Abstract
Ty1/copia-like sequences were amplified from mung bean (Vigna radiata (L.) Wilczek) genomic DNA, by PCR with degenerate oligonucleotide primers corresponding to highly conserved domains in the Ty1/copia-like retrotransposons. PCR fragments of roughly 270 bp were isolated and cloned, and forty clones were sequenced. Thirty-six of the forty clones had unique nucleotide sequences, and eighteen clones had a frameshift, a stop codon, or both. Alignment of the nucleotide sequences indicated that these clones, denoted Tvr, fell into nine subgroups and nine ungrouped sequences. The nucleotide sequence similarity between these elements ranged from 8% to 100%, which indicates high level of sequence heterogeneity among these clones. A phylogenetic analysis comparing these clones with corresponding sequences from other plant species showed that some of the Tvr clones are more closely related to Ty1/ copia-like retrotransposons from other species than to other Tvr clones. Dot blot analysis revealed that Ty1/copia-like retrotransposons comprise about 9.3% of the mung bean genome.
| Original language | English |
|---|---|
| Pages (from-to) | 582-587 |
| Number of pages | 6 |
| Journal | Acta Botanica Sinica |
| Volume | 46 |
| Issue number | 5 |
| Publication status | Published - May 2004 |
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Keywords
- Copia
- DOP-PCR
- Mung bean
- Retrotransposon
- Reverse transcriptase
ASJC Scopus subject areas
- Plant Science
- Biochemistry, Genetics and Molecular Biology(all)
- Biochemistry
Cite this
Isolation and characterization of Ty1/copia-like reverse transcriptase sequences from mung bean. / Xiao, Wei Min; Sakamoto, Wataru; Sodmergen.
In: Acta Botanica Sinica, Vol. 46, No. 5, 05.2004, p. 582-587.Research output: Contribution to journal › Article
}
TY - JOUR
T1 - Isolation and characterization of Ty1/copia-like reverse transcriptase sequences from mung bean
AU - Xiao, Wei Min
AU - Sakamoto, Wataru
AU - Sodmergen,
PY - 2004/5
Y1 - 2004/5
N2 - Ty1/copia-like sequences were amplified from mung bean (Vigna radiata (L.) Wilczek) genomic DNA, by PCR with degenerate oligonucleotide primers corresponding to highly conserved domains in the Ty1/copia-like retrotransposons. PCR fragments of roughly 270 bp were isolated and cloned, and forty clones were sequenced. Thirty-six of the forty clones had unique nucleotide sequences, and eighteen clones had a frameshift, a stop codon, or both. Alignment of the nucleotide sequences indicated that these clones, denoted Tvr, fell into nine subgroups and nine ungrouped sequences. The nucleotide sequence similarity between these elements ranged from 8% to 100%, which indicates high level of sequence heterogeneity among these clones. A phylogenetic analysis comparing these clones with corresponding sequences from other plant species showed that some of the Tvr clones are more closely related to Ty1/ copia-like retrotransposons from other species than to other Tvr clones. Dot blot analysis revealed that Ty1/copia-like retrotransposons comprise about 9.3% of the mung bean genome.
AB - Ty1/copia-like sequences were amplified from mung bean (Vigna radiata (L.) Wilczek) genomic DNA, by PCR with degenerate oligonucleotide primers corresponding to highly conserved domains in the Ty1/copia-like retrotransposons. PCR fragments of roughly 270 bp were isolated and cloned, and forty clones were sequenced. Thirty-six of the forty clones had unique nucleotide sequences, and eighteen clones had a frameshift, a stop codon, or both. Alignment of the nucleotide sequences indicated that these clones, denoted Tvr, fell into nine subgroups and nine ungrouped sequences. The nucleotide sequence similarity between these elements ranged from 8% to 100%, which indicates high level of sequence heterogeneity among these clones. A phylogenetic analysis comparing these clones with corresponding sequences from other plant species showed that some of the Tvr clones are more closely related to Ty1/ copia-like retrotransposons from other species than to other Tvr clones. Dot blot analysis revealed that Ty1/copia-like retrotransposons comprise about 9.3% of the mung bean genome.
KW - Copia
KW - DOP-PCR
KW - Mung bean
KW - Retrotransposon
KW - Reverse transcriptase
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UR - http://www.scopus.com/inward/citedby.url?scp=5044240036&partnerID=8YFLogxK
M3 - Article
AN - SCOPUS:5044240036
VL - 46
SP - 582
EP - 587
JO - Journal of Integrative Plant Biology
JF - Journal of Integrative Plant Biology
SN - 1672-9072
IS - 5
ER -