PMID- 37919673 OWN - NLM STAT- MEDLINE DCOM- 20231106 LR - 20231106 IS - 1471-2164 (Electronic) IS - 1471-2164 (Linking) VI - 24 IP - 1 DP - 2023 Nov 2 TI - Transcriptional deciphering of the metabolic pathways associated with the bioactive ingredients of wolfberry species with different quality characteristics. PG - 658 LID - 10.1186/s12864-023-09755-x [doi] LID - 658 AB - BACKGROUND: Wolfberry is rich in carotenoids, flavonoids, vitamins, alkaloids, betaines and other bioactive ingredients. For over 2,000 years, wolfberry has been used in China as a medicinal and edible plant resource. Nevertheless, the content of bioactive ingredients varies by cultivars, resulting in uneven quality across wolfberry cultivars and species. To date, research has revealed little about the underlying molecular mechanism of the metabolism of flavonoids, carotenoids, and other bioactive ingredients in wolfberry. RESULTS: In this context, the transcriptomes of the Lycium barbarum L. cultivar 'Ningqi No. 1' and Lycium chinense Miller were compared during the fruit maturity stage using the Illumina NovaSeq 6000 sequencing platform, and subsequently, the changes of the gene expression profiles in two types of wolfberries were analysed. In total, 256,228,924 clean reads were obtained, and 8817 differentially expressed genes (DEGs) were identified, then assembled by Basic Local Alignment Search Tool (BLAST) similarity searches and annotated using Gene Ontology (GO), Clusters of Orthologous Groups of proteins (KOG), and the Kyoto Encyclopedia of Genes and Genomes (KEGG). By combining these transcriptome data with data from the PubMed database, 36 DEGs related to the metabolism of bioactive ingredients and implicated in the metabolic pathway of carotenoids, flavonoids, terpenoids, alkaloids, vitamins, etc., were identified. In addition, among the 9 differentially expressed transcription factors, LbAPL, LbPHL11 and LbKAN4 have raised concerns. The protein physicochemical properties, structure prediction and phylogenetic analysis indicated that LbAPL and LbPHL11 may be good candidate genes involved in regulating the flavonoid metabolism pathway in wolfberry. CONCLUSIONS: This study provides preliminary evidence for the differences in bioactive ingredient content at the transcription level among different wolfberry species, as well as a research and theoretical basis for the screening, cloning and functional analysis of key genes involved in the metabolism of bioactive ingredients in wolfberry. CI - (c) 2023. The Author(s). FAU - Liu, Xuexia AU - Liu X AD - Key Laboratory of Ministry of Education for Protection and Utilization of Special Biological Resources in Western China, Key Laboratory of Modern Molecular Breeding for Dominant and Special Crops in Ningxia, College of Life Science, Ningxia University, Yinchuan, 750021, China. FAU - Zheng, Rui AU - Zheng R AD - Key Laboratory of Ministry of Education for Protection and Utilization of Special Biological Resources in Western China, Key Laboratory of Modern Molecular Breeding for Dominant and Special Crops in Ningxia, College of Life Science, Ningxia University, Yinchuan, 750021, China. xlzheng@126.com. FAU - Radani, Yasmina AU - Radani Y AD - College of Biology and the Environment, Nanjing Forestry University, Nanjing, 210037, China. FAU - Gao, Han AU - Gao H AD - Key Laboratory of Ministry of Education for Protection and Utilization of Special Biological Resources in Western China, Key Laboratory of Modern Molecular Breeding for Dominant and Special Crops in Ningxia, College of Life Science, Ningxia University, Yinchuan, 750021, China. FAU - Yue, Sijun AU - Yue S AD - Key Laboratory of Ministry of Education for Protection and Utilization of Special Biological Resources in Western China, Key Laboratory of Modern Molecular Breeding for Dominant and Special Crops in Ningxia, College of Life Science, Ningxia University, Yinchuan, 750021, China. sijunyue@126.com. FAU - Fan, Wenqiang AU - Fan W AD - Key Laboratory of Ministry of Education for Protection and Utilization of Special Biological Resources in Western China, Key Laboratory of Modern Molecular Breeding for Dominant and Special Crops in Ningxia, College of Life Science, Ningxia University, Yinchuan, 750021, China. FAU - Tang, Jianning AU - Tang J AD - Ningxia Wolfberry Industry Development Center, Yinchuan, 750021, China. 364322006@qq.com. FAU - Shi, Jing AU - Shi J AD - Key Laboratory of Ministry of Education for Protection and Utilization of Special Biological Resources in Western China, Key Laboratory of Modern Molecular Breeding for Dominant and Special Crops in Ningxia, College of Life Science, Ningxia University, Yinchuan, 750021, China. FAU - Zhu, Jinzhong AU - Zhu J AD - Qixin Wolfberry Seedling Professional Cooperatives, Zhongning, 755100, China. LA - eng GR - 31560418/National Natural Science Foundation of China/ GR - 2022BBF02010/Key R&D plan of Ningxia Hui Autonomous Region/ GR - 2023FRD05032/The Chinese Central Government Guiding Local Funds for Science and Technology Development/ PT - Journal Article DEP - 20231102 PL - England TA - BMC Genomics JT - BMC genomics JID - 100965258 RN - 0 (Flavonoids) RN - 36-88-4 (Carotenoids) RN - 0 (Vitamins) RN - 0 (Alkaloids) SB - IM MH - *Lycium/genetics MH - Phylogeny MH - Flavonoids MH - Metabolic Networks and Pathways/genetics MH - Carotenoids/metabolism MH - Vitamins/metabolism MH - *Alkaloids PMC - PMC10621208 OTO - NOTNLM OT - Bioactive ingredients OT - Differentially expressed genes OT - Lycium barbarum L. OT - Lycium chinense Miller OT - Transcriptome COIS- The authors declare no competing interests. EDAT- 2023/11/03 06:44 MHDA- 2023/11/06 06:42 PMCR- 2023/11/02 CRDT- 2023/11/03 00:47 PHST- 2023/04/23 00:00 [received] PHST- 2023/10/19 00:00 [accepted] PHST- 2023/11/06 06:42 [medline] PHST- 2023/11/03 06:44 [pubmed] PHST- 2023/11/03 00:47 [entrez] PHST- 2023/11/02 00:00 [pmc-release] AID - 10.1186/s12864-023-09755-x [pii] AID - 9755 [pii] AID - 10.1186/s12864-023-09755-x [doi] PST - epublish SO - BMC Genomics. 2023 Nov 2;24(1):658. doi: 10.1186/s12864-023-09755-x.