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[CB-0004] Assembly of chromosome-level genome to accelerate octoploid strawberry breeding
Koeun Han(Koeun Han),Sun Yi Lee(Sun Yi Lee),Jinhee Kim(Jinhee Kim),Hye-Eun Lee(Hye-Eun Lee),Jinkwan Jo(Jinkwan Jo),Eun Su Lee(Eun Su Lee),Byoung-Cheorl Kang(Byoung-Cheorl Kang),Do-Sun Kim(Do-Sun Kim) 한국육종학회 2022 한국육종학회 공동학술발표집 Vol.2022 No.-
Development of Recombinant Inbred Lines in Capsicum
Koeun Han,Hee-Jin Jeong,Jin-Kyung Kwon,Byoung-Cheorl Kang,Yong-Jik Lee 한국육종학회 2012 한국육종학회 심포지엄 Vol.2012 No.07
The Korean people consume a lot of hot peppers. Despite its popularity and importance, genetic mechanism determining the content of capsaicinoid has not been understood yet. Since the inheritance of capsaicinoid content is thought to be controlled by quantitative trait loci (QTLs), a well-constructed genetic population and well-organized approach method to study genetic inheritance are required. Here we show the scheme to find the QTLs controlling capsaicinoid content using a recombinant inbred lines (RILs) obtained from a cross between C. annuum, Perennial and C. annuum, Dempsey. We measured capsaicinoid contents of each line for QTL analysis. In addition, total 24 qualitative and quantitative traits of RILs were phenotyped. Phenotyping data can be used to construct another QTL map controlling agricultural trait. An ultra high density linkage map constructed by sequencing RILs will used for QTL nalaysis. We are expecting that this study will be useful to breed high-quality and pungent pepper cultivars by molecular breeding method.
Development of High Quality SNP Markers Using Improved GBS Approach in Capsicum
Koeun Han,Joung-Ho Lee,Byoung-Cheorl Kang 한국육종학회 2014 한국육종학회 심포지엄 Vol.2014 No.07
Genotyping-by-sequencing (GBS) is a robust and rapid tool to develop SNP markers. Reduced sequencing complexity and multiplex sequencing of GBS has reduced genotyping cost for complex genome. However multiplex sequencing brings low sequencing depth which can lead to reduced number of markers. Therefore to find the appropriate condition for GBS is needed. In this research we demonstrated the use of ApeKI and selective primers for GBS of pepper (Capsicum spp.). Selective primers which amplify the GBS library with one or two flanking sequences to ApeKI site were used to increase sequencing depth. By in silico digestion, we developed six different selective primers amplify 4,000-400,000 regions. We made the GBS library with eight pepper accessions in four species using six selective primers and sequenced. Proper selective primers and pooling rate for each species will be determined. This approach will be useful for genotyping Capsicum breeding lines or populations by developing high quality SNP markers.
Koeun Han,Eun Su Lee,Hye-Eun Lee,Oakjin Lee,Do Sun Kim 한국원예학회 2021 한국원예학회 학술발표요지 Vol.2021 No.10
Watermelon (Citrullus lanatus) in an important vegetable crops consumed worldwide. Genomic variations including single nucleotide polymorphisms (SNPs) of multiple breeding lines have been identified for increasing breeding efficiency. However due to the lack of conversion of SNPs to practical markers, marker-assisted backcross (MABC) is not widely used for breeding. In this reason, we re-sequenced the 30 elite lines of Korean seed companies with diverse phenotype and detected 12,674 high-quality SNPs based on C. lanatus ‘97103’ genome (v2). A total of 384 markers were designed as Fluidigm SNP genotyping system and used to genotype watermelon germplasm. Successively converted 341 markers were distributed 24 ‒ 36 for 11 chromosomes and the average distance between markers were 1.06 Mbp. Using selected 341 markers, 28 BC1F1 individuals were genotyped and showed 74 ‒ 100% recovery rate which was correlated with the fruit phenotype including skin thickness and seed weight. In addition to the Fluidigm markers sets, 28 KASP markers were designed for seed purity test and breeding inbred lines. KASP markers could distinguish F1 and breeding lines with homozygosity 78 ‒ 100%. The SNP markers reported in this study will be useful for MABC, genetic mapping of a novel trait and selection of inbred lines of watermelon.