Using microsatellites to understand the physical distribution of recombination on soybean chromosomes.
Using microsatellites to understand the physical distribution of recombination on soybean chromosomes.
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DOI：
10.1371/journal.pone.0022306
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发表时间：
2011
期刊：
影响因子：
3.7
通讯作者：
Sandhu D
中科院分区：
文献类型：
--
作者：
Ott A;Trautschold B;Sandhu D
大豆是一种主要作物，是油和蛋白质的重要来源。在大豆中已经开发了许多遗传连锁图。具体而言，数百个简单重复序列（SSR）标记已经开发和映射。最近对大豆基因组的测序导致产生了大量的遗传信息。本研究的目的是利用SSR标记建立遗传图谱和物理图谱之间的联系，并确定重组在大豆染色体上的物理分布。共使用2，188个SSR在大豆染色体上进行基于序列的物理定位。利用来自不同图谱的连锁信息建立一个综合遗传图谱。综合遗传连锁图谱和基于序列的物理图谱的比较显示，每个染色体的远端25%是标记最密集的，包含平均47.4%的SSR标记和50.2%的基因。每条染色体近端25%的区域仅包含7.4%的标记和6.7%的基因。在全基因组水平上，标记密度和基因密度分别与距离着丝粒的物理距离呈0.64和0.83的高度相关（R2）。重组遵循类似的模式，比较表明，重组是高端粒区，虽然交叉频率和距离着丝粒之间的相关性低（R2 = 0.21）。 大多数的着丝粒区域是低重组。整个大豆基因组的交叉频率为7.2%，极端值远高于和低于平均值。重组热点的数目从1到12条染色体不等。SSR标记的分布与基因的相关性高达0.83，表明SSR标记与基因的关联性很强。染色体上重组分布的知识可以应用于表征和靶向基因。
Soybean is a major crop that is an important source of oil and proteins. A number of genetic linkage maps have been developed in soybean. Specifically, hundreds of simple sequence repeat (SSR) markers have been developed and mapped. Recent sequencing of the soybean genome resulted in the generation of vast amounts of genetic information. The objectives of this investigation were to use SSR markers in developing a connection between genetic and physical maps and to determine the physical distribution of recombination on soybean chromosomes. A total of 2,188 SSRs were used for sequence-based physical localization on soybean chromosomes. Linkage information was used from different maps to create an integrated genetic map. Comparison of the integrated genetic linkage maps and sequence based physical maps revealed that the distal 25% of each chromosome was the most marker-dense, containing an average of 47.4% of the SSR markers and 50.2% of the genes. The proximal 25% of each chromosome contained only 7.4% of the markers and 6.7% of the genes. At the whole genome level, the marker density and gene density showed a high correlation (R2) of 0.64 and 0.83, respectively with the physical distance from the centromere. Recombination followed a similar pattern with comparisons indicating that recombination is high in telomeric regions, though the correlation between crossover frequency and distance from the centromeres is low (R2 = 0.21). Most of the centromeric regions were low in recombination. The crossover frequency for the entire soybean genome was 7.2%, with extremes much higher and lower than average. The number of recombination hotspots varied from 1 to 12 per chromosome. A high correlation of 0.83 between the distribution of SSR markers and genes suggested close association of SSRs with genes. The knowledge of distribution of recombination on chromosomes may be applied in characterizing and targeting genes.
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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：
4.4
作者：
Akhunov ED;Akhunova AR;Anderson OD;Anderson JA;Blake N;Clegg MT;Coleman-Derr D;Conley EJ;Crossman CC;Deal KR;Dubcovsky J;Gill BS;Gu YQ;Hadam J;Heo H;Huo N;Lazo GR;Luo MC;Ma YQ;Matthews DE;McGuire PE;Morrell PL;Qualset CO;Renfro J;Tabanao D;Talbert LE;Tian C;Toleno DM;Warburton ML;You FM;Zhang W;Dvorak J
通讯作者：
Dvorak J
影响因子：
7
作者：
Anderson, LK;Lai, A;Gaut, BS
通讯作者：
Gaut, BS
影响因子：
3.1
作者：
Mutti, Jasdeep S.;Sandhu, Devinder;Gill, Kulvinder S.
通讯作者：
Gill, Kulvinder S.
影响因子：
7.4
作者：
Sandhu, D;Gill, KS
通讯作者：
Gill, KS