Structure and polymorphism of the Chironomus thummi gene encoding special lobe-specific silk protein, ssp160

cDNA encoding Chironomus thummi ssp160 was used to isolate a genomic clone that hybridized in situ to band A2b on polytene chromosome IV, the site of the ssp160 gene. DNA sequencing, primer extension and gene/cDNA nucleotide sequence alignment revealed the gene contains six exons and five introns; 7...

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Bibliographic Details
Published in:Gene 1998-11, Vol.223 (1-2), p.347-354
Main Authors: Berezikov, Eugene, Blinov, Alexander G, Scherbik, Svetlana, Cox, Carol K, Case, Steven T
Format: Article
Language:English
Subjects:
alleles
Amino Acid Sequence
amino acid sequences
animal proteins
Animals
Base Sequence
Chironomidae
Chironomidae - genetics
Chironomidae - growth & development
Chironomus riparius
Chironomus thummi
Cloning, Molecular
codons
complementary DNA
deletions
Evolution, Molecular
Exons
genbank/af036895
geographical variation
Glycoproteins - genetics
In-situ hybridization
Insect Proteins
Introns
Larva
Molecular Sequence Data
multigene family
nucleic acid hybridization
Nucleotide sequence variants
nucleotide sequences
Polymorphism, Genetic
Polymorphism, Restriction Fragment Length
polytene chromosomes
population
promoter regions
Repeated glycosylation motifs
Repetitive Sequences, Nucleic Acid
Restriction fragment length polymorphism
salivary glands
Salivary Proteins and Peptides - genetics
Sequence Alignment
Sequence Analysis, DNA
Silk
structural genes
Transcription start point
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Description
Summary:cDNA encoding Chironomus thummi ssp160 was used to isolate a genomic clone that hybridized in situ to band A2b on polytene chromosome IV, the site of the ssp160 gene. DNA sequencing, primer extension and gene/cDNA nucleotide sequence alignment revealed the gene contains six exons and five introns; 70% of ssp160 is encoded in exon 3. Variations between cDNA and gene sequences led to the design of a polymerase chain reaction, restriction fragment length polymorphism assay that was subsequently used to demonstrate the existence of polymorphic alleles whose distribution varied between geographically separated populations of larvae. The polymorphism is associated with codon deletions in a six-amino-acid repeat containing an N-linked glycosylation motif. These deletions may have resulted from slipped-strand mispairing during DNA replication.
ISSN:0378-1119
1879-0038
DOI:10.1016/S0378-1119(98)00165-6