| Products/Services Used | Details | Operation |
|---|---|---|
| Gene Synthesis | Two perl scripts served as interface modules between MISA and Primer3; p3_in.pl for creating a primer3 input file which was submitted to Primer3, and p3_out.pl, which was used to calculate and merge the information. These two perl scripts were downloaded from MISA (http:// pgrc.ipk-gatersleben.de/misa/). To verify the primer specificity, in silico PCR analysis (parameter:gap 0-mismach 0-product size 50–2000) was employed to examine the uniqueness of the primer in different cotton species. The primer pairs for experimental validation were synthesized by GenScript (Nanjing, China). All primer information, including the primer design parameters, is shown in Dataset S4. | Get A Quote |
Intron length polymorphisms (ILPs), a type of gene-based functional marker, could themselves be related to the particular traits. Here, we developed a genome-wide cotton ILPs based on orthologs annotation from two sequenced diploid species, A-genome Gossypium arboreum and D-genome G. raimondii. We identified 10,180 putative ILP markers from 5,021 orthologous genes. Among these, 535 ILP markers from 9 gene families related to stress were selected for experimental verification. Polymorphic rates were 72.71% between G. arboreum and G. raimondii and 36.45% between G. hirsutum acc. TM-1 and G. barbadense cv. Hai7124. Furthermore, 14 polymorphic ILP markers were detected in 264 G. hirsutum accessions. Coupled with pr... More
