Localization and characterization of Citrus centromeres by combining half-tetrad analysis and CenH3-associated sequence profiling
Localization and characterization of Citrus centromeres by combining half-tetrad analysis and CenH3-associated sequence profiling
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通过结合半四分体分析和 CenH3 相关序列分析来定位和表征柑橘着丝粒
DOI：
10.1007/s00299-020-02587-z
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发表时间：
2020-09
影响因子：
6.2
通讯作者：
Wen-Wu Guo
中科院分区：
文献类型：
--
作者：
Qiang-Ming Xia;Lu-Ke Miao;Kai-Dong Xie;Zhao-Ping Yin;Xiao-Meng Wu;Chun-Li Chen;Jude W. Grosser;Wen-Wu Guo
通过遗传学和免疫学相结合的方法首次揭示了柑桔着丝粒的物理位置，并挖掘出9个柑桔着丝粒特异的细胞遗传学标记。着丝粒定位是具有挑战性的，因为着丝粒区域中的高度冗余重复序列使得序列组装困难。虽然一些柑橘基因组已被释放，着丝粒区域及其特征仍有待阐明。在这里，我们映射柑橘着丝粒通过半四分体分析（HTA），其中包括基因分型的54个四倍体杂种来自2n megagametophytes的Nadorcott tangor与212个单核苷酸多态性（SNP）标记。着丝粒区域的大小，估计的基础上的杂合性恢复率模式沿着染色体，从1.12至18.19 Mb。我们还通过染色质免疫沉淀测序（ChIP-seq）分析了与着丝粒特异性组蛋白变体CenH 3的结合序列。基于前十个CenH 3富集重叠群的位置，估计着丝粒区域的大小在0.01至7.60 Mb的范围内，并且与HTA鉴定的着丝粒区域相邻或包括在其中。我们使用的DNA探针从两个重复选择的着丝粒区域和七个CenH 3结合的着丝粒重复，以验证着丝粒位置的荧光原位杂交（FISH）。柑橘着丝粒定位有助于挖掘着丝粒/近着丝粒标记，从而有助于快速鉴定2n配子形成机制，为多倍体育种服务。
The physical locations of citrus centromere are revealed by combining genetic and immunological assays for the first time and nine citrus centromere-specific markers for cytogenetics are mined. Centromere localization is challenging, because highly redundant repetitive sequences in centromeric regions make sequence assembly difficult. Although several citrus genomes have been released, the centromeric regions and their characteristics remain to be elucidated. Here, we mapped citrus centromeres through half-tetrad analysis (HTA) that included the genotyping of 54 tetraploid hybrids derived from 2n megagametophytes of Nadorcott tangor with 212 single nucleotide polymorphism (SNP) markers. The sizes of centromeric regions, which estimated based on the heterozygosity restitution rate pattern along the chromosomes, ranged from 1.12 to 18.19 Mb. We also profiled the binding sequences with the centromere-specific histone variant CenH3 by chromatin immunoprecipitation sequencing (ChIP-seq). Based on the positions of the top ten CenH3-enriched contigs, the sizes of centromeric regions were estimated to range from 0.01 to 7.60 Mb and were either adjacent to or included in the centromeric regions identified by HTA. We used DNA probes from two repeats selected from the centromeric regions and seven CenH3-binding centromeric repeats to verify centromeric locations by fluorescence in situ hybridization (FISH). Centromere localization in citrus will contribute to the mining of centromeric/pericentromeric markers, thus to facilitate the rapid identification of mechanisms underlying 2n gamete formation and serve the polyploidy breeding.
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影响因子：
4.4
作者：
Huang S;Deng L;Guan M;Li J;Lu K;Wang H;Fu D;Mason AS;Liu S;Hua W
通讯作者：
Hua W
影响因子：
48
作者：
Langmead, Ben;Salzberg, Steven L.
通讯作者：
Salzberg, Steven L.
影响因子：
1.6
作者：
Plohl M;Meštrović N;Mravinac B
通讯作者：
Mravinac B
使用“财富” X“ Murcott”（柑橘网）种群来识别控制香气挥发物的QTL。
影响因子：
4.4
作者：
Yu Y;Bai J;Chen C;Plotto A;Yu Q;Baldwin EA;Gmitter FG Jr
通讯作者：
Gmitter FG Jr
影响因子：
5.8
作者：
Novak, Petr;Neumann, Pavel;Macas, Jiri
通讯作者：
Macas, Jiri