De novo transcriptome of Brassica juncea seed coat and identification of genes for the biosynthesis of flavonoids.
De novo transcriptome of Brassica juncea seed coat and identification of genes for the biosynthesis of flavonoids.
复制标题
DOI：
10.1371/journal.pone.0071110
复制
发表时间：
2013
期刊：
影响因子：
3.7
通讯作者：
Liu Z
中科院分区：
文献类型：
--
作者：
Liu X;Lu Y;Yuan Y;Liu S;Guan C;Chen S;Liu Z
芥蓝是一种世界性种植的农作物，产生不同颜色的种子。种子着色是由于原花青素(PAS)沉积在内皮细胞中，PAS是类黄酮类生物合成途径的一个分支的最终产物。为了阐明芥蓝种子色素形成的基因调控网络，利用下一代测序平台Illumina/Solexa对黄籽自交系及其棕籽近等基因系的种皮转录本进行了测序，并进行了重新组装。超过1.16亿个高质量的读数被组装成69,605个非基因，其中约71.5%(49,758个非基因)与Nr蛋白质数据库比对，截止值为10−5。生物途径分析表明，46个单胞菌参与了类黄酮的生物合成。黄籽种皮中编码二氢黄酮醇还原酶(DFR)、花青素双加氧酶(LDOX)和花青素还原酶(ANR)的基因在黄籽种皮中没有表达或表达水平很低，这表明这些参与PAS生物合成的基因与芥菜种子颜色有关，qRT-PCR分析证实了这些基因的表达。据我们所知，这是首次对芥菜种皮转录组进行测序。本研究获得的Unigene序列不仅为深入了解芥菜型油菜种子色素形成的分子机制奠定了基础，也为进一步开展该种或其近缘种的基因组学研究奠定了基础。
Brassica juncea, a worldwide cultivated crop plant, produces seeds of different colors. Seed pigmentation is due to the deposition in endothelial cells of proanthocyanidins (PAs), end products from a branch of flavonoid biosynthetic pathway. To elucidate the gene regulatory network of seed pigmentation in B. juncea, transcriptomes in seed coat of a yellow-seeded inbred line and its brown-seeded near- isogenic line were sequenced using the next-generation sequencing platform Illumina/Solexa and de novo assembled. Over 116 million high-quality reads were assembled into 69,605 unigenes, of which about 71.5% (49,758 unigenes) were aligned to Nr protein database with a cut-off E-value of 10−5. RPKM analysis showed that the brown-seeded testa up-regulated 802 unigenes and down-regulated 502 unigenes as compared to the yellow-seeded one. Biological pathway analysis revealed the involvement of forty six unigenes in flavonoid biosynthesis. The unigenes encoding dihydroflavonol reductase (DFR), leucoantho-cyanidin dioxygenase (LDOX) and anthocyanidin reductase (ANR) for late flavonoid biosynthesis were not expressed at all or at a very low level in the yellow-seeded testa, which implied that these genes for PAs biosynthesis be associated with seed color of B. juncea, as confirmed by qRT-PCR analysis of these genes. To our knowledge, it is the first time to sequence the transcriptome of seed coat in Brassica juncea. The unigene sequences obtained in this study will not only lay the foundations for insight into the molecular mechanisms underlying seed pigmentation in B.juncea, but also provide the basis for further genomics research on this species or its allies.
登录
查看更多内容
影响因子：
14.9
作者：
Kanehisa M;Araki M;Goto S;Hattori M;Hirakawa M;Itoh M;Katayama T;Kawashima S;Okuda S;Tokimatsu T;Yamanishi Y
通讯作者：
Yamanishi Y
影响因子：
6.2
作者：
Nesi, Nathalie;Lucas, Marie-Odile;Renard, Michel
通讯作者：
Renard, Michel
影响因子：
3.7
作者：
Chandna R;Augustine R;Bisht NC
通讯作者：
Bisht NC
DOI：
10.1111/j.2517-6161.1995.tb02031.x
发表时间：
1995-01-01
影响因子：
5.8
作者：
BENJAMINI, Y;HOCHBERG, Y
通讯作者：
HOCHBERG, Y
影响因子：
6.2
作者：
Jiang, Yuanqing;Deyholos, Michael K.
通讯作者：
Deyholos, Michael K.