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Solanum tuberosum Microtuber Development under Darkness Unveiled through RNAseq Transcriptomic Analysis

Potato microtuber (MT) development through in vitro techniques are ideal propagules for producing high quality potato plants. MT formation is influenced by several factors, i.e., photoperiod, sucrose, hormones, and osmotic stress. We have previously developed a protocol of MT induction in medium wit...

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Autores principales: Valencia-Lozano, Eliana, Herrera-Isidrón, Lisset, Flores-López, Jorge Abraham, Recoder-Meléndez, Osiel Salvador, Barraza, Aarón, Cabrera-Ponce, José Luis
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9696990/
https://www.ncbi.nlm.nih.gov/pubmed/36430314
http://dx.doi.org/10.3390/ijms232213835
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author Valencia-Lozano, Eliana
Herrera-Isidrón, Lisset
Flores-López, Jorge Abraham
Recoder-Meléndez, Osiel Salvador
Barraza, Aarón
Cabrera-Ponce, José Luis
author_facet Valencia-Lozano, Eliana
Herrera-Isidrón, Lisset
Flores-López, Jorge Abraham
Recoder-Meléndez, Osiel Salvador
Barraza, Aarón
Cabrera-Ponce, José Luis
author_sort Valencia-Lozano, Eliana
collection PubMed
description Potato microtuber (MT) development through in vitro techniques are ideal propagules for producing high quality potato plants. MT formation is influenced by several factors, i.e., photoperiod, sucrose, hormones, and osmotic stress. We have previously developed a protocol of MT induction in medium with sucrose (8% w/v), gelrite (6g/L), and 2iP as cytokinin under darkness. To understand the molecular mechanisms involved, we performed a transcriptome-wide analysis. Here we show that 1715 up- and 1624 down-regulated genes were involved in this biological process. Through the protein–protein interaction (PPI) network analyses performed in the STRING database (v11.5), we found 299 genes tightly associated in 14 clusters. Two major clusters of up-regulated proteins fundamental for life growth and development were found: 29 ribosomal proteins (RPs) interacting with 6 PEBP family members and 117 cell cycle (CC) proteins. The PPI network of up-regulated transcription factors (TFs) revealed that at least six TFs–MYB43, TSF, bZIP27, bZIP43, HAT4 and WOX9–may be involved during MTs development. The PPI network of down-regulated genes revealed a cluster of 83 proteins involved in light and photosynthesis, 110 in response to hormone, 74 in hormone mediate signaling pathway and 22 related to aging.
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spelling pubmed-96969902022-11-26 Solanum tuberosum Microtuber Development under Darkness Unveiled through RNAseq Transcriptomic Analysis Valencia-Lozano, Eliana Herrera-Isidrón, Lisset Flores-López, Jorge Abraham Recoder-Meléndez, Osiel Salvador Barraza, Aarón Cabrera-Ponce, José Luis Int J Mol Sci Article Potato microtuber (MT) development through in vitro techniques are ideal propagules for producing high quality potato plants. MT formation is influenced by several factors, i.e., photoperiod, sucrose, hormones, and osmotic stress. We have previously developed a protocol of MT induction in medium with sucrose (8% w/v), gelrite (6g/L), and 2iP as cytokinin under darkness. To understand the molecular mechanisms involved, we performed a transcriptome-wide analysis. Here we show that 1715 up- and 1624 down-regulated genes were involved in this biological process. Through the protein–protein interaction (PPI) network analyses performed in the STRING database (v11.5), we found 299 genes tightly associated in 14 clusters. Two major clusters of up-regulated proteins fundamental for life growth and development were found: 29 ribosomal proteins (RPs) interacting with 6 PEBP family members and 117 cell cycle (CC) proteins. The PPI network of up-regulated transcription factors (TFs) revealed that at least six TFs–MYB43, TSF, bZIP27, bZIP43, HAT4 and WOX9–may be involved during MTs development. The PPI network of down-regulated genes revealed a cluster of 83 proteins involved in light and photosynthesis, 110 in response to hormone, 74 in hormone mediate signaling pathway and 22 related to aging. MDPI 2022-11-10 /pmc/articles/PMC9696990/ /pubmed/36430314 http://dx.doi.org/10.3390/ijms232213835 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Valencia-Lozano, Eliana
Herrera-Isidrón, Lisset
Flores-López, Jorge Abraham
Recoder-Meléndez, Osiel Salvador
Barraza, Aarón
Cabrera-Ponce, José Luis
Solanum tuberosum Microtuber Development under Darkness Unveiled through RNAseq Transcriptomic Analysis
title Solanum tuberosum Microtuber Development under Darkness Unveiled through RNAseq Transcriptomic Analysis
title_full Solanum tuberosum Microtuber Development under Darkness Unveiled through RNAseq Transcriptomic Analysis
title_fullStr Solanum tuberosum Microtuber Development under Darkness Unveiled through RNAseq Transcriptomic Analysis
title_full_unstemmed Solanum tuberosum Microtuber Development under Darkness Unveiled through RNAseq Transcriptomic Analysis
title_short Solanum tuberosum Microtuber Development under Darkness Unveiled through RNAseq Transcriptomic Analysis
title_sort solanum tuberosum microtuber development under darkness unveiled through rnaseq transcriptomic analysis
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9696990/
https://www.ncbi.nlm.nih.gov/pubmed/36430314
http://dx.doi.org/10.3390/ijms232213835
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