Antisense Transcription in Plants: A Systematic Review and an Update on cis-NATs of Sugarcane

Author(s)

Santini, Luciane ; Yoshida, Leonardo ; de Oliveira, Kaique Dias ; Lembke, Carolina Gimiliani ; Diniz, Augusto Lima ; Cantelli, Geraldo Cesar ; Nishiyama-Junior, Milton Yutaka ; Souza, Glaucia Mendes

• Document type: Journal article
• Source: INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES; v. 23, n. 19, p. 21-pg., 2022-10-01.

Abstract

Initially, natural antisense transcripts (NATs, natRNAs, or asRNAs) were considered repressors; however, their functions in gene regulation are diverse. Positive, negative, or neutral correlations to the cognate gene expression have been noted. Although the first studies were published about 50 years ago, there is still much to be investigated regarding antisense transcripts in plants. A systematic review of scientific publications available in the Web of Science databases was conducted to contextualize how the studying of antisense transcripts has been addressed. Studies were classified considering three categories: "Natural antisense" (208), artificial antisense used in "Genetic Engineering" (797), or "Natural antisense and Genetic Engineering"-related publications (96). A similar string was used for a systematic search in the NCBI Gene database. Of the 1132 antisense sequences found for plants, only 0.8% were cited in PubMed and had antisense information confirmed. This value was the lowest when compared to fungi (2.9%), bacteria (2.3%), and mice (54.1%). Finally, we present an update for the cis-NATs identified in Saccharum spp. Of the 1413 antisense transcripts found in different experiments, 25 showed concordant expressions, 22 were discordant, 1264 did not correlate with the cognate genes, and 102 presented variable results depending on the experiment. (AU)

• FAPESP's process: 08/52146-0 - Sugarcane signaling and regulatory networks
• Grantee: Glaucia Mendes Souza
• Support Opportunities: Program for Research on Bioenergy (BIOEN) - Thematic Grants
• FAPESP's process: 20/07851-0 - Gene expression validation of genes related to the development and accumulation of biomass in sugarcane
• Grantee: Kaique Dias de Oliveira
• Support Opportunities: Scholarships in Brazil - Scientific Initiation
• FAPESP's process: 20/10876-4 - Bioinformatics tools for data integration on the SUCEST-FUN platform
• Grantee: Geraldo Cesar Cantelli
• Support Opportunities: Scholarships in Brazil - Technical Training Program - Technical Training
• FAPESP's process: 14/50921-8 - Signaling and regulatory network studies associated to the energy cane
• Grantee: Glaucia Mendes Souza
• Support Opportunities: Program for Research on Bioenergy (BIOEN) - Thematic Grants
• FAPESP's process: 18/09867-0 - Obtaining the transgenic energy cane
• Grantee: Luciane Santini Gazaffi
• Support Opportunities: Scholarships in Brazil - Post-Doctoral
• FAPESP's process: 17/02270-6 - Evaluation of contrasting progenies transcriptome for the accumulation of biomass and identification of regulation networks
• Grantee: Augusto Lima Diniz
• Support Opportunities: Scholarships in Brazil - Post-Doctoral