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Background  Pedicel orientation can affect the female flower orientation and seed yield in cucumber.  A spontaneous mutant possessing upward growth of pedicels was identified in the wild type inbred strain 9930 and named  upward-pedicel  ( up ). The morphological and genetic analyses of  up  were performed in this study. In order to clone the  up  gene, 933 F 2  individuals and 524 BC 1  individuals derived from C-8-6 (WT) and  up  were used for map-based cloning.    Results   up  was mapped to a 35.2 kb physical interval on chromosome 1, which contains three predicted genes. Sequencing analysis revealed that a 5-bp deletion was found in the second exon of  Csa1G535800,  and it led to a frameshift mutation resulting in a premature stop codon. The candidate gene of  CsUp  ( Csa1G535800 ) was further confirmed via genomic and cDNA sequencing in biparental and natural cucumber populations. Sequencing data showed that a 4-bp deletion was found in the sixth exon of  Csa1G535800  in CGN19839, another inbred line, and there was also a mutation of an amino acid in  Csa1G535800  that could contribute to the upward growth of pedicels in CGN19839. Moreover, it was found that  Csa1G535800  exhibited strong expression in the pedicel of WT, suggesting its important role in development of pedicel orientation. Thus,  Csa1G535800  was considered to be the candidate gene of  CsUp .    Conclusions   CsUp  encodes an Auxilin-like protein and controls pedicel orientation in cucumber. The identification of  CsUp  may help us to understand the mechanism of pedicel orientation development and allow for investigation of novel functions of Auxilin-like proteins in cucumber.    Electronic supplementary material  The online version of this article (10.1186/s12870-019-1772-4) contains supplementary material, which is available to authorized users.

bmc plant biology

Mapping and identification of CsUp, a gene encoding an Auxilin-like protein, as a putative candidate gene for the upward-pedicel mutation (up) in cucumber