scholarly journals Genome Wide SSR High Density Genetic Map Construction from an Interspecific Cross of Gossypium hirsutum × Gossypium tomentosum

2016 ◽  
Vol 7 ◽  
Author(s):  
Muhammad K. R. Khan ◽  
Haodong Chen ◽  
Zhongli Zhou ◽  
Muhammad K. Ilyas ◽  
Xingxing Wang ◽  
...  
Keyword(s):  
Gossypium Hirsutum ◽  
Genetic Map ◽  
Interspecific Cross ◽  
High Density ◽  
Map Construction ◽  
Genome Wide ◽  
Gossypium Tomentosum

scholarly journals Genome-Wide Variant Identification and High-Density Genetic Map Construction Using RADseq for Platycladus orientalis (Cupressaceae)

2019 ◽  
Vol 9 (11) ◽  
pp. 3663-3672
Author(s):  
Yuqing Jin ◽  
Wei Zhao ◽  
Shuai Nie ◽  
Si-Si Liu ◽  
Yousry A. El-Kassaby ◽  
...  
Keyword(s):  
Genetic Map ◽  
High Density ◽  
Platycladus Orientalis ◽  
Map Construction ◽  
Genome Wide ◽  
Variant Identification

scholarly journals Development and validation of genome-wide InDel markers with high levels of polymorphism in bitter gourd (Momordica charantia)

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Junjie Cui ◽  
Jiazhu Peng ◽  
Jiaowen Cheng ◽  
Kailin Hu
Keyword(s):  
Genetic Map ◽  
Average Density ◽  
Momordica Charantia ◽  
Bitter Gourd ◽  
Map Construction ◽  
Indel Markers ◽  
Genome Wide ◽  
Indel Polymorphisms ◽  
Molecular Marker Development ◽  
Development And Validation

Abstract Background The preferred choice for molecular marker development is identifying existing variation in populations through DNA sequencing. With the genome resources currently available for bitter gourd (Momordica charantia), it is now possible to detect genome-wide insertion-deletion (InDel) polymorphisms among bitter gourd populations, which guides the efficient development of InDel markers. Results Here, using bioinformatics technology, we detected 389,487 InDels from 61 Chinese bitter gourd accessions with an average density of approximately 1298 InDels/Mb. Then we developed a total of 2502 unique InDel primer pairs with a polymorphism information content (PIC) ≥0.6 distributed across the whole genome. Amplification of InDels in two bitter gourd lines ‘47–2–1-1-3’ and ‘04–17,’ indicated that the InDel markers were reliable and accurate. To highlight their utilization, the InDel markers were employed to construct a genetic map using 113 ‘47–2–1-1-3’ × ‘04–17’ F2 individuals. This InDel genetic map of bitter gourd consisted of 164 new InDel markers distributed on 15 linkage groups with a coverage of approximately half of the genome. Conclusions This is the first report on the development of genome-wide InDel markers for bitter gourd. The validation of the amplification and genetic map construction suggests that these unique InDel markers may enhance the efficiency of genetic studies and marker-assisted selection for bitter gourd.

scholarly journals A high-density SNP-based genetic map and several economic traits-related loci in Pelteobagrus vachelli

BMC Genomics ◽  
2020 ◽  
Vol 21 (1) ◽  
Author(s):  
Guosong Zhang ◽  
Jie Li ◽  
Jiajia Zhang ◽  
Xia Liang ◽  
Tao Wang ◽  
...  
Keyword(s):  
Sex Determination ◽  
Linkage Map ◽  
Candidate Genes ◽  
Genetic Map ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
High Density ◽  
Hypoxia Tolerance ◽  
Genome Wide ◽  
Pelteobagrus Vachelli

Abstract Background A high-density genetic linkage map is essential for QTL fine mapping, comparative genome analysis, identification of candidate genes and marker-assisted selection in aquaculture species. Pelteobagrus vachelli is a very popular commercial species in Asia. However, some specific characters hindered achievement of the traditional selective breeding based on phenotypes, such as lack of large-scale genomic resource and short of markers tightly associated with growth, sex determination and hypoxia tolerance related traits. Results By making use of 5059 ddRAD markers in P. vachelli, a high-resolution genetic linkage map was successfully constructed. The map’ length was 4047.01 cM by using an interval of 0.11 cm, which is an average marker standard. Comparative genome mapping revealed that a high proportion (83.2%) of markers with a one-to-one correspondence were observed between P. vachelli and P. fulvidraco. Based on the genetic map, 8 significant genome-wide QTLs for 4 weight, 1 body proportion, 2 sex determination, and 1 hypoxia tolerance related traits were detected on 4 LGs. Some SNPs from these significant genome-wide QTLs were observably associated with these phenotypic traits in other individuals by Kompetitive Allele Specific PCR. In addition, two candidate genes for weight, Sipa1 and HSD11B2, were differentially expressed between fast-, medium- and slow-growing P. vachelli. Sema7a, associated with hypoxia tolerance, was induced after hypoxia exposure and reoxygenation. Conclusions We mapped a set of suggestive and significant QTLs as well as candidate genes for 12 growth, 1 sex determination and 1 hypoxia tolerance related traits based on a high-density genetic linkage map by making use of SNP markers for P. fulvidraco. Our results have offered a valuable method about the much more efficient production of all-male, fast growth and hypoxia tolerance P. vachelli for the aquaculture industry.

scholarly journals A high density SLAF-SNP genetic map and QTL detection for fibre quality traits in Gossypium hirsutum

BMC Genomics ◽  
2018 ◽  
Vol 19 (1) ◽  
Author(s):  
Iftikhar Ali ◽  
Zhonghua Teng ◽  
Yuting Bai ◽  
Qing Yang ◽  
Yongshui Hao ◽  
...  
Keyword(s):  
Gossypium Hirsutum ◽  
Genetic Map ◽  
High Density ◽  
Quality Traits ◽  
Fibre Quality ◽  
Qtl Detection

scholarly journals High-Density Genetic Map Construction and QTL Mapping of Leaf and Needling Traits in Ziziphus jujuba Mill

2019 ◽  
Vol 10 ◽  
Author(s):  
Zhongtang Wang ◽  
Zhong Zhang ◽  
Haixia Tang ◽  
Qiong Zhang ◽  
Guangfang Zhou ◽  
...  
Keyword(s):  
Qtl Mapping ◽  
Genetic Map ◽  
High Density ◽  
Map Construction ◽  
Ziziphus Jujuba
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