Directional gene expression and antisense transcripts in sexual and asexual stages of Plasmodium falciparum.
Directional gene expression and antisense transcripts in sexual and asexual stages of Plasmodium falciparum.
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DOI：
10.1186/1471-2164-12-587
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发表时间：
2011-11-30
期刊：
影响因子：
4.4
通讯作者：
Su XZ
中科院分区：
文献类型：
--
作者：
López-Barragán MJ;Lemieux J;Quiñones M;Williamson KC;Molina-Cruz A;Cui K;Barillas-Mury C;Zhao K;Su XZ
已经表明，恶性疟原虫基因组中近四分之一的初始预测基因模型包含错误。虽然已经努力获得完整的cDNA序列来纠正错误，但预测基因的cDNA序列的覆盖仍然是不完整的，并且许多在性阶段或蚊子阶段表达的基因模型尚未得到验证。恶性疟原虫中的反义转录物已被广泛报道，然而，反义转录物在不同发育阶段的程度和模式仍然很大程度上未知。我们已经测序了7个双向图书馆从环，早期和晚期滋养体，配子体，配子体II，配子体V，和动合子，和4个链特异性图书馆从晚期滋养体，配子体，配子体II，配子体V的3D 7寄生虫。将cDNA序列与3D 7参考基因组比对，发现了阶段特异性反义转录物和新的内含子-外显子剪接点。链特异性cDNA文库的测序表明，更多的基因在一个方向上表达的配子体比在鞭毛体。选择性剪接基因，反义转录，和阶段特异性表达的基因也进行了表征。有必要继续对来自不同发育阶段，特别是非红细胞期的cDNA进行测序。一些配子体和动合子基因中存在反义转录本，表明这些反义RNA可能在基因表达调控和寄生虫发育中起重要作用。未来的基因表达研究应利用定向cDNA文库。反义转录本可以部分解释所观察到的mRNA和蛋白质表达水平之间的差异。
It has been shown that nearly a quarter of the initial predicted gene models in the Plasmodium falciparum genome contain errors. Although there have been efforts to obtain complete cDNA sequences to correct the errors, the coverage of cDNA sequences on the predicted genes is still incomplete, and many gene models for those expressed in sexual or mosquito stages have not been validated. Antisense transcripts have widely been reported in P. falciparum; however, the extent and pattern of antisense transcripts in different developmental stages remain largely unknown. We have sequenced seven bidirectional libraries from ring, early and late trophozoite, schizont, gametocyte II, gametocyte V, and ookinete, and four strand-specific libraries from late trophozoite, schizont, gametocyte II, and gametocyte V of the 3D7 parasites. Alignment of the cDNA sequences to the 3D7 reference genome revealed stage-specific antisense transcripts and novel intron-exon splicing junctions. Sequencing of strand-specific cDNA libraries suggested that more genes are expressed in one direction in gametocyte than in schizont. Alternatively spliced genes, antisense transcripts, and stage-specific expressed genes were also characterized. It is necessary to continue to sequence cDNA from different developmental stages, particularly those of non-erythrocytic stages. The presence of antisense transcripts in some gametocyte and ookinete genes suggests that these antisense RNA may play an important role in gene expression regulation and parasite development. Future gene expression studies should make use of directional cDNA libraries. Antisense transcripts may partly explain the observed discrepancy between levels of mRNA and protein expression.
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影响因子：
3.7
作者：
Jiang H;Patel JJ;Yi M;Mu J;Ding J;Stephens R;Cooper RA;Ferdig MT;Su XZ
通讯作者：
Su XZ
影响因子：
9.8
作者：
Bozdech, Zbynek;Llinas, Manuel;Pulliam, Brian Lee;Wong, Edith D;Zhu, Jingchun;DeRisi, Joseph L
通讯作者：
DeRisi, Joseph L
影响因子：
4.4
作者：
Lu F;Jiang H;Ding J;Mu J;Valenzuela JG;Ribeiro JM;Su XZ
通讯作者：
Su XZ
影响因子：
4.4
作者：
Mishra PC;Kumar A;Sharma A
通讯作者：
Sharma A
影响因子：
1.5
作者：
Gardiner, DL;Holt, DC;Trenholme, KR
通讯作者：
Trenholme, KR