2022
DOI: 10.1016/j.plantsci.2022.111479
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Expression of coffee florigen CaFT1 reveals a sustained floral induction window associated with asynchronous flowering in tropical perennials

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Cited by 14 publications
(17 citation statements)
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“…After exploring the C. arabica sub-genome organization, we performed a regulatory network analysis to understand its transcriptional activation and regulatory modules related to leaf metabolism. To do so, we used 24 RNAseq libraries previously published from fully expanded leaves collected during the morning and under a heterogeneous set of environmental conditions (Cardon et al 2022).…”
Section: Resultsmentioning
confidence: 99%
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“…After exploring the C. arabica sub-genome organization, we performed a regulatory network analysis to understand its transcriptional activation and regulatory modules related to leaf metabolism. To do so, we used 24 RNAseq libraries previously published from fully expanded leaves collected during the morning and under a heterogeneous set of environmental conditions (Cardon et al 2022).…”
Section: Resultsmentioning
confidence: 99%
“…Supplemental Table S1 shows details of each Bioproject, from which approximately 174 billion nucleic bases in 81 RNAseq libraries are publicly available through SRA. Multiple coffee tissues such as beans (Cheng et al 2020; Cheng et al 2018), leaves (de Oliveira et al 2020; Cardon et al 2022), seeds (Stavrinides et al 2020) and roots (dos Santos et al 2019) were used to find exons and predict genes in this study.…”
Section: Methodsmentioning
confidence: 99%
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“…To search for putative conserved miRNAs and their precursors, we applied an adapted algorithm previously described by De Souza Gomes et al (2011) to the genome and transcriptome databases of C. canephora (Denoeud et al, 2014). The second prediction of conserved and novel miRNAs was made from RNA‐seq libraries of C. arabica (Cardon et al, 2022; de Oliveira et al, 2020), in which mapped small RNA (sRNA) reads were used as input to two different computational pipelines for the discovery of miRNAs – a stringent pipeline for de novo identification and a relaxed pipeline for identification of conserved “known” miRNAs (Jeong et al, 2013). Steps in both pipelines involved processing using Perl scripts as described earlier (Jeong et al, 2011), with a modified version of miREAP (https://sourceforge.net/projects/mireap/) and CentroidFold (Sato et al, 2009).…”
Section: Methodsmentioning
confidence: 99%
“…Orthologs of FT have been identified in several species such as rice (Tamaki et al, 2007), coffee (Cardon et al, 2022) and many others (Pin and Nilsson, 2012). FT belongs to the PHOSPHATIDYLETHANOLAMINE-BINDING PROTEIN (PEBP) family, which is conserved in plants and animals (Jin et al, 2021).…”
Section: Introductionmentioning
confidence: 99%