Cloning and characterization of a mariner-like element in the silkworm, Bombyx mori.

Tomita, Shuichiro; Sohn, Bong Hee; Tamura, Toshiki

doi:10.1266/ggs.72.219

Cited by 21 publications

(31 citation statements)

References 24 publications

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“…Although Tomita et al (1997) reported higher levels of genetic variation in Chinese strain classes (compared to the others) by examining the abundance of mariner-like elements mediated by PCR-amplification, our approach did not result in clear differences among the four classes. This discrepancy likely arose from the relatively small number of variable sites in the present study.…”

Section: Segregation Sites In the Coi Coding Regionmentioning

confidence: 63%

“…The DNA samples used in this study were similar to those in Tomita et al (1997), except we excluded the tropical strains because of the small number of strains kept in NIAS. We analyzed 48 Japanese, 50 Chinese, 28 European, and 21 moltinism strains.…”

Section: Genomic Dna Samples Of Native Silkworm Strainsmentioning

confidence: 99%

“…The list of strains used in this study is presented in Table 1. The purification method of genomic DNAs was described in Tomita et al (1997).…”

Section: Genomic Dna Samples Of Native Silkworm Strainsmentioning

confidence: 99%

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Nucleotide sequence variation in mitochondrial COI gene among 147 silkworm (Bombyx mori) strains from Japanese, Chinese, European and moltinism classes

et al. 2011

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We characterized the nucleotide sequences of PCR-amplified mitochondrial COI fragments of 147 silkworm (Bombyx mori) strains that have been maintained in the National Institute of Agrobiological Sciences. Coding sequences (714 bp) of the 147 COI fragments were classified into eight haplotypes based on nucleotide differences at eight segregating sites. No length variation was identified in this region. The 5'-noncoding region showed different features, wherein changes in the number of Ts in the T-stretch, together with two base substitutions, were observed. As a result, the 147 COI noncoding sequences were classified into six haplotypes. Combining the coding and noncoding regions, we identified 14 haplotypes. One of the 14 haplotypes, Hap1A was exclusively abundant in the Japanese native strain class, while this haplotype was less frequent in the other three native strain classes. This finding suggests that the Japanese strain class underwent significant genetic differentiation from the Chinese, European, and moltinism classes, when the each class is regarded as a population. Comparison of the nucleotide sequences to those of B. mandarina (which inhabits Japan) revealed changes that are significantly larger than those within either B. mori or B. mandarina. Furthermore, we detected no common haplotypes between them, which suggests the concept of suppressed gene flow between the two species.

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Section: Segregation Sites In the Coi Coding Regionmentioning

confidence: 63%

Section: Genomic Dna Samples Of Native Silkworm Strainsmentioning

confidence: 99%

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Nucleotide sequence variation in mitochondrial COI gene among 147 silkworm (Bombyx mori) strains from Japanese, Chinese, European and moltinism classes

et al. 2011

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“…The non-LTR retrotransposons BMC1 (L1Bm) (Ogura et al, 1994;Ichimura et al, 1997;Abe et al, 1998b), the mariner-like DNA-type transposon (Robertson and Asplund, 1996;Tomita et al, 1997;Robertson and Walden, 2003), and the retroposon Bm1 (Adams et al, 1986) are dispersed in this 320-kb region on the Z chromosome. However, the most striking difference compared to the W chromosome is that LTR retrotransposons are not found in this 320-kb region.…”

Section: The Retrotransposable Elements Of the W-specific Bac Clonesmentioning

confidence: 99%

Retrotransposable elements on the W chromosome of the silkworm, Bombyx mori

Abe

Mita²,

Yasukochi³

et al. 2005

Cytogenet Genome Res

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The sex chromosomes of the silkworm, Bombyxmori, are designated ZW(XY) for females and ZZ(XX) for males. The W chromosome of B. mori does not recombine with the Z chromosome and autosomes and no genes for morphological characters have been mapped to the W chromosome as yet. Furthermore, femaleness is determined by the presence of a single W chromosome, regardless of the number of autosomes or Z chromosomes. To understand these interesting features of the W chromosome, it is necessary to analyze the W chromosome at the molecular biology level. Initially to isolate DNA sequences specific for the W chromosome as randomly amplified polymorphic DNA (RAPD) markers, we compared the genomic DNAs between males and females by PCR with arbitrary 10-mer primers. To the present, we have identified 12 W-specific RAPD markers, and with the exception of one RAPD marker, all of the deduced amino acid sequences of these W-specific RAPD markers show similarity to previously reported amino acid sequences of retrotransposable elements from various organisms. After constructing a genomic DNA lambda phage library of B. mori we obtained two lambda phage clones, one containing the W-Kabuki RAPD sequence and one containing the W-Samurai RAPD sequence and found that these DNA sequences comprised nested structures of many retrotransposable elements. To further analyze the W chromosome, we obtained 14 W-specific bacterial artificial chromosome (BAC) clones from three BAC libraries and subjected these clones to shotgun sequencing. The resulting assembly of sequences did not produce a single contiguous sequence due to the presence of many retrotransposable elements. Therefore, we coupled PCR with shotgun sequencing. Through these analyses, we found that many long terminal repeat (LTR) and non-LTR retrotransposons, retroposons, DNA transposons and their derivatives, have accumulated on the W chromosome as strata. These results strongly indicate that retrotransposable elements are the main structural component of the W chromosome.

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“…These DNA samples were originally used in Tomita et al (1997). We analyzed 48 Japanese, 49 Chinese, 28 European, and 21 molting strains.…”

Section: Methodsmentioning

confidence: 99%

Little gene flow between domestic silkmoth Bombyx mori and its wild relative Bombyx mandarina in Japan, and possible artificial selection on the CAD gene of B. mori

et al. 2012

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We analyzed PCR-amplified carbamoyl-phosphate synthetase 2, aspartate transcarbamylase, and dihydroorotase (CAD) gene fragments from 146 Bombyx mori native strains and found extremely low levels of DNA polymorphism. Two haplotypes were identified, one of which was predominant. CAD haplotype analysis of 42 samples of Japanese B. mandarina revealed four haplotypes. No common haplotype was shared between the two species and at least five base substitutions were detected. This result was suggestive of low levels of gene flow between the two species. The nucleotide diversity (π) scores of the two samples differed markedly: lower π values were estimated for B. mori native strains than Japanese B. mandarina. We further analyzed 12 Chinese B. mandarina derived from seven areas of China, including Taiwan. The results clearly indicated that the π score was ~80-fold greater in Chinese B. mandarina than in B. mori. The extremely low level of DNA polymorphism in B. mori compared to its wild relatives suggested that the CAD gene itself or its tightly linked regions are possible targets for silkworm domestication.

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Cloning and characterization of a mariner-like element in the silkworm, Bombyx mori.

Cited by 21 publications

References 24 publications

Nucleotide sequence variation in mitochondrial COI gene among 147 silkworm (Bombyx mori) strains from Japanese, Chinese, European and moltinism classes

Nucleotide sequence variation in mitochondrial COI gene among 147 silkworm (Bombyx mori) strains from Japanese, Chinese, European and moltinism classes

Retrotransposable elements on the W chromosome of the silkworm, <i>Bombyx mori</i>

Little gene flow between domestic silkmoth <i>Bombyx mori</i> and its wild relative <i>Bombyx mandarina</i> in Japan, and possible artificial selection on the <i>CAD</i> gene of <i>B. mori</i>

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