De novo sequencing and comparative analysis of expressed sequence tags from gynodioecious fig (Ficus carica L.) fruits: caprifig and common fig
De novo sequencing and comparative analysis of expressed sequence tags from gynodioecious fig (Ficus carica L.) fruits: caprifig and common fig
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DOI：
10.1007/s11295-013-0622-z
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发表时间：
2013-08-01
影响因子：
2.4
通讯作者：
Kuhara, Satoru
中科院分区：
文献类型：
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作者：
Ikegami, Hidetoshi;Habu, Tsuyoshi;Kuhara, Satoru
我们进行了详尽的研究，在无花果果实的基因表达，以确定基因复合体负责基本的水果生理和生态类型之间的表型差异。我们进行了高通量焦磷酸测序的cDNA文库构建从caprifig和常见的无花果果实，并通过分析获得的表达序列标签比较它们的转录组。我们从两种水果类型中收集了总共290，594个表达的序列标签读数，并将它们组装成71，455个单基因（19，166个重叠群和52，289个单基因）。我们确定了许多代谢基因，包括编码与水果成熟相关的乙烯、葡萄糖和花色素苷合成途径中的蛋白质的基因。这一套也包含unigenes与身份不明的功能。我们没有观察到水果类型之间的基因本体论术语表示的显着差异。然而，通过逆转录聚合酶链反应，我们在单个基因水平上检测到了几个多态性。在B和C类MADS盒基因同源物和查耳酮合酶同源物中观察到了表达水平或转录产物大小的类型间变异，这些基因和查耳酮合酶同源物被认为分别参与了性行为和单性结实。还观察到其他基因的表达多态性，包括赤霉素调节蛋白基因。我们的数据和结果有助于无花果果实的遗传研究，并将有助于了解果实生理和表型分化机制。
We conducted an exhaustive study of gene expression in fig fruits to identify the gene complexes responsible for fundamental fruit physiology and phenotypic differences between ecotypes. We performed high-throughput pyrosequencing on cDNA libraries constructed from caprifig and common fig fruits and compared their transcriptomes by analyzing the expressed sequence tags obtained. We collected a total of 290,594 expressed sequence tag reads from the two fruit types and assembled them into 71,455 unigenes (19,166 contigs and 52,289 singletons). We identified many metabolic genes, including those encoding proteins in the ethylene, glucose, and anthocyanin synthesis pathways that are involved in fruit maturation. This set also contained unigenes with unidentified functions. We observed no significant differences between the fruit types with respect to Gene Ontology term representation. By reverse transcription polymerase chain reaction, however, we detected several polymorphisms at the level of individual genes. Inter-type variations with respect to the expression level or transcription product size were observed in B- and C-class MADS-box gene homologs and chalcone synthase homologs, which are believed to be involved in sexuality and parthenocarpy, respectively. Expression polymorphisms were also observed for other genes, including a gibberellin-regulated protein gene. Our data and results contribute to genetic research on fig fruits and will aid in the understanding of fruit physiology and mechanisms of phenotypic differentiation.