Chromosome level comparative analysis of Brassica genomes
Chromosome level comparative analysis of Brassica genomes
复制标题
芸苔属基因组的染色体水平比较分析
DOI：
10.1007/s11103-018-0814-x
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发表时间：
2019-01
影响因子：
5.1
通讯作者：
Wang JB
中科院分区：
文献类型：
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作者：
Wang WL;Guan R;Liu X;Zhang HR;Song B;Xu QW;Fan GY;Chen WB;Wu XM;Liu X;Wang JB
我们提供了b染色体长度的集合。nigraand显示了油菜基因组间全面的染色体尺度变异。摘要芸苔属植物包括许多重要的作物，其染色体水平的组装对农业和进化研究至关重要。解析：选b。黑染色体与b的遗传图谱相连接。这阻碍了B染色体的比较分析。这里我们给出一条染色体长度b。用Hi-C连接构建的黑聚体及其在染色体水平上与其他芸苔属植物的差异。我们得到了一个包含51,829个基因的484 Mb的装配体，其中393 Mb被锚定在8条染色体上，占装配体的81.26%。B染色体的比较显示两个B染色体高度一致。并揭示了B染色体在多倍体化后的全面变异和同工区域的基因丢失。变异染色体块的基因密度较低，TE含量较高。此外，我们比较了三种主要的芸苔二倍体的染色体，发现B和A/C之间的大部分变异在A/C分化之前完成，而C染色体在A/C分化之后发生了更多的变异。总之，我们的工作提出了b染色体长度的组装。对芸苔属植物染色体进行了全面的比较分析，为其他芸苔属植物染色体进化的研究提供了有益的参考和全面的信息。
Key messageWe provided a chromosome-length assembly ofB. nigraand show the comprehensive chromosome-scale variations among Brassica genomes.AbstractChromosome-level assembly of the Brassica species, which include many important crops, is essential for the agricultural and evolutionary studies. While the presentB. nigrachromosomes was connected with genetic map ofB. juncea, hindering the comparative analysis of the B chromosomes. Here we present a chromosome-lengthB. nigraassembly constructed with Hi-C connections and its variations on chromosome level compared with other Brassica species. We produced an assembly of 484 Mb annotated with 51,829 genes, of which 393 Mb were anchored onto 8 chromosomes, taking 81.26% of the assembly. Comparison of the B chromosomes shows high concordance of the twoB. nigraassemblies and reveals comprehensive variations of the B chromosomes after polyploidization and gene loss in syntenic regions. Chromosome blocks with variations have lower gene density and higher TE content. Furthermore, we compared the chromosomes of the three major Brassica diploids, which showed that most of the variations between B and A/C had completed before A/C divergence and there are more variations on C chromosomes after their divergence. In summary, our work presents a chromosome-length assembly ofB. nigraand comprehensive comparative analysis of the Brassica chromosomes, which provides a useful reference for other studies and comprehensive information of Brassica chromosome evolution.
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影响因子：
4.5
作者：
Liu S;Yeh CT;Ji T;Ying K;Wu H;Tang HM;Fu Y;Nettleton D;Schnable PS
通讯作者：
Schnable PS
影响因子：
48
作者：
Langmead, Ben;Salzberg, Steven L.
通讯作者：
Salzberg, Steven L.
影响因子：
4.9
作者：
Bao W;Kojima KK;Kohany O
通讯作者：
Kohany O
影响因子：
5.8
作者：
Simao, Felipe A.;Waterhouse, Robert M.;Zdobnov, Evgeny M.
通讯作者：
Zdobnov, Evgeny M.
影响因子：
46.9
作者：
通讯作者：
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