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Transcriptomic analysis of tuberous root in two sweet potato varieties reveals the important genes and regulatory pathways in tuberous root development
BACKGROUND: Tuberous root formation and development is a complex process in sweet potato, which is regulated by multiple genes and environmental factors. However, the regulatory mechanism of tuberous root development is unclear. RESULTS: In this study, the transcriptome of fibrous roots (R0) and tub...
Autores principales: | , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9235109/ https://www.ncbi.nlm.nih.gov/pubmed/35761189 http://dx.doi.org/10.1186/s12864-022-08670-x |
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author | Cai, Zhaoqin Cai, Zhipeng Huang, Jingli Wang, Aiqin Ntambiyukuri, Aaron Chen, Bimei Zheng, Ganghui Li, Huifeng Huang, Yongmei Zhan, Jie Xiao, Dong He, Longfei |
author_facet | Cai, Zhaoqin Cai, Zhipeng Huang, Jingli Wang, Aiqin Ntambiyukuri, Aaron Chen, Bimei Zheng, Ganghui Li, Huifeng Huang, Yongmei Zhan, Jie Xiao, Dong He, Longfei |
author_sort | Cai, Zhaoqin |
collection | PubMed |
description | BACKGROUND: Tuberous root formation and development is a complex process in sweet potato, which is regulated by multiple genes and environmental factors. However, the regulatory mechanism of tuberous root development is unclear. RESULTS: In this study, the transcriptome of fibrous roots (R0) and tuberous roots in three developmental stages (Rl, R2, R3) were analyzed in two sweet potato varieties, GJS-8 and XGH. A total of 22,914 and 24,446 differentially expressed genes (DEGs) were identified in GJS-8 and XGH respectively, 15,920 differential genes were shared by GJS-8 and XGH. KEGG pathway enrichment analysis showed that the DEGs shared by GJS-8 and XGH were mainly involved in “plant hormone signal transduction” “starch and sucrose metabolism” and “MAPK signal transduction”. Trihelix transcription factor (Tai6.25300) was found to be closely related to tuberous root enlargement by the comprehensive analysis of these DEGs and weighted gene co-expression network analysis (WGCNA). CONCLUSION: A hypothetical model of genetic regulatory network for tuberous root development of sweet potato is proposed, which emphasizes that some specific signal transduction pathways like “plant hormone signal transduction” “Ca(2+)signal” “MAPK signal transduction” and metabolic processes including “starch and sucrose metabolism” and “cell cycle and cell wall metabolism” are related to tuberous root development in sweet potato. These results provide new insights into the molecular mechanism of tuberous root development in sweet potato. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12864-022-08670-x. |
format | Online Article Text |
id | pubmed-9235109 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-92351092022-06-28 Transcriptomic analysis of tuberous root in two sweet potato varieties reveals the important genes and regulatory pathways in tuberous root development Cai, Zhaoqin Cai, Zhipeng Huang, Jingli Wang, Aiqin Ntambiyukuri, Aaron Chen, Bimei Zheng, Ganghui Li, Huifeng Huang, Yongmei Zhan, Jie Xiao, Dong He, Longfei BMC Genomics Research BACKGROUND: Tuberous root formation and development is a complex process in sweet potato, which is regulated by multiple genes and environmental factors. However, the regulatory mechanism of tuberous root development is unclear. RESULTS: In this study, the transcriptome of fibrous roots (R0) and tuberous roots in three developmental stages (Rl, R2, R3) were analyzed in two sweet potato varieties, GJS-8 and XGH. A total of 22,914 and 24,446 differentially expressed genes (DEGs) were identified in GJS-8 and XGH respectively, 15,920 differential genes were shared by GJS-8 and XGH. KEGG pathway enrichment analysis showed that the DEGs shared by GJS-8 and XGH were mainly involved in “plant hormone signal transduction” “starch and sucrose metabolism” and “MAPK signal transduction”. Trihelix transcription factor (Tai6.25300) was found to be closely related to tuberous root enlargement by the comprehensive analysis of these DEGs and weighted gene co-expression network analysis (WGCNA). CONCLUSION: A hypothetical model of genetic regulatory network for tuberous root development of sweet potato is proposed, which emphasizes that some specific signal transduction pathways like “plant hormone signal transduction” “Ca(2+)signal” “MAPK signal transduction” and metabolic processes including “starch and sucrose metabolism” and “cell cycle and cell wall metabolism” are related to tuberous root development in sweet potato. These results provide new insights into the molecular mechanism of tuberous root development in sweet potato. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12864-022-08670-x. BioMed Central 2022-06-27 /pmc/articles/PMC9235109/ /pubmed/35761189 http://dx.doi.org/10.1186/s12864-022-08670-x Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open AccessThis 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/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data. |
spellingShingle | Research Cai, Zhaoqin Cai, Zhipeng Huang, Jingli Wang, Aiqin Ntambiyukuri, Aaron Chen, Bimei Zheng, Ganghui Li, Huifeng Huang, Yongmei Zhan, Jie Xiao, Dong He, Longfei Transcriptomic analysis of tuberous root in two sweet potato varieties reveals the important genes and regulatory pathways in tuberous root development |
title | Transcriptomic analysis of tuberous root in two sweet potato varieties reveals the important genes and regulatory pathways in tuberous root development |
title_full | Transcriptomic analysis of tuberous root in two sweet potato varieties reveals the important genes and regulatory pathways in tuberous root development |
title_fullStr | Transcriptomic analysis of tuberous root in two sweet potato varieties reveals the important genes and regulatory pathways in tuberous root development |
title_full_unstemmed | Transcriptomic analysis of tuberous root in two sweet potato varieties reveals the important genes and regulatory pathways in tuberous root development |
title_short | Transcriptomic analysis of tuberous root in two sweet potato varieties reveals the important genes and regulatory pathways in tuberous root development |
title_sort | transcriptomic analysis of tuberous root in two sweet potato varieties reveals the important genes and regulatory pathways in tuberous root development |
topic | Research |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9235109/ https://www.ncbi.nlm.nih.gov/pubmed/35761189 http://dx.doi.org/10.1186/s12864-022-08670-x |
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