A genotyping-by-sequencing (GBS) linkage map forChoristoneura fumiferana and assessment of its synteny with theBombyxgenome

2016 ◽  
Author(s):  
Sandrine Picq
Keyword(s):  
Linkage Map ◽  
Genotyping By Sequencing

Construction of genetic linkage map using genotyping-by-sequencing and identification of QTLs associated with leaf color in spinach

Euphytica ◽  
2018 ◽  
Vol 214 (12) ◽  
Author(s):  
Xiaofeng Cai ◽  
Chenxi Xu ◽  
Xiaoli Wang ◽  
Shui Wang ◽  
Zhonghua Zhang ◽  
...  
Keyword(s):  
Linkage Map ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Genotyping By Sequencing ◽  
Leaf Color

Genotyping-by-sequencing for construction of a new genetic linkage map and QTL analysis of growth-related traits in Pacific bluefin tuna

2017 ◽  
Vol 49 (3) ◽  
pp. 1293-1301 ◽  
Author(s):  
Tsubasa Uchino ◽  
Erina Hosoda ◽  
Yoji Nakamura ◽  
Motoshige Yasuike ◽  
Miyuki Mekuchi ◽  
...  
Keyword(s):  
Linkage Map ◽  
Qtl Analysis ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Genotyping By Sequencing ◽  
Bluefin Tuna ◽  
Pacific Bluefin Tuna

scholarly journals A high-resolution consensus linkage map for barley based on GBS-derived genotypes

Genome ◽  
2021 ◽  
pp. 1-12
Author(s):  
Amina Abed ◽  
Ana Badea ◽  
Aaron Beattie ◽  
Raja Khanal ◽  
James Tucker ◽  
...  
Keyword(s):  
High Resolution ◽  
Linkage Map ◽  
Low Cost ◽  
Genotyping By Sequencing ◽  
Average Density ◽  
Genomic Research ◽  
Consensus Map ◽  
Genetic Studies ◽  
Integrated Map ◽  
The Mean

As genotyping-by-sequencing (GBS) is widely used in barley genetic studies, the translation of the physical position of GBS-derived SNPs into accurate genetic positions has become relevant. The main aim of this study was to develop a high-resolution consensus linkage map based on GBS-derived SNPs. The construction of this integrated map involved 11 bi-parental populations composed of 3743 segregating progenies. We adopted a uniform set of SNP-calling and filtering conditions to identify 50 875 distinct SNPs segregating in at least one population. These SNPs were grouped into 18 580 non-redundant SNPs (bins). The resulting consensus linkage map spanned 1050.1 cM, providing an average density of 17.7 bins and 48.4 SNPs per cM. The consensus map is characterized by the absence of large intervals devoid of marker coverage (significant gaps), the largest interval between bins was only 3.7 cM and the mean distance between adjacent bins was 0.06 cM. This high-resolution linkage map will contribute to several applications in genomic research, such as providing useful information on the recombination landscape for QTLs/genes identified via GWAS or ensuring a uniform distribution of SNPs when developing low-cost genotyping tools offering a limited number of markers.

scholarly journals Construction of a high-density linkage map and detection of sex-specific markers in Penaeus japonicus

PeerJ ◽  
2021 ◽  
Vol 9 ◽  
pp. e12390
Author(s):  
Yaqun Zhang ◽  
Chuantao Zhang ◽  
Na Yao ◽  
Jingxian Huang ◽  
Xiangshan Sun ◽  
...  
Keyword(s):  
Sex Determination ◽  
Linkage Map ◽  
Genetic Linkage ◽  
Molecular Mechanisms ◽  
Genetic Linkage Map ◽  
Genotyping By Sequencing ◽  
High Density ◽  
Nucleotide Polymorphisms ◽  
Penaeus Japonicus ◽  
Genetic Mechanisms

Penaeus japonicus is one of the most important farmed shrimp species in many countries. Sexual dimorphism is observed in P. japonicus, in which females grow faster and larger than males; therefore, a unisexual female culture of P. japonicus could improve the efficiency of productivity. However, the genetic mechanisms underlying sex determination in P. japonicus are unclear. In this study, we constructed a high-density genetic linkage map of P. japonicus using genotyping-by-sequencing (GBS) technology in a full-sib family. The final map was 3,481.98 cM in length and contained 29,757 single nucleotide polymorphisms (SNPs). These SNPs were distributed on 41 sex-averaged linkage groups, with an average inter-marker distance of 0.123 cM. One haplotype, harboring five sex-specific SNPs, was detected in linkage group 1 (LG1), and its corresponding confidence interval ranged from 211.840 to 212.592 cM. Therefore, this high-density genetic linkage map will be informative for genome assembly and marker-assisted breeding, and the sex-linked SNPs will be helpful for further studies on molecular mechanisms of sex determination and unisexual culture of P. japonicus in the future.

Construction of a SNP and SSR linkage map in autotetraploid blueberry using genotyping by sequencing

2016 ◽  
Vol 36 (4) ◽  
Author(s):  
Susan McCallum ◽  
Julie Graham ◽  
Linzi Jorgensen ◽  
Lisa J. Rowland ◽  
Nahla V. Bassil ◽  
...  
Keyword(s):  
Linkage Map ◽  
Genotyping By Sequencing

scholarly journals The first high-density sequence characterized SNP-based linkage map of olive (Olea europaea L. subsp. europaea) developed using genotyping by sequencing

2016 ◽  
Vol 10 (6) ◽  
pp. 857-863 ◽  
Author(s):  
Annalisa Marchese ◽  
◽  
Francesco Paolo Marra ◽  
Tiziano Caruso ◽  
Khethani Mhelembe ◽  
...  
Keyword(s):  
Linkage Map ◽  
Olea Europaea ◽  
Genotyping By Sequencing ◽  
High Density ◽  
Olea Europaea L ◽  
Olea Europaéa
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