Legume anchor markers link syntenic regions between Phaseolus vulgaris, Lotus japonicus, Medicago truncatula and Arachis
Legume anchor markers link syntenic regions between Phaseolus vulgaris, Lotus japonicus, Medicago truncatula and Arachis
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DOI：
10.1534/genetics.108.090084
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发表时间：
2008-08-01
期刊：
影响因子：
3.3
通讯作者：
Stougaard, Jens
中科院分区：
文献类型：
--
作者：
Hougaard, Birgit Kristine;Madsen, Lene Heegaard;Stougaard, Jens
我们先前已经描述了一个生物信息学管道识别比较锚标记序列（CATS）基因座，结合跨内含子引物的设计。确定同源基因连锁位置的衍生锚标记对于评估相关物种之间的基因组保守性和促进物种之间遗传和基因组信息的转移是必不可少的。在这里，我们验证了这种全球性的方法，在菜豆和AA基因组互补的异源四倍体花生。我们提出了类似的50%的生物信息学定义的引物到豆类锚标记在豆类和二倍体花生物种的成功转换。一百零四个代表单拷贝基因的新位点被添加到现有的豆类图谱中。这些新的豆类锚定标记位点，使通过相应的基因遗传连锁图谱的对齐，并提供了一个估计的程度的共线性和共线性。在菜豆的11条染色体中，有8条染色体上发现了莲与菜豆之间广泛的宏同线性，菜豆与苜蓿之间也发现了大块的宏同线性。这表明，锚标记可以促进更好地了解基因和遗传学的重要性状的作物，在很大程度上未表征的基因组使用遗传和基因组信息相关的模式植物。
We have previously described a bioinformatics pipeline identifying comparative anchor-tagged sequence (CATS) loci, combined with design of intron-spanning primers. The derived anchor markers defining the linkage position of homologous genes are essential for evaluating genome conservation among related species and facilitate transfer of genetic and genome information between species. Here we validate this global approach in the common bean and in the AA genome complement of the allotetraploid peanut. We present the successful conversion of similar to 50% of the bioinformatics-defined primers into legume anchor markers in bean and diploid Arachis species. One hundred and four new loci representing single-copy genes were added to the existing bean map. These new legume anchor-marker loci enabled the alignment of genetic linkage maps through corresponding genes and provided an estimate of the extent of synteny and collinearity. Extensive macrosynteny between Lotus and bean was uncovered on 8 of the 11 bean chromosomes and large blocks of macrosynteny were also found between bean and Medicago. This suggests that anchor markers can facilitate a better understanding of the genes and genetics of important traits in crops with largely uncharacterized genomes using genetic and genome information from related model plants.