Comparative sequence analysis of the region harboring the hardness locus in barley and its colinear region in rice
Comparative sequence analysis of the region harboring the hardness locus in barley and its colinear region in rice
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DOI：
10.1104/pp.104.044081
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发表时间：
2004-10-01
期刊：
影响因子：
7.4
通讯作者：
Powell, W
中科院分区：
文献类型：
--
作者：
Caldwell, KS;Langridge, P;Powell, W
祖先共享同步性的概念一直被认为是从复杂基因组中定位克隆基因的一种方法。然而，统一的禾本科植物基因组模型和将禾本科植物作为单一的共线基因组进行研究是一个相当有争议的话题。因此，需要在序列水平上对谷物共线性进行更多的定量研究。本研究比较了大麦基因组300kb的邻接序列和水稻基因组的共线性区域。大麦序列含有与胚乳质地有关的基因，胚乳质地可能是独特进化力量的主题，位于5H染色体短臂的末端。比较序列分析揭示了5个同源基因的存在和复杂的物种后进化历史，包括小的染色体重排、易位、大量的基因重复和广泛的转座子插入。基因含量和微共线性的差异表明，在使用大米作为基于图谱的大麦等大基因组谷物基因克隆的替代品时应谨慎行事。
The ancestral shared synteny concept has been advocated as an approach to positionally clone genes from complex genomes. However, the unified grass genome model and the study of grasses as a single syntenic genome is a topic of considerable controversy. Hence, more quantitative studies of cereal colinearity at the sequence level are required. This study compared a contiguous 300-kb sequence of the barley (Hordeum vulgare) genome with the colinear region in rice (Oryza sativa). The barley sequence harbors genes involved in endosperm texture, which may be the subject of distinctive evolutionary forces and is located at the extreme telomeric end of the short arm of chromosome 5H. Comparative sequence analysis revealed the presence of five orthologous genes and a complex, postspeciation evolutionary history involving small chromosomal rearrangements, a translocation, numerous gene duplications, and extensive transposon insertion. Discrepancies in gene content and microcolinearity indicate that caution should be exercised in the use of rice as a surrogate for map-based cloning of genes from large genome cereals such as barley.