scholarly journals Development of an integrated 200K SNP genotyping array and application for genetic mapping, genome assembly improvement and genome wide association studies in pear ( Pyrus )

2019 ◽  
Vol 17 (8) ◽  
pp. 1582-1594 ◽  
Author(s):  
Xiaolong Li ◽  
Jugpreet Singh ◽  
Mengfan Qin ◽  
Siwei Li ◽  
Xun Zhang ◽  
...  
Keyword(s):  
Genetic Mapping ◽  
Genome Assembly ◽  
Association Studies ◽  
Snp Genotyping ◽  
Genome Wide Association ◽  
Genome Wide Association Studies ◽  
Genotyping Array ◽  
Genome Wide

scholarly journals An Improved Genome Assembly of the European Aspen Populus tremula

2019 ◽  
Author(s):  
Bastian Schiffthaler ◽  
Nicolas Delhomme ◽  
Carolina Bernhardsson ◽  
Jerry Jenkins ◽  
Stefan Jansson ◽  
...  
Keyword(s):  
Genome Assembly ◽  
Association Studies ◽  
Genomic Variation ◽  
Populus Tremula ◽  
Genome Wide Association ◽  
Genome Wide Association Studies ◽  
Short Read ◽  
Genome Wide ◽  
European Aspen ◽  
Long Read

ABSTRACTThe genome assembly of the European aspen Populus tremula proved difficult for a short-read based strategy due to high genomic variation. As a consequence, the fragmented sequence is impeding studies that benefit from highly contiguous data, particularly genome-wide association studies (GWAS) and comparative genomics. Here we present an updated assembly based on long-read sequences, optical mapping and genetic mapping. This assembly - henceforth referred to as Potra V2 - is assembled into 19 contiguous chromosomes which provides a powerful tool for future association studies. The genome sequence and any feature files are available from the PopGenIE resource.

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