Transcriptional analysis of WUSCHEL-related HOMEOBOX (WOX) genes in Coffea arabica L.
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ORIGINAL ARTICLE
Transcriptional analysis of WUSCHEL-related HOMEOBOX (WOX) genes in Coffea arabica L. Matheus Martins Daude 1 & Thyeiry Winny Dos Santos Silva 1 & Natália Chagas Freitas 2 & Solange Aparecida Ságio 3 & Luciano Vilela Paiva 2 & Horllys Gomes Barreto 1 Received: 18 September 2019 / Accepted: 17 February 2020 # Institute of Molecular Biology, Slovak Academy of Sciences 2020
Abstract Growing coffee faces challenges regarding the development and productivity of plants. To improve coffee tree cultivation and bean productivity and quality, modern techniques of plant biotechnology need to be adopted that allow the development of more productive and resistant varieties. Among these, somatic embryogenesis stands out as a method of great potential for the propagation of coffee plants in vitro. Some genes are directly related to somatic embryogenesis, especially WOX (WUSHELrelated HOMEOBOX) genes, which play a central role in the process. Therefore, the objective of this study was to identify and analyze the expression pattern of WOX genes in arabica coffee, Coffea arabica. In silico analyses identified seven WOX genes in arabica coffee: Coffea arabica WUSHEL-like (CaWUS-like), Coffea arabica WOX1-like (CaWOX1-like), CaWOX3-like, CaWOX4-like, CaWOX5-like, CaWOX9-like and CaWOX11-like. The transcriptional profile of the CaWOX11-like gene suggests that it may be intrinsically related to the embryogenic process and may be used as a molecular marker. In addition, comparisons of the present results with those from the literature indicate that WOX genes are key regulators of somatic embryogenesis in arabica coffee. Keywords Somatic embryogenesis . Gene expression . Bioinformatics . Real time PCR . Molecular marker
Abbreviations CRISPR-Cas9 SE WOX HD HB RT-qPCR EST
Clustered Regularly Interspaced Short Palindromic Repeats – Cas9 Somatic Embryogenesis WUSHEL-related HOMEOBOX Homeodomain Homeobox Reverse Transcription–quantitative real-time PCR Expressed Sequence Tag
Electronic supplementary material The online version of this article (https://doi.org/10.2478/s11756-020-00460-8) contains supplementary material, which is available to authorized users. * Horllys Gomes Barreto [email protected] 1
Laboratory of Molecular Analyses, Department of Life Sciences, Federal University of Tocantins, Palmas, TO, Brazil
2
Central Laboratory of Molecular Biology, Department of Chemistry, Federal University of Lavras, Lavras, MG, Brazil
3
Federal University of Tocantins, Palmas, TO, Brazil
cDNA BLAST ORF PlantTFDB MEME NCBI AR1/LP1 EA1/IA/IA2 CA1/IC1/PC1 WUS WOX1 WOX2 WOX3 WOX4 WOX5 WOX6 WOX7 WOX8 WOX9
complementary DNA Basic Local Alignment Search Open Reading Frame Plant transcription factor database Multiple Expectation Minimization for Motif Elicitation National Center for Biotechnology Information Plantlets and leaves treated with arachidonic acid Embryogenic calli Non-embryogenic calli WUSHEL WUSHEL-related HOMEOBOX 1 WUSHEL-related HOMEOBOX 2 WUSHEL-related HOMEOBOX 3 WUSHEL-related HOMEOBOX 4 WUSHEL-related HOMEOB
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