Nested retrotransposons on the W chromosome of the wild silkworm Bombyx mandarina

The W chromosome of the silkworms Bombyx mori or B. mandarina is recombinationally isolated from the Z chromosome and the autosomes. We previously characterized a female‐specific randomly amplified polymorphic DNA (RAPD), designated W‐Yamato, derived from the W chromosome of the wild silkworm Bombyx mandarina. To further analyse the W chromosome of B. mandarina, we obtained a lambda phage clone that contains the W‐Yamato RAPD sequence and sequenced the 16.7 kb DNA insert. We found that this DNA comprises a nested structure of at least seven elements: six retrotransposons and one transposable element‐like sequence. The transposable element‐like sequence is inserted into a micropia‐like retrotransposon (Karate). The Karate and the non‐long terminal repeat (non‐LTR) retrotransposon BMC1 are inserted into a 412‐like retrotransposon (Judo). Furthermore, this Judo, and two non‐LTR retrotransposons (Kurosawa and Kendo) are inserted into a Pao‐like retrotransposon (Yamato). These results indicate that the retrotransposons inserted into the W chromosome are not efficiently removed but accumulate gradually as strata without recombination.

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