Characterization and expression patterns of small RNAs in synthesized Brassica hexaploids
Characterization and expression patterns of small RNAs in synthesized Brassica hexaploids
复制标题
合成芸苔属六倍体中小 RNA 的表征和表达模式
DOI：
10.1007/s11103-014-0185-x
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发表时间：
2014-03
影响因子：
5.1
通讯作者：
Wang JB
中科院分区：
文献类型：
--
作者：
Shen YY;Zhao Q;Zou J;Wang WL;Gao Y;Meng JL;Wang JB
多倍体通过基因组合并和加倍在促进植物进化方面发挥了重要作用。我们使用高通量测序比较了甘蓝六倍体及其亲本之间的miRNA表达谱。甘蓝型油菜、甘蓝型油菜和六倍体油菜分别鉴定出613、784和742个已知miRNAs。我们检测到618个miRNAs在甘蓝六倍体及其亲本之间差异表达(对数比≥1，P≤0.05)，425个miRNAs在甘蓝型六倍体中非加性表达，这表明杂交和多倍化后有非加性miRNA调控的趋势。值得注意的是，在油菜六倍体中，大多数非加性表达的miRNAs受到抑制，并且对油菜miRNAs的抑制存在偏向，这与合成异源多倍体中先祖偏向的基因抑制相一致。此外，我们还在甘蓝六倍体及其亲本中鉴定了653个新的成熟miRNAs。最后，我们发现在Brassica六倍体中，几乎所有的siRNA簇的非相加积累都表现出低亲本的模式。非加性小RNA调控涉及一系列生物途径，可能为异源多倍体的变异和适应提供驱动力。
Polyploidy has played an important role in promoting plant evolution through genomic merging and doubling. We used high-throughput sequencing to compare miRNA expression profiles between Brassica hexaploid and its parents. A total of 613, 784 and 742 known miRNAs were identified in Brassica rapa, Brassica carinata, and Brassica hexaploid, respectively. We detected 618 miRNAs were differentially expressed (log(2)Ratio ≥ 1, P ≤ 0.05) between Brassica hexaploid and its parents, and 425 miRNAs were non-additively expressed in Brassica hexaploid, which suggest a trend of non-additive miRNA regulation following hybridization and polyploidization. Remarkably, majority of the non-additively expressed miRNAs in the Brassica hexaploid are repressed, and there was a bias toward repression of B. rapa miRNAs, which is consistent with the progenitor-biased gene repression in the synthetic allopolyploids. In addition, we identified 653 novel mature miRNAs in Brassica hexaploid and its parents. Finally, we found that almost all the non-additive accumulation of siRNA clusters exhibited a low-parent pattern in Brassica hexaploid. Non-additive small RNA regulation is involved in a range of biological pathways, probably providing a driving force for variation and adaptation in allopolyploids.
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影响因子：
5.1
作者：
Sun, Guiling
通讯作者：
Sun, Guiling
影响因子：
14.9
作者：
Chen C;Ridzon DA;Broomer AJ;Zhou Z;Lee DH;Nguyen JT;Barbisin M;Xu NL;Mahuvakar VR;Andersen MR;Lao KQ;Livak KJ;Guegler KJ
通讯作者：
Guegler KJ
影响因子：
3.7
作者：
Fahlgren N;Howell MD;Kasschau KD;Chapman EJ;Sullivan CM;Cumbie JS;Givan SA;Law TF;Grant SR;Dangl JL;Carrington JC
通讯作者：
Carrington JC
DOI：
10.1111/j.1469-8137.2011.03988.x
发表时间：
2012-02
期刊：
The New phytologist
影响因子：
--
作者：
Manzaneda AJ;Rey PJ;Bastida JM;Weiss-Lehman C;Raskin E;Mitchell-Olds T
通讯作者：
Mitchell-Olds T
使用 RNA-Seq 方法追踪芸苔属合成三基因组异源六倍体的转录组变化
影响因子：
3.7
作者：
Zhao Q;Zou J;Meng J;Mei S;Wang J
通讯作者：
Wang J