related traits: Polydora sp. prevalence (0.11) and M. chungmuensis (0.10). Genomic correlations between whole weight and other morphometric traits were from moderate to high and positive (0.58–0.90). However, unfavourably positive genomic correlations were observed between whole weight and the disease traits (0.35–0.37). The genomic best linear unbiased prediction method (GBLUP) showed slightly higher accuracy for the traits studied (0.240–0.794) compared with both BayesA and BayesCπ methods but these differences were not significant. In addition, there is a large potential for using low-density SNP markers for genomic selection in this population at a number of 3000 SNPs. Therefore, there is the prospect to improve morphometric, edibility and disease related traits using genomic information in this species.

Developmental morphology and anatomy of the reproductive structures in sunflower (Helianthus annuus): a unified temporal scale

Botany ◽  
2015 ◽  
Vol 93 (5) ◽  
pp. 307-316 ◽  
Author(s):  
L.I. Lindström ◽  
L.F. Hernández
Keyword(s):  
Disease Resistance ◽  
Helianthus Annuus ◽  
Oil Content ◽  
Genetic Selection ◽  
Reproductive Development ◽  
Developmental Morphology ◽  
Male And Female ◽  
Reproductive Structures ◽  
Selection For ◽  
Growing Conditions

In sunflower (Helianthus annuus L.), there has been an intense genetic selection for achenes with agronomic value, such as greater mass, oil content, and disease resistance. However, the information regarding the anatomical events that control their growth and maturation is surprisingly scarce. The aim of the present work was to study sunflower male and female sporogenesis and gametogenesis, as well as cell division and enlargement and tissue differentiation in the ovary and the embryo, linking the timing of these events to two frequently used phenological scales and a thermal time scale. In addition, we propose an ontogenetic scale that integrates the results of the present work to that of previous studies on sunflower reproductive development. The unified scales presented here provide a framework for others to investigate the relationships uncovered in this study in different genetic backgrounds and under different growing conditions.

scholarly journals Relatedness severely impacts accuracy of marker-assisted selection for disease resistance in hybrid wheat

Heredity ◽  
2013 ◽  
Vol 112 (5) ◽  
pp. 552-561 ◽  
Author(s):  
M Gowda ◽  
Y Zhao ◽  
T Würschum ◽  
C FH Longin ◽  
T Miedaner ◽  
...  
Keyword(s):  
Disease Resistance ◽  
Marker Assisted Selection ◽  
Hybrid Wheat ◽  
Selection For

Genomic Selection for the Traits Expressed after Pollination in Allogamous Plants

Crop Science ◽  
2014 ◽  
Vol 54 (4) ◽  
pp. 1448-1457 ◽  
Author(s):  
Shiori Yabe ◽  
Ryo Ohsawa ◽  
Hiroyoshi Iwata
Keyword(s):  
Genomic Selection ◽  
Selection For
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