The pericarp of longan (Dimocarpus longan Lour.) is rich in secondary metabolites and typically yellow-brown or gray-yellow in appearance. Here, we obtained a specific longan type, called red pericarp (RP) longan, which has a strong red pericarp. To understand the coloring mechanism of RP longan, metabolome and transcriptome data were used to analyze its secondary metabolites and molecular mechanism. From the results of liquid chromatography tandem mass spectrometry, 597 substances were identified in RP longan and 'Shixia' (SX) longan. Among these substances, 33 (mostly including flavonoids) were found in RP longan and 23 (mostly containing phenolic acids) were identified in SX longan. We identified five types of anthocyanins in longan pericarp, including three cyanidin derivatives, one delphinidin derivative, and one pelargonidin derivative. Three cyanidin derivatives, which contained cyanidin 3-O-glucoside, cyanidin 3-O-6″-malonyl-glucoside, and cyanidin O-syringic acid, were the primary components of anthocyanidins, and they only existed in RP longan. Delphinin 3-O-glucoside existed only in SX longan, and pelargonin O-rutinoside existed in RP and SX longan. However, their contents were extremely low. The structural genes F3H, F3′H, UFGT, and GST and the controlling genes containing MYB, bHLH, NAC, and MADS in the biosynthetic pathway of anthocyanin were significantly upregulated in RP longan. In summary, the strong red hue of RP longan is due to the accumulation of cyanidin derivatives in its pericarp, and the genes F3′H and F3′5′H may play an important role in selecting which component of anthocyanins will be synthesized. These results can provide scientific guidance for understanding and developing bioactive compounds from longan fruits.

Background: MADS-box genes play crucial roles in plant vegetative and reproductive growth, especially in inflorescences, flower, and fruit. Pineapple is a typical collective fruit, and a comprehensive analysis of the MADS-box gene family in the development of floral organs of pineapple is still lacking. Results: In this study, the whole-genome survey and expression profiling of the MADS-box family in pineapple were introduced. Forty-four AcMADS genes were identified in pineapple, 39 of them were located on 18 chromosomes and five genes were distributed in five scaffolds. Twenty-two AcMADS genes were defined as 15 pairs of segmental duplication events. Syntenic analysis showed that pineapple is closely related to monocotyledon plants. Most members of the type II subfamily of AcMADS genes had higher expression levels in floral organs compared with type I subfamily, thereby suggesting that AcMADS of type II may play more crucial roles in the development of floral organs of pineapple. Six AcMADS genes have significant tissue-specificity expression, thereby suggesting that they may participate in the formation of one or more floral organs. Conclusions: Our findings not only benefit to reveal the functional characterization of MADS-box genes in the floral organ development of pineapple but also provide additional information for further understanding the formation and development collective fruit.