title: A novel splice variant of the decapentaplegic (dpp) gene in the wild silkworm, Bombyx mandarina.
abstract: Decapentaplegic (dpp) is a member of the transforming growth factor-β superfamily. Although the dpp gene and related pathways are known to play important roles in insect development, few studies have examined its function in Bombyx mori and Bombyx mandarina. To date, there have been no previous reports on novel splice variants of dpp in silkworm. In the present study, we conducted RT-PCR to examine dpp expression in the mid-gut tissue of B. mandarina and discovered a novel dpp isoform. The isoform sequence was confirmed using sequencing analysis and found to have 333 bp deletion compared to full-length cDNA encoding dpp. The deleted sequence encodes a region of the latency associated peptide (LAP) region of transforming growth factor-β (TGF-β), which may affect the activity and specificity of TGF-β. Using variant calling analyses, we detected 7 candidate single nucleotide variants (SNVs) for different alternative splicing in dpp. This is the first report of a novel splice variant of the dpp gene in B. mandarina and these results provide insight about the domestication process and distinct phenotypic traits of B. mori and B. mandarina.
authors.affiliation: Interdisciplinary Program in Bioinformatics, Seoul National University, Seoul, Republic of Korea; C & K Genomics, Seoul, Republic of Korea.
authors.forename: Woori
authors.initials: W
authors.lastname: Kwak
authors.affiliation: Department of Biotechnology, Catholic University of Daegu, Daegu 712-702, Republic of Korea.
authors.forename: Jung-Won
authors.initials: JW
authors.lastname: Choi
authors.affiliation: Sericultural and Apicultural Materials Division, National Academy of Agricultural Science, RDA, Wanju, Republic of Korea.
authors.forename: Seong
authors.initials: S
authors.lastname: Ryul Kim
authors.affiliation: Sericultural and Apicultural Materials Division, National Academy of Agricultural Science, RDA, Wanju, Republic of Korea.
authors.forename: Kwang-Ho
authors.initials: KH
authors.lastname: Choi
authors.affiliation: Sericultural and Apicultural Materials Division, National Academy of Agricultural Science, RDA, Wanju, Republic of Korea.
authors.forename: Kee-Young
authors.initials: KY
authors.lastname: Kim
authors.affiliation: Department of Biochemistry, Dongguk University College of Medicine, Gyeongju, Republic of Korea.
authors.forename: Tae-Won
authors.initials: TW
authors.lastname: Goo
authors.affiliation: Department of Biotechnology, Catholic University of Daegu, Daegu 712-702, Republic of Korea. Electronic address: microsw@cu.ac.kr.
authors.forename: Seung-Won
authors.initials: SW
authors.lastname: Park
mesh_terms: D017398:Alternative Splicing; D000595:Amino Acid Sequence; D000818:Animals; D001483:Base Sequence; D012831:Bombyx / Q000378:metabolism*; D018076:DNA, Complementary / Q000378:metabolism; D017353:Gene Deletion; D020869:Gene Expression Profiling; D005786:Gene Expression Regulation; D019476:Insect Proteins / Q000378:metabolism*; D008969:Molecular Sequence Data; D010455:Peptides / Q000378:metabolism; D010641:Phenotype; D020033:Protein Isoforms / Q000378:metabolism; D013045:Species Specificity; D016212:Transforming Growth Factor beta / Q000378:metabolism*
chemical_list: D018076:DNA, Complementary; D019476:Insect Proteins; D010455:Peptides; D020033:Protein Isoforms; D016212:Transforming Growth Factor beta
keywords: Bombyx mandarina; Decapentaplegic (dpp); Single nucleotide variants; Splice variant