New insights into the novel sequences of the chicken pan-genome by liquid chip.

ABSTRACT: Increasing evidence indicates that the missing sequences and genes in the chicken reference genome are involved in many crucial biological pathways, including metabolism and immunity. The low detection rate of novel sequences by resequencing hindered the acquisition of these sequences and the exploration of the relationship between new genes and economic traits. To improve the capture ratio of novel sequences, a 48K liquid chip including 25K from the reference sequence and 23K from the novel sequence was designed. The assay was tested on a panel of 218 animals from 5 chicken breeds. The average capture ratio of the reference sequence was 99.55%, and the average sequencing depth of the target sites was approximately 187X, indicating a good performance and successful application of liquid ch

SUBMITTER: Wang F 

PROVIDER: S-EPMC9733507 | biostudies-literature | 2022 Dec

REPOSITORIES: biostudies-literature