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The 5S rRNA gene diversity in the genus Secale and determination of its closest haplomes

机译：Secale属中的5S rRNA基因多样性及其最接近单倍体的确定

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摘要

We analyzed 127 rDNA sequences (5S DNA units) obtained from 23 seed accession samples from more or less 10 taxa in wild and cultivated rye, genus Secale L. The sequences fell into two known groups, here assigned to two unit classes, viz. long R1 and short R1 (designations to reflect on R haplome of rye). The different taxa could not be fully differentiated based on the 5S DNA units. We searched for 5S DNA sequences from known unit classes most closely similar to the long R1 and the short R1. One set with the long R1 unit class contained sequences of the long P1 unit class from Agropyron (P haplome) and from Kengyilia (StYP haplome), long J1 from Thinopyrum (J haplome), whereas the set with the short R1 included the long S1 from Pseudoroegneria (St haplome) and Kengyilia (StYP haplome), the short J1 from Thinopyrum (J haplome) and the short V1 from Dasypyrum (V haplome). Each of the two sets was analyzed separately by maximum likelihood (ML) phylogenetic analysis from which we were able to infer that the 5S DNA units of Secale differentiated in a non-clock fashion and followed the HKY substitution model in the gene tree with the long R1 unit class and the HKY + G in the gene tree with the short R1 unit class. A complementary Bayesian analysis yielded identical tree topologies to the ML ones for each of the two sequence sets. In the tree with the long R1 units the long P1 and long J1 unit classes were closest to the long R1 unit class, whereas in the tree with the short R1 units the long S1 and short J1 unit classes were closest to the short R1 unit class, indicating possibly a close relationship between the St, J and R haplomes.
机译：我们分析了从23种种子样本中获得的127个rDNA序列（5S DNA单元），这些样品来自大约10种野生和栽培黑麦Secale L的分类单元。这些序列分为两个已知的组，这里分为两个单元类，即。长R1和短R1（表示黑麦R单体的名称）。无法基于5S DNA单位完全区分不同的分类单元。我们从最接近长R1和短R1的已知单位类别中搜索5S DNA序列。具有长R1单位类别的一组包含来自Agropyron（P单体型）和来自Kengyilia（StYP单体型）的长P1单元类别的序列，来自Thinopyrum（J单体型）的长J1序列，而具有短R1的集合包括长S1序列。来自假单孢菌属（St haplome）和肯吉利亚（StYP haplome），来自Thinopyrum（J haplome）的短J1和来自Dasypyrum（V haplome）的V1。两组均通过最大似然（ML）系统发育分析进行了单独分析，由此我们可以推断Secale的5S DNA单位以非时钟方式分化，并在基因树中遵循长距离的HKY替换模型R1单位类别和基因树中具有短R1单位类别的HKY +G。对于两个序列集的每一个，互补的贝叶斯分析产生与ML相同的树形拓扑。在具有长R1单元的树中，长P1和长J1单元类最接近长R1单元类，而在具有短R1单元的树中，长S1和短J1单元类最接近短R1单元类，可能表明St，J和R单倍体之间存在密切关系。

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