Plant & Animal Genomes XIV Conference

January 14-18, 2006
Town & Country Convention Center
San Diego, CA

Overview Of Brassica Genome Structure Based On Comparative Genomics With Arabidopsis: Sequencing 629 Comparative-Tile BACs And Their Utility For Physical Mapping Of B. rapa Genome

Tae-Jin Yang¹ , Soo-Jin Kwon¹ , Jung Sun Kim¹ , Ki-Byung Lim¹ , Jin-A Kim¹ , Mina Jin¹ , Jee Young Park¹ , Beom-Soon Choi¹ , Myung-Ho Lim¹ , Ho-Il Kim¹ , Seog-Hyoung Kim¹ , Yong Pyo Lim² , Seung-Wook Lee³ , Tae-Suk Park³ , Jin-Han Hong³ , Beom-Seok Park¹

¹  Brassica Genomics Team, National Institute of Agricultural Biotechnology (NIAB), 224 Suinro Gwonseon-gu, Suwon, Gyeonggi-do, 441-707, Republic of Korea

²  Chungnam National University, Daejeon, 305-764, Republic of Korea

³  Macrogen Co. Gasan-dong, Seoul 153-023

The genus Brassica is triplicated after divergence of Arabidopsis and Brassica. Comparative genome analyses of about 200 sequenced Brassica BAC clones revealed overall co-linearity with 82% sequence similarity with their counterpart regions of Arabidopsis genome. We have obtained 91,179 BAC end sequences (BES) and high-resolution fingerprints (SNapShot) from 46,848 BAC clones originated three BAC libraries (HindIII, BamHI, and Sau3AI). All BES were used for comparative genome analysis with the Arabidopsis. A total of 45,232 (45%) BES show significant hit (E-6) on a spot of Arabidopsis chromosomes. And a total of 4,317 BAC clones (9.5%) are mapped on Arabidopsis chromosomes by directional matches of both ends (8,634 BES) within 30-500 kb interval on Arabidopsis chromosome. These 4,317 clones span 92 Mb of Arabidopsis genome. We have selected a total of 629 BACs that are on the comparative minimum tiling path (comparative-tile) of 86 Mb Arabidopsis genome. Up to now (Oct. 2005), about 250 BACs of the comparative tile are sequenced. The other BACs will be sequenced by end of 2005. Sequence-based genetic mapping of each BAC and their FPC information will be used as step-stone for walking and construction of physical map of all chromosomes. All information will be provided to multinational Brassica Genome Project (MBGP) members, soon. Collectively, combined sequence of the comparative-tile BACs will show the comparative syntenic overview of Arabidopsis and Brassica genome. All the comparative genome analysis of the BAC and BES are available from our Arabidopsis-Brassica Genome Browser (www.brassica-rapa.org).