Open Access Research article

Comparative analysis of pepper and tomato reveals euchromatin expansion of pepper genome caused by differential accumulation of Ty3/Gypsy-like elements

Minkyu Park12, SungHwan Jo34, Jin-Kyung Kwon25, Jongsun Park1678, Jong Hwa Ahn25, Seungill Kim12, Yong-Hwan Lee678, Tae-Jin Yang25, Cheol-Goo Hur4, Byoung-Cheorl Kang25, Byung-Dong Kim25 and Doil Choi25*

  • * Corresponding author: Doil Choi doil@snu.ac.kr

  • † Equal contributors

Author Affiliations

1 Interdisciplinary Program in Agriculture Biotechnology, Seoul National University, Seoul 151-921, Korea

2 Plant Genomics and Breeding Institute, Seoul National University, Seoul 151-921, Korea

3 Seeders Inc., Daejeon, Korea

4 Bioinformatics Research Center, KRIBB, Daejeon, 305-806, Korea

5 Department of Plant Science, Seoul National University, Seoul, 151-921, Korea

6 Fungal Bioinformatics Laboratory, Seoul National University, Seoul 151-921, Korea

7 Center for Fungal Pathogenesis, Seoul National University, Seoul 151-921, Korea

8 Department of Agricultural Biotechnology, Seoul National University, Seoul 151-921, Korea

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BMC Genomics 2011, 12:85  doi:10.1186/1471-2164-12-85

Published: 29 January 2011

Additional files

Additional file 1:

The compared BAC sequence sizes and GenBank accession numbers.

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Additional file 2:

Information about predicted genes of the compared sequences.

Format: XLS Size: 456KB Download file

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Additional file 3:

Information about duplicated genes.

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Additional file 4:

Sequence information of the 72 intact Ty3/Gypsy-like elements.

Format: TXT Size: 735KB Download file

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Additional file 5:

List of chromodomains isolated from intact pepper and tomato LTR retrotransposons.

Format: TXT Size: 4KB Download file

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Additional file 6:

Information about predicted genes in the 17 tomato BAC sequences containing Tat and Athila elements.

Format: XLS Size: 73KB Download file

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Additional file 7:

Alignment of reverse transcriptases of Ty3/Gypsy-like elements.

Format: TXT Size: 75KB Download file

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Additional file 8:

Alignment of reverse transcriptases isolated from intact pepper and tomato LTR retrotransposons.

Format: TXT Size: 11KB Download file

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Additional file 9:

Alignment of reverse transcriptases of Ty1/Copia-like elements.

Format: TXT Size: 44KB Download file

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Additional file 10:

List of PCR primers used to produce the FISH probes.

Format: XLS Size: 27KB Download file

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