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Background  Auxin plays an important role in regulating plant growth and development as well as in the response of plants to abiotic stresses. Auxin is transported by three kinds of major protein families, including the AUXIN RESISTANT 1/LIKE AUX1 (AUX⁄LAX) influx carriers, the PIN-FORMED (PIN) efflux carriers and the ATP binding cassette B/P-glycoprotein/Multidrug-resistance (ABCB/MDR/PGP) efflux/condition carriers. The biological function of several auxin transporter genes has been well characterized in  Arabidopsis thaliana . However, their function in response to exogenous auxin and abiotic stresses in watermelon ( Citrullus lanatus . L) remained unknown.    Results  Here, the latest updated watermelon genome was used to characterise the  ClLAX ,  ClPIN  and  ClABCB  family genes from watermelon. The genome-wide analysis of the  ClLAX ,  ClPIN  and  ClABCB  family genes, including chromosome localisation, gene structure, and phylogenic relationships, was carried out. Seven  ClLAXs , 11  ClPINs  and 15  ClABCBs  were mapped on 10 watermelon chromosomes. The expression profiles of the  ClLAX ,  ClPIN  and  ClABCB  genes under exogenous indole-3-acetic acid and various abiotic stresses (salt, drought, and cold stresses) treatments were performed by quantitative real-time PCR (qRT-PCR). The transcriptional level of majority  ClLAX ,  ClPIN  and  ClABCB  genes were changed by abiotic stresses in both shoots and roots. We also analysed the expression levels of  ClLAX ,  ClPIN  and  ClABCB  genes in graft response.    Conclusion  Analysis of the expression patterns of  ClLAX ,  ClPIN  and  ClABCB  genes under salt, drought, cold treatment and grafting response helps us to understand the possible roles of auxin transporter genes in watermelon adaptation to environmental stresses.    Electronic supplementary material  The online version of this article (doi:10.1186/s12863-017-0500-z) contains supplementary material, which is available to authorized users.

bmc genomic data

Genome-wide identification and expression analysis of ClLAX, ClPIN and ClABCB genes families in Citrullus lanatus under various abiotic stresses and grafting