Comprehensively Characterizing the Cytological Features of Saccharum spontaneum by the Development of a Complete Set of Chromosome-Specific Oligo Probes.
Comprehensively Characterizing the Cytological Features of Saccharum spontaneum by the Development of a Complete Set of Chromosome-Specific Oligo Probes.
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通过开发一整套染色体特异性寡核苷酸探针来全面表征自发糖的细胞学特征
DOI：
10.3389/fpls.2018.01624
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发表时间：
2018
影响因子：
5.6
通讯作者：
Wang K
中科院分区：
文献类型：
--
作者：
Meng Z;Zhang Z;Yan T;Lin Q;Wang Y;Huang W;Huang Y;Li Z;Yu Q;Wang J;Wang K
染色体特异性鉴定是研究基因组结构和进化的一项强有力的技术。然而，甘蔗(Saccharum spp.，Poaceae)基因组复杂，倍性和杂合度高，目前还没有可靠的细胞遗传学标记来明确鉴定每条染色体。在本研究中，我们通过生物信息学设计和大规模合成，开发了一套基于寡核苷酸的探针。这些探针在古老物种甘蔗(2n=8x=)的每条染色体及其8条同源染色体上都产生了清晰明亮的单一信号。因此，它们可以作为可靠的标记来有力地标记自生链霉菌的每条染色体。然后，我们获得了核型数据，并建立了基于染色体大小的命名法，对八倍体的八条染色体进行了命名。此外，我们还发现45S和5S rDNA在不同的同源染色体之间表现出高拷贝数差异，表明多倍化后高重复序列的快速进化。我们的荧光原位杂交(FISH)分析也表明，这些探针可以作为高粱和甘蔗属之间或属内的跨种标记。通过比较FISH分析，我们发现在自然发酵菌中发生了几个染色体重排事件，这可能是导致高粱的基本染色体数从10个减少到甘蔗的8个的原因之一。甘蔗个体染色体的一致鉴定使甘蔗的分子细胞遗传学研究成为可能，并将有助于甘蔗属的精细染色体结构和核型进化。
Chromosome-specific identification is a powerful technique in the study of genome structure and evolution. However, there is no reliable cytogenetic marker to unambiguously identify each of the chromosomes in sugarcane (Saccharum spp., Poaceae), which has a complex genome with a high level of ploidy and heterozygosity. In this study, we developed a set of oligonucleotide (oligo)-based probes through bioinformatic design and massive synthetization. These probes produced a clear and bright single signal in each of the chromosomes and their eight homologous chromosomes in the ancient species Saccharum spontaneum (2n = 8x = 64). Thus, they can be used as reliable markers to robustly label each of the chromosomes in S. spontaneum. We then obtained the karyotype data and established a nomenclature based on chromosomal sizes for the eight chromosomes of the octoploid S. spontaneum. In addition, we also found that the 45S and 5S rDNAs demonstrated high copy number variations among different homologous chromosomes, indicating a rapid evolution of the highly repeated sequence after polyploidization. Our fluorescence in situ hybridization (FISH) assay also demonstrated that these probes could be used as cross-species markers between or within the genera of Sorghum and Saccharum. By comparing FISH analyses, we discovered that several chromosome rearrangement events occurred in S. spontaneum, which might have contributed to the basic chromosome number reduction from 10 in sorghum to 8 in sugarcane. Consistent identification of individual chromosomes makes molecular cytogenetic study possible in sugarcane and will facilitate fine chromosomal structure and karyotype evolution of the genus Saccharum.
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DOI：
10.1073/pnas.0510791103
发表时间：
2006-03-28
影响因子：
11.1
作者：
Lysak, MA;Berr, A;Schubert, I
通讯作者：
Schubert, I
影响因子：
3.1
作者：
Piperidis, George;Piperidis, Nathalie;D'Hont, Angelique
通讯作者：
D'Hont, Angelique
影响因子：
3.1
作者：
D'Hont, A;Ison, D;Glaszmann, JC
通讯作者：
Glaszmann, JC
通过染色体绘制和 rDNA 分布模式鉴定甜瓜和非洲黄瓜物种之间的差异
影响因子：
1.7
作者：
Li, Kunpeng;Wang, Huaisong;Han, Yonghua
通讯作者：
Han, Yonghua
影响因子：
11.6
作者：
Geiser, Celine;Mandakova, Terezie;Parisod, Christian
通讯作者：
Parisod, Christian