Exceptional subgenome stability and functional divergence in the allotetraploid Ethiopian cereal teff.,Nature Communications

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Exceptional subgenome stability and functional divergence in the allotetraploid Ethiopian cereal teff.
Nature Communications ( IF 14.7 ) Pub Date : 2020-02-14 , DOI: 10.1038/s41467-020-14724-z
Robert VanBuren _{1,

2} , Ching Man Wai _{1,

2} , Xuewen Wang ₃ , Jeremy Pardo _{1,

2,

4} , Alan E Yocca _{1,

4} , Hao Wang ₃ , Srinivasa R Chaluvadi ₃ , Guomin Han ₃ , Douglas Bryant ₅ , Patrick P Edger ₁ , Joachim Messing ₆ , Mark E Sorrells ₇ , Todd C Mockler ₅ , Jeffrey L Bennetzen ₃ , Todd P Michael ₈

Affiliation

Teff (Eragrostis tef) is a cornerstone of food security in the Horn of Africa, where it is prized for stress resilience, grain nutrition, and market value. Here, we report a chromosome-scale assembly of allotetraploid teff (variety Dabbi) and patterns of subgenome dynamics. The teff genome contains two complete sets of homoeologous chromosomes, with most genes maintaining as syntenic gene pairs. TE analysis allows us to estimate that the teff polyploidy event occurred ~1.1 million years ago (mya) and that the two subgenomes diverged ~5.0 mya. Despite this divergence, we detect no large-scale structural rearrangements, homoeologous exchanges, or biased gene loss, in contrast to many other allopolyploids. The two teff subgenomes have partitioned their ancestral functions based on divergent expression across a diverse expression atlas. Together, these genomic resources will be useful for accelerating breeding of this underutilized grain crop and for fundamental insights into polyploid genome evolution.

中文翻译：

异源四倍体埃塞俄比亚谷物画眉草具有出色的亚基因组稳定性和功能差异。

画眉草 (Eragrostis tef) 是非洲之角粮食安全的基石，因其抗压能力、谷物营养和市场价值而备受推崇。在这里，我们报告了异源四倍体画眉草（品种 Dabbi）的染色体规模组装和亚基因组动力学模式。画眉草基因组包含两组完整的同源染色体，大多数基因保持为同线基因对。 TE 分析使我们能够估计画眉草多倍体事件发生在约 110 万年前 (mya)，并且两个亚基因组分歧约 5.0 mya。尽管存在这种差异，但与许多其他异源多倍体相比，我们没有检测到大规模的结构重排、同源交换或有偏差的基因丢失。画眉草的两个亚基因组根据不同表达图谱中的不同表达来划分其祖先功能。总之，这些基因组资源将有助于加速这种未充分利用的粮食作物的育种，并为了解多倍体基因组进化提供基础见解。

更新日期：2020-02-14

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