Genome-Wide Characterization and Identification of the YABBY Gene Family in Mango (Mangifera indica)

Abstract

YABBY is a specific transcription factor gene family in plants. It has the typical N-terminal C2C2-type zinc-finger domain and the C-terminal YABBY conservative structure domain, which play an important role in the development of the leaves and floral organs. The YABBY gene family directs leaf polarity in mango, playing an important role in maintaining species specificity. In this study, a total of seven YABBY genes were identified in the mango (Mangifera indica) genome. The seven YABBY family members possessed both typical C2C2 and YABBY domains. A phylogenetic tree was constructed based on the amino acid sequences of the 42 YABBY proteins of mango, Arabidopsis, apple, grape, and peach. The phylogenetic tree indicated that the members of the mango YABBY family could be divided into three subfamilies, including CRC, YAB5, and YAB3. Quantitative real-time PCR showed that the transcription levels of the MiYABBYs were significantly different under biotic and abiotic stresses. The transcription level of MiYABBY7 was significantly down-regulated at 0–72 h after Xanthomonas campestris pv. mangiferaeindicae infection, methyl jasmonate and salicylic acid stresses. The MiYABBY1 transcription level was significantly down-regulated at 0–72 h after Colletotrichum gloeosporioides infection. MiYABBYs were expressed specifically in different leaves and fruit, and MiYABBY6 was significantly up-regulated during leaf and fruit development. However, MiYABBY5 showed a contrary transcriptional pattern during leaf and fruit development. This is first report on the mango YABBY gene family at the genome-wide level. These results will be beneficial for understanding the biological functions and molecular mechanisms of YABBY genes.

Identification, Molecular Characteristics, and Evolution of YABBY Gene Family in Melastoma dodecandrum

“…MdYABBY genes within the same clade had similar motif compositions. Similar results have been identified in A. thaliana [ 3 ], A. carambola [ 4 ], L. sativa [ 6 ], M. indica [ 22 ], Juglans regia and J. mandshurica [ 24 ], indicating that the YABBY gene family is highly conserved in plant.…”

“…This phenomenon is also found in L. sativa , which loses clade YABBY2 [ 6 ]. M. indica only has three clades, including CRC, YAB5, and YAB3 [ 22 ]. In addition, only four clades (CRC/DL, FIL, INO, and YAB2) were found in rice [ 11 ].…”

“…Plants of Melastoma possess great ornamental value, and their fruits can be used for food and medicinal purposes. Recently, the YABBY gene family has been discussed for A. thaliana , Vitis vinifera , Glycine max , Punica granatum , Mangifera indica , Lactuca sativa , Triticum aestivum , Juglans regia , and J. mandshurica [ 2 , 8 , 22 , 23 , 24 , 25 ]. The availability of M. dodecandrum genome has made it convenient to identify gene families [ 26 ].…”

Caffeic Acid O-Methyltransferase Gene Family in Mango (Mangifera indica L.) with Transcriptional Analysis under Biotic and Abiotic Stresses and the Role of MiCOMT1 in Salt Tolerance

“…In mango, X. campestris pv. mangiferaeindicae and C. gloeosporioides are the most representative bacterium and pathogenic fungus of mango, respectively [ 52 ]. We analyzed the MiCOMT genes’ expression levels during infection of the leaves with X. campestris pv.…”

“…We ground the plant material into a powder in liquid nitrogen and extracted it using an RNA extraction kit (centrifugal column type) (TIANGEN, Beijing, China) [83]. We used QuantStudio 6 Flex (Applied Biosystems, Waltham, MA, USA) to determine the expression of the gene and 2 −∆∆CT to calculate it [52,73]. The qRT-PCR primers of the MiCOMT genes were designed via Primer3 Plus (https://www.bioinformatics.nl/cgi%E2%80%93 bin/primer3 plus/primer3 plus.cgi, accessed on 14 March 2023) to determine the specific primers (Table S10) [84].…”