Department of Genetics, Development, and Cell Biology, Iowa State University, Ames, IA 50011, USA.
Mol Ecol. 2010 Apr;19(7):1296-311. doi: 10.1111/j.1365-294X.2010.04562.x. Epub 2010 Feb 24.
Modern maize was domesticated from Zea mays parviglumis, a teosinte, about 9000 years ago in Mexico. Genes thought to have been selected upon during the domestication of crops are commonly known as domestication loci. The ramosa1 (ra1) gene encodes a putative transcription factor that controls branching architecture in the maize tassel and ear. Previous work demonstrated reduced nucleotide diversity in a segment of the ra1 gene in a survey of modern maize inbreds, indicating that positive selection occurred at some point in time since maize diverged from its common ancestor with the sister species Tripsacum dactyloides and prompting the hypothesis that ra1 may be a domestication gene. To investigate this hypothesis, we examined ear phenotypes resulting from minor changes in ra1 activity and sampled nucleotide diversity of ra1 across the phylogenetic spectrum between tripsacum and maize, including a broad panel of teosintes and unimproved maize landraces. Weak mutant alleles of ra1 showed subtle effects in the ear, including crooked rows of kernels due to the occasional formation of extra spikelets, correlating a plausible, selected trait with subtle variations in gene activity. Nucleotide diversity was significantly reduced for maize landraces but not for teosintes, and statistical tests implied directional selection on ra1 consistent with the hypothesis that ra1 is a domestication locus. In maize landraces, a noncoding 3'-segment contained almost no genetic diversity and 5'-flanking diversity was greatly reduced, suggesting that a regulatory element may have been a target of selection.
现代玉米是由墨西哥约 9000 年前的一种类蜀黍——小果野玉米驯化而来的。在作物驯化过程中被认为被选择的基因通常被称为驯化基因座。分支 1(ra1)基因编码一个假定的转录因子,它控制玉米雄穗和穗轴的分支结构。以前的研究表明,在对现代玉米自交系的调查中,ra1 基因的一个片段的核苷酸多样性减少,这表明自玉米与其姐妹种大刍草分化以来,某个时间点发生了正选择,并促使假设 ra1 可能是一个驯化基因。为了验证这一假说,我们研究了 ra1 活性微小变化导致的穗部表型,并在大刍草和玉米之间的系统发育范围内,包括广泛的类蜀黍和未经改良的玉米地方品种,对 ra1 的核苷酸多样性进行了采样。ra1 的弱突变等位基因在穗上表现出细微的影响,包括由于偶尔形成额外的小穗,导致穗轴上的穗行数弯曲,这与基因活性的细微变化相关联,这是一个合理的、被选择的特征。玉米地方品种的核苷酸多样性显著降低,但类蜀黍的核苷酸多样性没有降低,统计检验表明 ra1 存在定向选择,与 ra1 是驯化基因座的假说一致。在玉米地方品种中,非编码的 3'片段几乎没有遗传多样性,5'侧翼多样性大大降低,这表明一个调节元件可能是选择的目标。