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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...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2022
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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. |
format | Online Article Text |
id | pubmed-9696990 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
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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