Lin, Y and Min, J and Lai, R and Wu, Z and Chen, Y and Yu, L and Cheng, C and Jin, Y and Tian, Q and Liu, Q and Liu, W and Zhang, C and Lin, L and Zhang, D and Thu, M and Zhang, Z and Liu, S and Zhong, C and Fang, X and Wang, J and Yang, H and Varshney, R K and Yin, Y and Lai, Z (2017) Genome-wide sequencing of longan (Dimocarpus longan Lour.) provides insights into molecular basis of its polyphenol-rich characteristics. GigaScience, 6 (5). pp. 1-14. ISSN 2047-217X
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Abstract
Longan (Dimocarpus longan Lour.), an important subtropical fruit in the family Sapindaceae, is grown in more than 10 countries. Longan is an edible drupe fruit and a source of traditional medicine with polyphenol-rich traits. Tree size, alternate bearing, and witches' broom disease still pose serious problems. To gain insights into the genomic basis of longan traits, a draft genome sequence was assembled. The draft genome (about 471.88 Mb) of a Chinese longan cultivar, “Honghezi,” was estimated to contain 31 007 genes and 261.88 Mb of repetitive sequences. No recent whole-genome-wide duplication event was detected in the genome. Whole-genome resequencing and analysis of 13 cultivated D. longan accessions revealed the extent of genetic diversity. Comparative transcriptome studies combined with genome-wide analysis revealed polyphenol-rich and pathogen resistance characteristics. Genes involved in secondary metabolism, especially those from significantly expanded (DHS, SDH, F3΄H, ANR, and UFGT) and contracted (PAL, CHS, and F3΄5΄H) gene families with tissue-specific expression, may be important contributors to the high accumulation levels of polyphenolic compounds observed in longan fruit. The high number of genes encoding nucleotide-binding site leucine-rich repeat (NBS-LRR) and leucine-rich repeat receptor-like kinase proteins, as well as the recent expansion and contraction of the NBS-LRR family, suggested a genomic basis for resistance to insects, fungus, and bacteria in this fruit tree. These data provide insights into the evolution and diversity of the longan genome. The comparative genomic and transcriptome analyses provided information about longan-specific traits, particularly genes involved in its polyphenol-rich and pathogen resistance characteristics.
| Item Type: | Article |
|---|---|
| Divisions: | Research Program : Genetic Gains |
| CRP: | UNSPECIFIED |
| Uncontrolled Keywords: | Genome-wide sequencing, Longan, Dimocarpus longan, Genetics, Genomics, Longan fruit |
| Subjects: | Others > Genetics and Genomics |
| Depositing User: | Mr Ramesh K |
| Date Deposited: | 01 Aug 2017 05:53 |
| Last Modified: | 06 Mar 2018 07:47 |
| URI: | http://oar.icrisat.org/id/eprint/10118 |
| Official URL: | http://dx.doi.org/10.1093/gigascience/gix023 |
| Projects: | UNSPECIFIED |
| Funders: | UNSPECIFIED |
| Acknowledgement: | This work was funded by the Research Funds for the National Natural Science Foundation of China (31672127, 31572088, 31272149, 31201614, and 31078717), the Science and Technology Plan Major Projects of Fujian Province (2015NZ0002-1), the Natural Science Funds for Distinguished Young Scholar in Fujian Province (2015J06004), the program for New Century Excellent Talents in Fujian Province University (20151104), the Doctoral Program of Higher Education of the Chinese Ministry of Education (20093515110005 and 20123515120008), the Education Department of Fujian Province Science and Technology Project (JA14099), the Program for High-level University Construction of the Fujian Agriculture and Forestry University (612014028), and the Natural Science Funds for Distinguished Young Scholar of the Fujian Agriculture and Forestry University (xjq201405). We thank our colleagues from the experimental fields of the Fujian Academy of Agricultural Science in Putian for samples. |
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