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De novo assembly of a fruit transcriptome set identifies AmMYB10 as a key regulator of anthocyanin biosynthesis in Aronia melanocarpa

Aronia is a group of deciduous fruiting shrubs, of the Rosaceae family, native to eastern North America. Interest in Aronia has increased because of the high levels of dietary antioxidants in Aronia fruits. Using Illumina RNA-seq transcriptome analysis, this study investigates the molecular mechanis...

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Autores principales: Mahoney, Jonathan D., Wang, Sining, Iorio, Liam A., Wegrzyn, Jill L., Dorris, Matthew, Martin, Derek, Bolling, Bradley W., Brand, Mark H., Wang, Huanzhong
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8951710/
https://www.ncbi.nlm.nih.gov/pubmed/35337270
http://dx.doi.org/10.1186/s12870-022-03518-8
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author Mahoney, Jonathan D.
Wang, Sining
Iorio, Liam A.
Wegrzyn, Jill L.
Dorris, Matthew
Martin, Derek
Bolling, Bradley W.
Brand, Mark H.
Wang, Huanzhong
author_facet Mahoney, Jonathan D.
Wang, Sining
Iorio, Liam A.
Wegrzyn, Jill L.
Dorris, Matthew
Martin, Derek
Bolling, Bradley W.
Brand, Mark H.
Wang, Huanzhong
author_sort Mahoney, Jonathan D.
collection PubMed
description Aronia is a group of deciduous fruiting shrubs, of the Rosaceae family, native to eastern North America. Interest in Aronia has increased because of the high levels of dietary antioxidants in Aronia fruits. Using Illumina RNA-seq transcriptome analysis, this study investigates the molecular mechanisms of polyphenol biosynthesis during Aronia fruit development. Six A. melanocarpa (diploid) accessions were collected at four fruit developmental stages. De novo assembly was performed with 341 million clean reads from 24 samples and assembled into 90,008 transcripts with an average length of 801 bp. The transcriptome had 96.1% complete according to Benchmarking Universal Single-Copy Orthologs (BUSCOs). The differentially expressed genes (DEGs) were identified in flavonoid biosynthetic and metabolic processes, pigment biosynthesis, carbohydrate metabolic processes, and polysaccharide metabolic processes based on significant Gene Ontology (GO) biological terms. The expression of ten anthocyanin biosynthetic genes showed significant up-regulation during fruit development according to the transcriptomic data, which was further confirmed using qRT-PCR expression analyses. Additionally, transcription factor genes were identified among the DEGs. Using a transient expression assay, we confirmed that AmMYB10 induces anthocyanin biosynthesis. The de novo transcriptome data provides a valuable resource for the understanding the molecular mechanisms of fruit anthocyanin biosynthesis in Aronia and species of the Rosaceae family. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12870-022-03518-8.
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spelling pubmed-89517102022-03-26 De novo assembly of a fruit transcriptome set identifies AmMYB10 as a key regulator of anthocyanin biosynthesis in Aronia melanocarpa Mahoney, Jonathan D. Wang, Sining Iorio, Liam A. Wegrzyn, Jill L. Dorris, Matthew Martin, Derek Bolling, Bradley W. Brand, Mark H. Wang, Huanzhong BMC Plant Biol Research Aronia is a group of deciduous fruiting shrubs, of the Rosaceae family, native to eastern North America. Interest in Aronia has increased because of the high levels of dietary antioxidants in Aronia fruits. Using Illumina RNA-seq transcriptome analysis, this study investigates the molecular mechanisms of polyphenol biosynthesis during Aronia fruit development. Six A. melanocarpa (diploid) accessions were collected at four fruit developmental stages. De novo assembly was performed with 341 million clean reads from 24 samples and assembled into 90,008 transcripts with an average length of 801 bp. The transcriptome had 96.1% complete according to Benchmarking Universal Single-Copy Orthologs (BUSCOs). The differentially expressed genes (DEGs) were identified in flavonoid biosynthetic and metabolic processes, pigment biosynthesis, carbohydrate metabolic processes, and polysaccharide metabolic processes based on significant Gene Ontology (GO) biological terms. The expression of ten anthocyanin biosynthetic genes showed significant up-regulation during fruit development according to the transcriptomic data, which was further confirmed using qRT-PCR expression analyses. Additionally, transcription factor genes were identified among the DEGs. Using a transient expression assay, we confirmed that AmMYB10 induces anthocyanin biosynthesis. The de novo transcriptome data provides a valuable resource for the understanding the molecular mechanisms of fruit anthocyanin biosynthesis in Aronia and species of the Rosaceae family. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12870-022-03518-8. BioMed Central 2022-03-25 /pmc/articles/PMC8951710/ /pubmed/35337270 http://dx.doi.org/10.1186/s12870-022-03518-8 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
Mahoney, Jonathan D.
Wang, Sining
Iorio, Liam A.
Wegrzyn, Jill L.
Dorris, Matthew
Martin, Derek
Bolling, Bradley W.
Brand, Mark H.
Wang, Huanzhong
De novo assembly of a fruit transcriptome set identifies AmMYB10 as a key regulator of anthocyanin biosynthesis in Aronia melanocarpa
title De novo assembly of a fruit transcriptome set identifies AmMYB10 as a key regulator of anthocyanin biosynthesis in Aronia melanocarpa
title_full De novo assembly of a fruit transcriptome set identifies AmMYB10 as a key regulator of anthocyanin biosynthesis in Aronia melanocarpa
title_fullStr De novo assembly of a fruit transcriptome set identifies AmMYB10 as a key regulator of anthocyanin biosynthesis in Aronia melanocarpa
title_full_unstemmed De novo assembly of a fruit transcriptome set identifies AmMYB10 as a key regulator of anthocyanin biosynthesis in Aronia melanocarpa
title_short De novo assembly of a fruit transcriptome set identifies AmMYB10 as a key regulator of anthocyanin biosynthesis in Aronia melanocarpa
title_sort de novo assembly of a fruit transcriptome set identifies ammyb10 as a key regulator of anthocyanin biosynthesis in aronia melanocarpa
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8951710/
https://www.ncbi.nlm.nih.gov/pubmed/35337270
http://dx.doi.org/10.1186/s12870-022-03518-8
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