Estimating genome conservation between crop and model legume species
Estimating genome conservation between crop and model legume species
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DOI：
10.1073/pnas.0402251101
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发表时间：
2004-10-26
影响因子：
11.1
通讯作者：
Cook, DR
中科院分区：
文献类型：
--
作者：
Choi, HK;Mun, JH;Cook, DR
豆科植物既是作物植物中最大的家族之一，也是生物氮循环的基石。我们结合分子和系统发育分析来评估作物豆科植物两个主要分支内部以及之间的基因组保守性。直系同源基因的遗传图谱确定了基因组宏观结构的广泛保守性，特别是在山羊豆族豆科植物中，同时也突出了推断的染色体重排，这些重排可能是这些物种之间染色体数目变异的基础。作为比较遗传图谱的补充，我们将模式豆科植物蒺藜苜蓿的测序区域与二倍体百脉根和多倍体大豆的测序区域进行了比较。在蒺藜苜蓿和百脉根的基因组之间观察到高度保守性，而在蒺藜苜蓿和大豆之间则明显保守性较低。在所有情况下，保守的基因组微观结构都被显著的结构差异所打断，包括单个基因或基因群的频繁插入/缺失以及基因家族的谱系特异性扩张/收缩。这些结果表明，比较图谱对于豆科植物的基础和应用研究可能具有相当大的实用性，尽管其预测价值可能会因系统发育距离和基因组重复而受到影响。
Legumes are simultaneously one of the largest families of crop plants and a cornerstone in the biological nitrogen cycle. We combined molecular and phylogenetic analyses to evaluate genome conservation both within and between the two major clades of crop legumes. Genetic mapping of orthologous genes identifies broad conservation of genome macrostructure, especially within the galegoid legumes, while also highlighting inferred chromosomal rearrangements that may underlie the variation in chromosome number between these species. As a complement to comparative genetic mapping, we compared sequenced regions of the model legume Medicago truncatula with those of the diploid Lotus japonicus and the polyploid Glycine max. High conservation was observed between the genomes of M. truncatula and L. japonicus, whereas lower levels of conservation were evident between M. truncatula and G. max. In all cases, conserved genome microstructure was punctuated by significant structural divergence, including frequent insertion/deletion of individual genes or groups of genes and lineage-specific expansion/contraction of gene families. These results suggest that comparative mapping may have considerable utility for basic and applied research in the legumes, although its predictive value is likely to be tempered by phylogenetic distance and genome duplication.