Comparative transcriptome sequencing and de novo analysis of Vaccinium corymbosum during fruit and color development.
Comparative transcriptome sequencing and de novo analysis of Vaccinium corymbosum during fruit and color development.
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DOI：
10.1186/s12870-016-0866-5
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发表时间：
2016-10-12
影响因子：
5.3
通讯作者：
Zhang L
中科院分区：
文献类型：
--
作者：
Li L;Zhang H;Liu Z;Cui X;Zhang T;Li Y;Zhang L
蓝莓是一种重要的经济水果作物。蓝莓中大量的类黄酮对健康有广泛的好处。然而，基于转录组水平的关于果实发育和类黄酮代谢产物的信息仍然有限。在本研究中，启动了浆果发育，特别是颜色发育过程中的转录组和基因表达谱。共获得约13.67 Gbp的数据，并从蓝莓果实和颜色发育的三个阶段组装成186,962个转录本和80,836个unigenes。发现了大量可能参与植物发育、代谢和激素通路的简单重复序列（SSRs）和候选基因。在15457个单基因中，共鉴定出6429条含有8796个SSR的序列，其中含有1个以上SSR的有1763条。研究了花青素生物合成关键基因的表达谱。此外，还将我们的数据集与其他已发表的结果进行了比较。我们在本研究中获得的高质量reads是一个重要的进步，为蓝莓物种的高通量数据解释提供了新的资源，无论是在测序数据深度还是物种扩展方面。这些转录组数据的使用将为蓝莓基因组研究提供有价值的公共信息数据库，并将极大地促进蓝莓果实和颜色发育、类黄酮代谢以及健康蓝莓调控和育种的研究。本文的在线版本（doi:10.1186/s12870-016-0866-5）包含补充材料，可供授权用户使用。
Blueberry is an economically important fruit crop in Ericaceae family. The substantial quantities of flavonoids in blueberry have been implicated in a broad range of health benefits. However, the information regarding fruit development and flavonoid metabolites based on the transcriptome level is still limited. In the present study, the transcriptome and gene expression profiling over berry development, especially during color development were initiated. A total of approximately 13.67 Gbp of data were obtained and assembled into 186,962 transcripts and 80,836 unigenes from three stages of blueberry fruit and color development. A large number of simple sequence repeats (SSRs) and candidate genes, which are potentially involved in plant development, metabolic and hormone pathways, were identified. A total of 6429 sequences containing 8796 SSRs were characterized from 15,457 unigenes and 1763 unigenes contained more than one SSR. The expression profiles of key genes involved in anthocyanin biosynthesis were also studied. In addition, a comparison between our dataset and other published results was carried out. Our high quality reads produced in this study are an important advancement and provide a new resource for the interpretation of high-throughput data for blueberry species whether regarding sequencing data depth or species extension. The use of this transcriptome data will serve as a valuable public information database for the studies of blueberry genome and would greatly boost the research of fruit and color development, flavonoid metabolisms and regulation and breeding of more healthful blueberries. The online version of this article (doi:10.1186/s12870-016-0866-5) contains supplementary material, which is available to authorized users.
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影响因子：
5.2
作者：
Varshney, RK;Sigmund, R;Graner, A
通讯作者：
Graner, A
影响因子：
--
作者：
Cho, EY;Seddon, JM;Hankinson, SE
通讯作者：
Hankinson, SE
影响因子：
5.3
作者：
Rowland LJ;Alkharouf N;Darwish O;Ogden EL;Polashock JJ;Bassil NV;Main D
通讯作者：
Main D
影响因子：
4.9
作者：
Vijay, Nagarjun;Poelstra, Jelmer W.;Wolf, Jochen B. W.
通讯作者：
Wolf, Jochen B. W.
使用 Illumina 双端测序表征芝麻 (Sesamum indicum L.) 全局转录组并开发 EST-SSR 标记
影响因子：
4.4
作者：
Wei W;Qi X;Wang L;Zhang Y;Hua W;Li D;Lv H;Zhang X
通讯作者：
Zhang X