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Yue XQ, Zhang Y, Yang CK, Li JG, Rui X, Ding F, Hu FC, Wang XH, Ma WQ, Zhou KB. Genome-wide identification and expression analysis of carotenoid cleavage oxygenase genes in Litchi (Litchi chinensis Sonn.). BMC Plant Biol 2022; 22:394. [PMID: 35945492 PMCID: PMC9361530 DOI: 10.1186/s12870-022-03772-w] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/24/2021] [Accepted: 07/20/2022] [Indexed: 06/01/2023]
Abstract
BACKGROUND Carotenoid cleavage oxygenases (CCOs) include the carotenoid cleavage dioxygenase (CCD) and 9-cis-epoxycarotenoid (NCED), which can catalize carotenoid to form various apocarotenoids and their derivatives, has been found that play important role in the plant world. But little information of CCO gene family has been reported in litchi (Litchi chinensis Sonn.) till date. RESULTS In this study, a total of 15 LcCCO genes in litchi were identified based on genome wide lever. Phylogeny analysis showed that LcCCO genes could be classified into six subfamilies (CCD1, CCD4, CCD7, CCD8, CCD-like, and NCED), which gene structure, domain and motifs exhibited similar distribution patterns in the same subfamilies. MiRNA target site prediction found that there were 32 miRNA target sites in 13 (86.7%) LcCCO genes. Cis-elements analysis showed that the largest groups of elements were light response related, following was plant hormones, stress and plant development related. Expression pattern analysis revealed that LcCCD4, LcNCED1, and LcNCED2 might be involving with peel coloration, LcCCDlike-b might be an important factor deciding fruit flavor, LcNCED2 and LcNCED3 might be related to flower control, LcNCED1 and LcNCED2 might function in fruitlet abscission, LcCCD4a1, LcCCD4a2, LcCCD1, LcCCD4, LcNCED1, and LcNCED2 might participate in postharvest storage of litchi. CONCLUSION Herein, Genome-wide analysis of the LcCCO genes was conducted in litchi to investigate their structure features and potential functions. These valuable and expectable information of LcCCO genes supplying in this study will offer further more possibility to promote quality improvement and breeding of litchi and further function investigation of this gene family in plant.
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Affiliation(s)
- Xiao-Qi Yue
- Engineering Research Center of Selecting and Breeding New Tropical Crops Varieties, Ministry of Education, Horticulture College, Hainan University, Hainan, 570311, Haikou, China
- Key Laboratory for Quality Regulation of Tropical Horticultural Crops of Hainan Province, Horticulture College, Hainan University, Hainan, 570311, Haikou, China
| | - Yue Zhang
- Engineering Research Center of Selecting and Breeding New Tropical Crops Varieties, Ministry of Education, Horticulture College, Hainan University, Hainan, 570311, Haikou, China
- Key Laboratory for Quality Regulation of Tropical Horticultural Crops of Hainan Province, Horticulture College, Hainan University, Hainan, 570311, Haikou, China
| | - Cheng-Kun Yang
- Engineering Research Center of Selecting and Breeding New Tropical Crops Varieties, Ministry of Education, Horticulture College, Hainan University, Hainan, 570311, Haikou, China
- Key Laboratory for Quality Regulation of Tropical Horticultural Crops of Hainan Province, Horticulture College, Hainan University, Hainan, 570311, Haikou, China
| | - Jian-Guo Li
- Guangdong Litchi Engineering Research Center, College of Horticulture, South China Agricultural University, Guangzhou, 510642, China
| | - Xia Rui
- Guangdong Litchi Engineering Research Center, College of Horticulture, South China Agricultural University, Guangzhou, 510642, China
| | - Feng Ding
- Guangxi Crop Genetic Improvement and Biotechnology Key Laboratory, Guangxi Academy of Agricultural Sciences, Nanning, 530007, Guangxi, China
| | - Fu-Chu Hu
- Key Laboratory of Tropical Fruit Tree Biology of Hainan Province, Hainan Academy of Agricultural Science, Haikou, 571100, China
| | - Xiang-He Wang
- Key Laboratory of Tropical Fruit Tree Biology of Hainan Province, Hainan Academy of Agricultural Science, Haikou, 571100, China
| | - Wu-Qiang Ma
- Engineering Research Center of Selecting and Breeding New Tropical Crops Varieties, Ministry of Education, Horticulture College, Hainan University, Hainan, 570311, Haikou, China.
- Key Laboratory for Quality Regulation of Tropical Horticultural Crops of Hainan Province, Horticulture College, Hainan University, Hainan, 570311, Haikou, China.
| | - Kai-Bing Zhou
- Engineering Research Center of Selecting and Breeding New Tropical Crops Varieties, Ministry of Education, Horticulture College, Hainan University, Hainan, 570311, Haikou, China.
- Key Laboratory for Quality Regulation of Tropical Horticultural Crops of Hainan Province, Horticulture College, Hainan University, Hainan, 570311, Haikou, China.
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