A high-density genetic map of cucumber derived from Specific Length Amplified Fragment sequencing (SLAF-seq).
A high-density genetic map of cucumber derived from Specific Length Amplified Fragment sequencing (SLAF-seq).
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来自特定长度扩增片段测序 (SLAF-seq) 的黄瓜高密度遗传图谱
DOI：
10.3389/fpls.2014.00768
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发表时间：
2014
影响因子：
5.6
通讯作者：
Chen X
中科院分区：
文献类型：
--
作者：
Xu X;Xu R;Zhu B;Yu T;Qu W;Lu L;Xu Q;Qi X;Chen X
高密度遗传图谱为准确高效的基因组组装和QTL精细定位提供了重要的框架。随着下一代测序技术(NGS)的出现，构建高密度遗传图谱变得更加可行，这使得SNP的发现和大规模群体的高通量基因分型变得更加容易。本研究建立了黄瓜(Cucumis sativus L.)高密度遗传图谱。通过最近开发的特定长度扩增片段测序(SLAF-SEQ)方法在F2群体中成功构建。经过预处理后，总共获得了18.69 GB的数据，包含93,460,000对端读取。D8(母本)的平均测序深度为44.92，父本津5-508的平均测序深度为42.16，后代平均测序深度为5.01。共检测到79,092个优质标记，其中6784个为多态标记，其中1892个标记符合构建遗传图谱的要求。遗传图谱全长845.87 cM，平均遗传距离为0.45 cM。该标记密度高，标记排列整齐，是黄瓜精细定位和分子育种的可靠连锁图谱。
High-density genetic map provides an essential framework for accurate and efficient genome assembly and QTL fine mapping. Construction of high-density genetic maps appears more feasible since the advent of next-generation sequencing (NGS), which eases SNP discovery and high-throughput genotyping of large population. In this research, a high-density genetic map of cucumber (Cucumis sativus L.) was successfully constructed across an F2 population by a recently developed Specific Length Amplified Fragment sequencing (SLAF-seq) method. In total, 18.69 GB of data containing 93,460,000 paired-end reads were obtained after preprocessing. The average sequencing depth was 44.92 in the D8 (female parent), 42.16 in the Jin5-508 (male parent), and 5.01 in each progeny. 79,092 high-quality SLAFs were detected, of which 6784 SLAFs were polymorphic, and 1892 of the polymorphic markers met the requirements for constructing genetic map. The genetic map spanned 845.87 cm with an average genetic distance of 0.45 cm. It is a reliable linkage map for fine mapping and molecular breeding of cucumber for its high marker density and well-ordered markers.
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影响因子：
3.7
作者：
Ren Y;Zhang Z;Liu J;Staub JE;Han Y;Cheng Z;Li X;Lu J;Miao H;Kang H;Xie B;Gu X;Wang X;Du Y;Jin W;Huang S
通讯作者：
Huang S
利用下一代限制性位点相关 DNA 测序构建葡萄高密度遗传图谱
影响因子：
5.3
作者：
Wang N;Fang L;Xin H;Wang L;Li S
通讯作者：
Li S
影响因子：
9.8
作者：
Shifman S;Bell JT;Copley RR;Taylor MS;Williams RW;Mott R;Flint J
通讯作者：
Flint J
影响因子：
3.7
作者：
Baird NA;Etter PD;Atwood TS;Currey MC;Shiver AL;Lewis ZA;Selker EU;Cresko WA;Johnson EA
通讯作者：
Johnson EA
影响因子：
3.7
作者：
Sim SC;Durstewitz G;Plieske J;Wieseke R;Ganal MW;Van Deynze A;Hamilton JP;Buell CR;Causse M;Wijeratne S;Francis DM
通讯作者：
Francis DM