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| High-throughput sequencing of highbush blueberry transcriptome and analysis of basic helix-loop-helix transcription factors |
| SONG Yang1, LIU Hong-di1, ZHOU Qiang2, ZHANG Hong-jun1, ZHANG Zhi-dong2, LI Ya-dong2, WANG Hai-bo1, LIU Feng-zhi1 |
1 Research Institute of Pomology, Chinese Academy of Agricultural Sciences/Key Laboratory of Biology and Genetic Improvement of Horticultural Crops (Germplasm Resources Utilization), Ministry of Agriculture, Xingcheng 125100, P.R.China
2 College of Horticulture, Jilin Agricultural University, Changchun 130118, P.R.China |
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Abstract The highbush blueberry (Vaccinium corymbosum), Duke, was used to construct a de novo transcriptome sequence library and to perform data statistical analysis. Mega 4, CLC Sequence Viewer 6 software, and quantitative PCR were employed for bioinformatics and expression analyses of the basic helix-loop-helix (BHLH) transcription factors of the sequencing library. The results showed that 28.38 gigabytes of valid data were obtained from transcriptome sequencing and were assembled into 108 033 unigenes. Functional annotation showed that 32 244 unigenes were annotated into Clusters of Orthologous Groups (COG) and Gene Ontology (GO) databases, whereas the rest of the 75 789 unigenes had no matching information. By using COG and GO classification tools, sequences with annotation information were divided into 25 and 52 categories, respectively, which involved transport and metabolism, transcriptional regulation, and signal transduction. Analysis of the transcriptome library identified a total of 59 BHLH genes. Sequence analysis revealed that 55 genes of that contained a complete BHLH domain. Furthermore, phylogenetic analysis showed that BHLH genes of blueberry (Duke) could be divided into 13 sub-groups. PCR results showed that 45 genes were expressed at various developmental stages of buds, stems, leaves, flowers, and fruits, suggesting that the function of BHLH was associated with the development of different tissues and organs of blueberry, Duke. The present study would provided a foundation for further investigations on the classification and functions of the blueberry BHLH family.
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Received: 07 April 2016
Accepted:
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| Fund: This work was supported by the National Natural Science Foundation of China (31301754), the Chinese Academy of Agricultural Sciences-Agricultural Science and Technology Innovation Program (CAAS-ASTIP) and the Cultivation Plan for Youth Agricultural Science and Technology Innovative Talents of Liaoning Province, China (2015059). |
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Corresponding Authors:
LIU Feng-zhi, Mobile: +86-13904295109, E-mail: liufengzhi6699@126.com
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| About author: SONG Yang, Mobile: +86-13504299435,E-mail: songyang 1225@163.com |
Cite this article:
SONG Yang, LIU Hong-di, ZHOU Qiang, ZHANG Hong-jun, ZHANG Zhi-dong, LI Ya-dong, WANG Hai-bo, LIU Feng-zhi.
2017.
High-throughput sequencing of highbush blueberry transcriptome and analysis of basic helix-loop-helix transcription factors. Journal of Integrative Agriculture, 16(03): 591-604.
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