Transcriptome Analysis Reveals Dynamic Fat Accumulation in the Walnut Kernel
Walnut (Juglans regia L.) is an important woody oilseed species cultivated throughout the world. In this study, comparative transcript profiling was performed using high-throughput RNA sequencing technology at the following three stages of walnut fat synthesis in the “Lvling” walnut cultivar: the in...
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| Format: | Article |
| Language: | English |
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Wiley
2018-01-01
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| Series: | International Journal of Genomics |
| Online Access: | http://dx.doi.org/10.1155/2018/8931651 |
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| author | Shuang Zhao Xuemei Zhang Yanping Su Yilan Chen Yang Liu Meng Sun Guohui Qi |
| author_facet | Shuang Zhao Xuemei Zhang Yanping Su Yilan Chen Yang Liu Meng Sun Guohui Qi |
| author_sort | Shuang Zhao |
| collection | DOAJ |
| description | Walnut (Juglans regia L.) is an important woody oilseed species cultivated throughout the world. In this study, comparative transcript profiling was performed using high-throughput RNA sequencing technology at the following three stages of walnut fat synthesis in the “Lvling” walnut cultivar: the initial developmental stage (L1), the fast developing stage (L2), and the last developing stage (L3). A total of 68.18 GB of data were obtained on the three developmental stages, and 92% to 94% of clean data were able to be located to the reference genome. Further comparisons of the transcripts in the three libraries revealed that 724, 2027, and 4817 genes were differentially expressed between the L2 and L1 (L2vsL1), L3 and L2 (L3vsL2), and L3 and L1 (L3vsL1) samples, respectively. Through the GO gene enrichment analysis, differentially expressed genes (DEGs) in L2vsL1, L3vsL2, and L3vsL1 were enriched into 3, 0, and 2 functional categories, respectively. According to the KEGG enrichment analysis, DEGs in L2vsL1, L3vsL2, and L3vsL1 were annotated into 77, 110, and 3717 taxonomic metabolic pathways in the KEGG database, respectively. Next, we analyzed expression levels of genes related to fat synthesis. Our results indicated that ACCase, LACS, and FAD7 were the key genes related to fat synthesis. The high-throughput transcriptome sequencing of walnut in different developmental stages has greatly enriched the current genomic available resources. The comparison of DEGs under different developmental stages identified a wealth of candidate genes involved in fat synthesis, which will facilitate further genetic improvement and molecular studies of the walnut. |
| format | Article |
| id | doaj-art-cfb1c77a0e0344088a4ffc30177a2805 |
| institution | DOAJ |
| issn | 2314-436X 2314-4378 |
| language | English |
| publishDate | 2018-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | International Journal of Genomics |
| spelling | doaj-art-cfb1c77a0e0344088a4ffc30177a28052025-08-20T03:19:46ZengWileyInternational Journal of Genomics2314-436X2314-43782018-01-01201810.1155/2018/89316518931651Transcriptome Analysis Reveals Dynamic Fat Accumulation in the Walnut KernelShuang Zhao0Xuemei Zhang1Yanping Su2Yilan Chen3Yang Liu4Meng Sun5Guohui Qi6Department of Forestry, Agricultural University of Hebei, Baoding 071000, ChinaDepartment of Forestry, Agricultural University of Hebei, Baoding 071000, ChinaDepartment of Life Science, Normal University of Langfang, Langfang 065000, ChinaBaoding Forest Seedling Management Station, Baoding 071000, ChinaDepartment of Forestry, Agricultural University of Hebei, Baoding 071000, ChinaDepartment of Forestry, Agricultural University of Hebei, Baoding 071000, ChinaDepartment of Forestry, Agricultural University of Hebei, Baoding 071000, ChinaWalnut (Juglans regia L.) is an important woody oilseed species cultivated throughout the world. In this study, comparative transcript profiling was performed using high-throughput RNA sequencing technology at the following three stages of walnut fat synthesis in the “Lvling” walnut cultivar: the initial developmental stage (L1), the fast developing stage (L2), and the last developing stage (L3). A total of 68.18 GB of data were obtained on the three developmental stages, and 92% to 94% of clean data were able to be located to the reference genome. Further comparisons of the transcripts in the three libraries revealed that 724, 2027, and 4817 genes were differentially expressed between the L2 and L1 (L2vsL1), L3 and L2 (L3vsL2), and L3 and L1 (L3vsL1) samples, respectively. Through the GO gene enrichment analysis, differentially expressed genes (DEGs) in L2vsL1, L3vsL2, and L3vsL1 were enriched into 3, 0, and 2 functional categories, respectively. According to the KEGG enrichment analysis, DEGs in L2vsL1, L3vsL2, and L3vsL1 were annotated into 77, 110, and 3717 taxonomic metabolic pathways in the KEGG database, respectively. Next, we analyzed expression levels of genes related to fat synthesis. Our results indicated that ACCase, LACS, and FAD7 were the key genes related to fat synthesis. The high-throughput transcriptome sequencing of walnut in different developmental stages has greatly enriched the current genomic available resources. The comparison of DEGs under different developmental stages identified a wealth of candidate genes involved in fat synthesis, which will facilitate further genetic improvement and molecular studies of the walnut.http://dx.doi.org/10.1155/2018/8931651 |
| spellingShingle | Shuang Zhao Xuemei Zhang Yanping Su Yilan Chen Yang Liu Meng Sun Guohui Qi Transcriptome Analysis Reveals Dynamic Fat Accumulation in the Walnut Kernel International Journal of Genomics |
| title | Transcriptome Analysis Reveals Dynamic Fat Accumulation in the Walnut Kernel |
| title_full | Transcriptome Analysis Reveals Dynamic Fat Accumulation in the Walnut Kernel |
| title_fullStr | Transcriptome Analysis Reveals Dynamic Fat Accumulation in the Walnut Kernel |
| title_full_unstemmed | Transcriptome Analysis Reveals Dynamic Fat Accumulation in the Walnut Kernel |
| title_short | Transcriptome Analysis Reveals Dynamic Fat Accumulation in the Walnut Kernel |
| title_sort | transcriptome analysis reveals dynamic fat accumulation in the walnut kernel |
| url | http://dx.doi.org/10.1155/2018/8931651 |
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