J Biomed Transl Res.  2018 Mar;19(1):1-9. 10.12729/jbtr.2018.19.001.

Structural analyses of putative porcine cluster of differentiation (CD) 24 gene

• Ko H
• Chai HH
• Jang GW
• Park JE
• Kim JM
• Lee KT

• KMID: 2436120
• DOI: http://doi.org/10.12729/jbtr.2018.19.001

Abstract

Cluster of differentiation (CD) 24 or heat stable antigen 24 (HSA) molecule is a mucin-type glycoprotein attached to the cell surface by glycosylphosphatidylinositol (GPI)-anchor, promoting adhesive interactions between cells or in extracellular matrix. The aim of this study was to determine the not yet fully identified porcine CD24 gene and protein structure using computational analysis and to validate variants reported in exons of CD24 gene using direct sequencing. A total of 59 samples belonging to Yorkshire, Landrace, Berkshire, Jeju black pig and wild boar were used in the study. Human CD24 mRNA sequences were used as a reference and subjected to BLAST searches to retrieve the orthologous expressed sequence tags (ESTs) or cDNA sequences against NCBI and Ensemble databases. Assembled ESTs and retrieved cDNA sequences for the porcine CD24 gene were used for specific BLAST search to determine its genomic structure. We found porcine CD24 gene to consist of two exons and a relatively long intron. Second exon of porcine CD24 gene had a long 3' untranslated region (UTR) and was very similar to that of human, mouse, rat, and sheep. The sequence homology of porcine CD24 protein was 65.38-84.62%, when analyzed with amino acid sequences of rat, mouse, human, cattle, and sheep CD24 protein. N-terminal signal sequence, O-glycosylation sites and GPI-anchoring signal sites were also predicted in pig, which showed these motifs to be evolutionary conserved across the species. Variant analysis in exonic regions of porcine CD24 among the multiple breeds showed that only second exon contained eight SNPs and three insertions in a 3' UTR. Taken together, this study reports putative porcine CD24 gene and its protein structure using in silico approaches, which will be helpful for any further functional studies.

Keyword

CD24; gene structure; glycosylphosphatidylinositol (GPI)-anchored glycoprotein; pig

MeSH Terms

3' Untranslated Regions
Adhesives
Amino Acid Sequence
Animals
Cattle
Computer Simulation
DNA, Complementary
Exons
Expressed Sequence Tags
Extracellular Matrix
Glycoproteins
Glycosylphosphatidylinositols
Hot Temperature
Humans
Introns
Mice
Polymorphism, Single Nucleotide
Protein Sorting Signals
Rats
RNA, Messenger
Sequence Homology
Sheep
Sus scrofa
3' Untranslated Regions
Adhesives
DNA, Complementary
Glycoproteins
Glycosylphosphatidylinositols
Protein Sorting Signals
RNA, Messenger