Species-specific abundant retrotransposons elucidate the genomic composition of modern sugarcane cultivars
Species-specific abundant retrotransposons elucidate the genomic composition of modern sugarcane cultivars
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DOI：
10.1007/s00412-019-00729-1
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发表时间：
2020-03-01
期刊：
影响因子：
1.6
通讯作者：
Wang, Kai
中科院分区：
文献类型：
--
作者：
Huang, Yongji;Chen, Hong;Wang, Kai
现代甘蔗品种是高度多倍体的，是由甘蔗和甘蔗杂交而成的。spontaneum，从而导致异常复杂的基因组。复杂的基因组阻碍了对基因组结构的研究。在这里，我们采用了一种计算策略，以分离高度重复和丰富的序列，无论是在S。officinarum或S. spontaneum和分离到的4个S.自发富集的反转录转座子。荧光原位杂交（FISH）检测这些重复的DNA序列产生的全基因组绘画信号的S。spontaneum，而S.药用植物。我们证明了这些基于重复序列的探针区分亲本S。spontaneum基因组中，它与S.药用植物。对14个现代甘蔗品种的细胞学分析表明，S。割手密的片段范围为11.9 - 40.9%，大大超过了以前研究的品种（5-13%）所确定的。渐渗系S.在上述栽培品种中检测到的spontaneum片段表明亲本基因组之间的频繁重组。在这里，我们提出了应用我们的战略，以隔离物种特异性细胞学标记。这些信息可能有助于阐明复杂的植物基因组结构和追踪它们的进化历史。
Modern sugarcane cultivars are highly polyploid and derived from the hybridization of Saccharum officinarum and S. spontaneum, thus leading to singularly complex genomes. The complex genome has hindered the study of genomic structures. Here, we adopted a computational strategy to isolate highly repetitive and abundant sequences in either S. officinarum or S. spontaneum and isolated four S. spontaneum-enriched retrotransposons. Fluorescence in situ hybridization (FISH) assays with these repetitive DNA sequences generated whole-genome painting signals for S. spontaneum but not for S. officinarum. We demonstrated that these repetitive sequence-based probes distinguish the parental S. spontaneum genome in hybrids derived from crosses between it and S. officinarum. A cytological analysis of 14 modern sugarcane cultivars revealed that the percentages of chromosomes with introgressive S. spontaneum fragments ranged from 11.9 to 40.9% and substantially exceeded those determined for previously investigated cultivars (5-13%). The comparatively higher percentages of introgressive S. spontaneum fragments detected in the aforementioned cultivars indicate frequent recombination between parental genomes. Here, we present the application of our strategy to isolate species-specific cytological markers. This information may help to elucidate complex plant genomic structures and trace their evolutionary histories.