Tools for genetic studies in experimental populations of polyploids

PM Bourke, RE Voorrips, RGF Visser… - Frontiers in plant …, 2018 - frontiersin.org
Polyploid organisms carry more than two copies of each chromosome, a condition rarely
tolerated in animals but which occurs relatively frequently in the plant kingdom. One of the …

Development and applications of a high throughput genotyping tool for polyploid crops: single nucleotide polymorphism (SNP) array

Q You, X Yang, Z Peng, L Xu, J Wang - Frontiers in Plant Science, 2018 - frontiersin.org
Polypoid species play significant roles in agriculture and food production. Many crop
species are polyploid, such as potato, wheat, strawberry, and sugarcane. Genotyping has …

Genotyping polyploids from messy sequencing data

D Gerard, LFV Ferrão, AAF Garcia, M Stephens - Genetics, 2018 - academic.oup.com
Gerard et al. highlight several issues encountered when genotyping polyploid organisms
from next-generation sequencing data, including allelic bias, overdispersion, and outlying …

Genetic variance partitioning and genome-wide prediction with allele dosage information in autotetraploid potato

JB Endelman, CAS Carley, PC Bethke, JJ Coombs… - Genetics, 2018 - academic.oup.com
As one of the world's most important food crops, the potato (Solanum tuberosum L.) has
spurred innovation in autotetraploid genetics, including in the use of SNP arrays to …

Genetic and genomic resources for Rubus breeding: a roadmap for the future

TM Foster, NV Bassil, M Dossett… - Horticulture …, 2019 - academic.oup.com
Rubus fruits are high-value crops that are sought after by consumers for their flavor, visual
appeal, and health benefits. To meet this demand, production of red and black raspberries …

Linkage disequilibrium and evaluation of genome-wide association mapping models in tetraploid potato

SK Sharma, K MacKenzie, K McLean… - G3: Genes …, 2018 - academic.oup.com
Genome-wide association studies (GWAS) have become a powerful tool for analyzing
complex traits in crop plants. The current study evaluates the efficacy of various GWAS …

Heritable microbiome variation is correlated with source environment in locally adapted maize varieties

X He, D Wang, Y Jiang, M Li, M Delgado-Baquerizo… - Nature Plants, 2024 - nature.com
Beneficial interactions with microorganisms are pivotal for crop performance and resilience.
However, it remains unclear how heritable the microbiome is with respect to the host plant …

polymapR—linkage analysis and genetic map construction from F1 populations of outcrossing polyploids

PM Bourke, G Van Geest, RE Voorrips, J Jansen… - …, 2018 - academic.oup.com
Motivation Polyploid species carry more than two copies of each chromosome, a condition
found in many of the world's most important crops. Genetic mapping in polyploids is more …

Genotyping-by-sequencing targets genic regions and improves resolution of genome-wide association studies in autotetraploid potato

SK Sharma, K McLean, PE Hedley, F Dale… - Theoretical and Applied …, 2024 - Springer
Key message De novo genotyping in potato using methylation-sensitive GBS discovers
SNPs largely confined to genic or gene-associated regions and displays enhanced …

Biotechnology: An advanced tool for crop improvement

T Adlak, S Tiwari, MK Tripathi, N Gupta… - Current Journal of …, 2019 - journal.send2sub.com
Plant breeding is mainly concerned with genetic improvement of crops through
hybridization, screening and selection of advance lines. The conventional methods give …