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. 2017 Nov 21;7:15880. doi: 10.1038/s41598-017-15963-9

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© The Author(s) 2017

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Experimental design, methodology and RNA-Seq pipeline used in study. Panel A and B show the graphical representation of grafting experiments (A) scion of cotton leaf curl disease (CLCuD) infected Gossypium hirsutum was used on a rootstock of G arboreum; asymptomatic leaves of CLCuD were collected for RNA extraction and sequencing. (B) Leaves showing symptoms of CLCuD were collected for RNA extraction and sequencing. (C) Shows an asymptomatic CLCuD free leaf of G. arboreum. (D) Shows a leaf with very mild symptoms of CLCuD including vein swelling and darkening, highlighted with black arrows. (E) Shows the workflow of the RNA-Seq experiment and the tools used at each step.