Comparative physical mapping between Oryza sativa (AA genome type) and O-punctata (BB genome type)
Comparative physical mapping between Oryza sativa (AA genome type) and O-punctata (BB genome type)
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DOI：
10.1534/genetics.106.068783
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发表时间：
2007-05-01
期刊：
影响因子：
3.3
通讯作者：
Wing, Rod A.
中科院分区：
文献类型：
--
作者：
Kim, HyeRan;San Miguel, Phillip;Wing, Rod A.
利用63942条BAC末端序列和34224个指纹图谱，构建了斑点稻AA基因组和BB基因组的物理图谱。Sativa基因组序列。通过计算BES比对的比率来确定两个物种之间每条染色体的保守水平。比对结果表明，基因间差异和废止差异较大。与基因丰富的区域相比。此外，这一特征使得这两个物种的每条染色体的异色区和正色区定位成为可能。比对确定了16个位置，包括扩张、收缩、倒置和移位。通过将40%的点状体BES在地图上比对，87%的点状体FPC地图覆盖了98%的O.唾液基因组序列。据估计，斑点稻的基因组大小比玉米大8%，个体染色体差异为1.5 ~ 16.5%。在bb0 ~ 500kb区域观察到的扩张和收缩的SLIM是相似的，这表明导致两个物种之间基因组大小差异的大多数收缩/扩张都很小，从而保持了这些物种之间的宏观共线性，它们之间的分化类似于200万年前。
A comparative physical map of the AA genome (Oryza sativa) and the BB genome (O. punctata) was constructed by aligning a physical map of O. punctata, deduced from 63,942 BAC end sequences (BESs) and 34,224 fingerprints, onto the O0. sativa genome sequence. The level of conservation of each chromosome between the two species was determined by calculating a ratio of BES alignments. The alignment result Suggests more divergence of intergenic and repeal. regions in comparison to gene-rich regions. Further, this characteristic enabled localization of heterochromatic and euchromatic regions for each chromosome of both species. The alignment identified 16 locations containing expansions, contractions, inversions, and transpositions. By aligning 40% of the punctata BES on the map, 87% of the punctata FPC Map covered 98% of the O. saliva genome sequence. The genome size of O. punctata was estimated to be 8% larger than that of O. sativa with individual chromosome differences of 1.5-16.5%. The SLIM of expansions and contractions observed in regions > 500 kb were similar, suggesting that most of the contractions/expansions contributing to the genome size difference between the two species are small, thus preserving the macro-collinearity between these species, which diverged similar to 2 million years ago.