Construction of linkage maps is crucial for genetic studies and marker-assisted breeding programs. Recent advances in next generation sequencing technologies allow for the generation of high-density linkage maps, especially in non-model species lacking extensive genomic resources. Here, we constructed a high-density integrated genetic linkage map of rubber tree (Hevea brasiliensis), the sole co...

Conventional marker-based genotyping platforms are widely available, but not without their limitations. In this context, we developed Sequence-Based Genotyping (SBG), a technology for simultaneous marker discovery and co-dominant scoring, using next-generation sequencing. SBG offers users several advantages including a generic sample preparation method, a highly robust genome complexity reducti...

The LEPR is a glycoprotein expressed mainly in hypothalamus, where it takes part in energy homeostasis and in regulation of the activity of the secretory organs. A transition mutation in this gene results in substitution of cytosine by thymine leading to the substitution of threonine by methionine in the intracellular domain of the LEPR-b isoform. This study investigated the impact of polymorph...

dbSNP of NCBI, providing the information for SNP genotype and frequency of many populations. However, many previous association studies provide only the SNP nucleotide position or primer sequences, without giving an SNP ID of NCBI. In this study, we built the dbSNP, SNP fasta and SNP flanking marker databases for the rat, mouse and human organisms from the NCBI databases. Boyer-Moore algorithm,...

the lepr is a glycoprotein expressed mainly in hypothalamus, where it takes part in energy homeostasis and in regulation of the activity of the secretory organs. a transition mutation in this gene results in substitution of cytosine by thymine leading to the substitution of threonine by methionine in the intracellular domain of the lepr-b isoform. this study investigated the impact of polymorph...

Background Ghezel sheep are highly prolific and one of the local sheep breeds in Iran and Turkey. Growth differentiation factor-9 (GDF9) gene has been found to be essential for growth and differentiation of early ovarian follicles. Novel mutations in GDF9 have been associated with increased ovulation rates and high litter sizes in heterozygous carriers. Therefore, fecundity gene for GDF9 (FecGH...

SUMMARY SNPLINK is a Perl script that performs full genome linkage analysis of high-density single nucleotide polymorphism (SNP) marker sets. The presence of linkage disequilibrium (LD) between closely spaced SNP markers can falsely inflate linkage statistics. SNPLINK removes LD from the marker sets in an automated fashion before carrying out linkage analysis. SNPLINK can compute both parametri...

Molecular genetic research relies heavily on the ability to detect polymorphisms in DNA. Single nucleotide polymorphisms (SNPs) are the most frequent form of DNA variation in the genome. In combination with a PCR assay, the corresponding SNP can be analyzed as a derived cleaved amplified polymorphic sequence (dCAPS) marker. The dCAPS method exploits the well-known specificity of a restriction e...

Whole genome association studies have been increasingly used for QTL discovery. Analyses can performed using single marker (for example, single-nucleotide polymorphism, SNP) regression, but have also evolved to multiple marker (SNPs) regression to facilitate genomic selection. A major area of importance to the Northern Australian beef industry is female reproductive rate; specifically the numbe...