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Genomic identification and expression analysis of nuclear pore proteins in Malus domestica
The nuclear pore complex (NPC), comprised of individual nucleoporin (Nup) proteins, controls nucleo-cytoplasmic transport of RNA and protein, and is important for regulating plant growth and development. However, there are no reports on this complex in fruit tree species. In this study, we identifie...
Autores principales: | , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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Nature Publishing Group UK
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7566457/ https://www.ncbi.nlm.nih.gov/pubmed/33060661 http://dx.doi.org/10.1038/s41598-020-74171-0 |
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author | Zhang, Chenguang An, Na Jia, Peng Zhang, Wei Liang, Jiayan Zhang, Xu Zhou, Hua Ma, Wenchun Han, Mingyu Xing, Libo Ren, Xiaolin |
author_facet | Zhang, Chenguang An, Na Jia, Peng Zhang, Wei Liang, Jiayan Zhang, Xu Zhou, Hua Ma, Wenchun Han, Mingyu Xing, Libo Ren, Xiaolin |
author_sort | Zhang, Chenguang |
collection | PubMed |
description | The nuclear pore complex (NPC), comprised of individual nucleoporin (Nup) proteins, controls nucleo-cytoplasmic transport of RNA and protein, and is important for regulating plant growth and development. However, there are no reports on this complex in fruit tree species. In this study, we identified 38 apple Nups and named them based on the known Arabidopsis thaliana homologs. We also completed bioinformatics analyses of the intron and exon structural data for apple Nups. The proteins encoded by the apple Nups lacked a universally conserved domain. Moreover, a phylogenetic analysis separated the apple and A. thaliana Nups into three groups. The phylogenetic tree indicated that MdNup54 and MdNup62 are most closely related to genes in other Rosaceae species. To characterize the 38 candidate Malus domestica Nups, we measured their stage-specific expression levels. Our tests revealed these proteins were differentially expressed among diverse tissues. We analyzed the expression levels of seven apple Nups in response to an indole-3-acetic acid (IAA) treatment. The phytohormone treatment significantly inhibited apple flowering. A qRT-PCR analysis proved that an IAA treatment significantly inhibited the expression of these seven genes. A preliminary study regarding two members of the Nup62 subcomplex, MdNup54 and MdNup62, confirmed these two proteins can interact with each other. A yeast two-hybrid assay verified that MdNup54 can interact with MdKNAT4 and MdKNAT6. On the basis of the study results, we identified apple NPC and predicted its structure and function. The data generated in this investigation provide important reference material for follow-up research. |
format | Online Article Text |
id | pubmed-7566457 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-75664572020-10-19 Genomic identification and expression analysis of nuclear pore proteins in Malus domestica Zhang, Chenguang An, Na Jia, Peng Zhang, Wei Liang, Jiayan Zhang, Xu Zhou, Hua Ma, Wenchun Han, Mingyu Xing, Libo Ren, Xiaolin Sci Rep Article The nuclear pore complex (NPC), comprised of individual nucleoporin (Nup) proteins, controls nucleo-cytoplasmic transport of RNA and protein, and is important for regulating plant growth and development. However, there are no reports on this complex in fruit tree species. In this study, we identified 38 apple Nups and named them based on the known Arabidopsis thaliana homologs. We also completed bioinformatics analyses of the intron and exon structural data for apple Nups. The proteins encoded by the apple Nups lacked a universally conserved domain. Moreover, a phylogenetic analysis separated the apple and A. thaliana Nups into three groups. The phylogenetic tree indicated that MdNup54 and MdNup62 are most closely related to genes in other Rosaceae species. To characterize the 38 candidate Malus domestica Nups, we measured their stage-specific expression levels. Our tests revealed these proteins were differentially expressed among diverse tissues. We analyzed the expression levels of seven apple Nups in response to an indole-3-acetic acid (IAA) treatment. The phytohormone treatment significantly inhibited apple flowering. A qRT-PCR analysis proved that an IAA treatment significantly inhibited the expression of these seven genes. A preliminary study regarding two members of the Nup62 subcomplex, MdNup54 and MdNup62, confirmed these two proteins can interact with each other. A yeast two-hybrid assay verified that MdNup54 can interact with MdKNAT4 and MdKNAT6. On the basis of the study results, we identified apple NPC and predicted its structure and function. The data generated in this investigation provide important reference material for follow-up research. Nature Publishing Group UK 2020-10-15 /pmc/articles/PMC7566457/ /pubmed/33060661 http://dx.doi.org/10.1038/s41598-020-74171-0 Text en © The Author(s) 2020 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 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/. |
spellingShingle | Article Zhang, Chenguang An, Na Jia, Peng Zhang, Wei Liang, Jiayan Zhang, Xu Zhou, Hua Ma, Wenchun Han, Mingyu Xing, Libo Ren, Xiaolin Genomic identification and expression analysis of nuclear pore proteins in Malus domestica |
title | Genomic identification and expression analysis of nuclear pore proteins in Malus domestica |
title_full | Genomic identification and expression analysis of nuclear pore proteins in Malus domestica |
title_fullStr | Genomic identification and expression analysis of nuclear pore proteins in Malus domestica |
title_full_unstemmed | Genomic identification and expression analysis of nuclear pore proteins in Malus domestica |
title_short | Genomic identification and expression analysis of nuclear pore proteins in Malus domestica |
title_sort | genomic identification and expression analysis of nuclear pore proteins in malus domestica |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7566457/ https://www.ncbi.nlm.nih.gov/pubmed/33060661 http://dx.doi.org/10.1038/s41598-020-74171-0 |
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