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. 2023 Sep 23;14:5947. doi: 10.1038/s41467-023-41719-3

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© The Author(s) 2023

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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 2 — The phylogenetic tree of the RopB clan, rooted at mid-point for visualization purpose, comprises 182 leaves and was inferred from a trimmed alignment of 229 sites. The label of a leaf corresponds to the NCBI protein id of the putative receptor, followed by the name of the encoding species. The most outer label in bold indicates the sequence of a putative LCP encoded in the genomic vicinity of a ropB homolog (leaf) whenever detected. The three-color strips correspond to (i) the genomic orientation of the candidate receptor-LCP pair, (ii) the intergenic distance between the receptor and LCP ORFs and+ (iii) the confidence score, ranging from 1 to the 27 of the Shine-Dalgarno RBS motif identified upstream from the LCP’s ORF (white meaning no RBS detected). Tips without labels correspond to collapsed receptors encoded by the same species and without LCP detected in the vicinity.