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Integrated microRNA and mRNA expression profiling reveals a complex network regulating pomegranate (Punica granatum L.) seed hardness

The breeding of new soft-seeded pomegranate cultivars provides new products for the market and increases farmers’ incomes, yet the genetic architecture mediating seed hardness is largely unknown. Here, the seed hardness and hundred-seed weights of 26 cultivars were determined in 2 successive years....

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Autores principales: Luo, Xiang, Cao, Da, Zhang, Jianfeng, Chen, Li, Xia, Xiaocong, Li, Haoxian, Zhao, Diguang, Zhang, Fuhong, Xue, Hui, Chen, Lina, Li, Yongzhou, Cao, Shangyin
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6006261/
https://www.ncbi.nlm.nih.gov/pubmed/29915181
http://dx.doi.org/10.1038/s41598-018-27664-y
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author Luo, Xiang
Cao, Da
Zhang, Jianfeng
Chen, Li
Xia, Xiaocong
Li, Haoxian
Zhao, Diguang
Zhang, Fuhong
Xue, Hui
Chen, Lina
Li, Yongzhou
Cao, Shangyin
author_facet Luo, Xiang
Cao, Da
Zhang, Jianfeng
Chen, Li
Xia, Xiaocong
Li, Haoxian
Zhao, Diguang
Zhang, Fuhong
Xue, Hui
Chen, Lina
Li, Yongzhou
Cao, Shangyin
author_sort Luo, Xiang
collection PubMed
description The breeding of new soft-seeded pomegranate cultivars provides new products for the market and increases farmers’ incomes, yet the genetic architecture mediating seed hardness is largely unknown. Here, the seed hardness and hundred-seed weights of 26 cultivars were determined in 2 successive years. We conducted miRNA and mRNA sequencing to analyse the seeds of two varieties of Punica granatum: soft-seeded Tunisia and hard-seeded Sanbai, at 60 and 120 d after flowering. Seed hardness was strongly positively correlated with hundred-seed weight. We detected 25 and 12 differentially expressed miRNA–mRNA pairs with negative regulatory relationships between the two genotypes at 60 and 120 d after flowering, respectively. These miRNA–mRNA pairs mainly regulated seed hardness by altering cell wall structure. Transcription factors including NAC1, WRKY and MYC, which are involved in seed hardness, were targeted by differentially expressed mdm-miR164e and mdm-miR172b. Thus, seed hardness is the result of a complex biological process regulated by a miRNA–mRNA network in pomegranate. These results will help us understand the complexity of seed hardness and help to elucidate the miRNA-mediated molecular mechanisms that contribute to seed hardness in pomegranate.
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spelling pubmed-60062612018-06-26 Integrated microRNA and mRNA expression profiling reveals a complex network regulating pomegranate (Punica granatum L.) seed hardness Luo, Xiang Cao, Da Zhang, Jianfeng Chen, Li Xia, Xiaocong Li, Haoxian Zhao, Diguang Zhang, Fuhong Xue, Hui Chen, Lina Li, Yongzhou Cao, Shangyin Sci Rep Article The breeding of new soft-seeded pomegranate cultivars provides new products for the market and increases farmers’ incomes, yet the genetic architecture mediating seed hardness is largely unknown. Here, the seed hardness and hundred-seed weights of 26 cultivars were determined in 2 successive years. We conducted miRNA and mRNA sequencing to analyse the seeds of two varieties of Punica granatum: soft-seeded Tunisia and hard-seeded Sanbai, at 60 and 120 d after flowering. Seed hardness was strongly positively correlated with hundred-seed weight. We detected 25 and 12 differentially expressed miRNA–mRNA pairs with negative regulatory relationships between the two genotypes at 60 and 120 d after flowering, respectively. These miRNA–mRNA pairs mainly regulated seed hardness by altering cell wall structure. Transcription factors including NAC1, WRKY and MYC, which are involved in seed hardness, were targeted by differentially expressed mdm-miR164e and mdm-miR172b. Thus, seed hardness is the result of a complex biological process regulated by a miRNA–mRNA network in pomegranate. These results will help us understand the complexity of seed hardness and help to elucidate the miRNA-mediated molecular mechanisms that contribute to seed hardness in pomegranate. Nature Publishing Group UK 2018-06-18 /pmc/articles/PMC6006261/ /pubmed/29915181 http://dx.doi.org/10.1038/s41598-018-27664-y Text en © The Author(s) 2018 Open Access This 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 license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license 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 license, visit http://creativecommons.org/licenses/by/4.0/.
spellingShingle Article
Luo, Xiang
Cao, Da
Zhang, Jianfeng
Chen, Li
Xia, Xiaocong
Li, Haoxian
Zhao, Diguang
Zhang, Fuhong
Xue, Hui
Chen, Lina
Li, Yongzhou
Cao, Shangyin
Integrated microRNA and mRNA expression profiling reveals a complex network regulating pomegranate (Punica granatum L.) seed hardness
title Integrated microRNA and mRNA expression profiling reveals a complex network regulating pomegranate (Punica granatum L.) seed hardness
title_full Integrated microRNA and mRNA expression profiling reveals a complex network regulating pomegranate (Punica granatum L.) seed hardness
title_fullStr Integrated microRNA and mRNA expression profiling reveals a complex network regulating pomegranate (Punica granatum L.) seed hardness
title_full_unstemmed Integrated microRNA and mRNA expression profiling reveals a complex network regulating pomegranate (Punica granatum L.) seed hardness
title_short Integrated microRNA and mRNA expression profiling reveals a complex network regulating pomegranate (Punica granatum L.) seed hardness
title_sort integrated microrna and mrna expression profiling reveals a complex network regulating pomegranate (punica granatum l.) seed hardness
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6006261/
https://www.ncbi.nlm.nih.gov/pubmed/29915181
http://dx.doi.org/10.1038/s41598-018-27664-y
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