Methylome and transcriptome analyses of three different degrees of albinism in apple seedlings

BACKGROUND: Leaf colour mutations are universally expressed at the seedling stage and are ideal materials for exploring the chlorophyll biosynthesis pathway, carotenoid metabolism and the flavonoid biosynthesis pathway in plants. RESULTS: In this research, we analysed the different degrees of albini...

Descripción completa

Detalles Bibliográficos
Autores principales: Sun, Tingting, Zhang, Junke, Zhang, Qiang, Li, Xingliang, Li, Minji, Yang, Yuzhang, Zhou, Jia, Wei, Qinping, Zhou, Beibei
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2022
Materias:
Research
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9016989/
https://www.ncbi.nlm.nih.gov/pubmed/35439938
http://dx.doi.org/10.1186/s12864-022-08535-3
_version_ 1784688676819697664
author Sun, Tingting
Zhang, Junke
Zhang, Qiang
Li, Xingliang
Li, Minji
Yang, Yuzhang
Zhou, Jia
Wei, Qinping
Zhou, Beibei
author_facet Sun, Tingting
Zhang, Junke
Zhang, Qiang
Li, Xingliang
Li, Minji
Yang, Yuzhang
Zhou, Jia
Wei, Qinping
Zhou, Beibei
author_sort Sun, Tingting
collection PubMed
description BACKGROUND: Leaf colour mutations are universally expressed at the seedling stage and are ideal materials for exploring the chlorophyll biosynthesis pathway, carotenoid metabolism and the flavonoid biosynthesis pathway in plants. RESULTS: In this research, we analysed the different degrees of albinism in apple (Malus domestica) seedlings, including white-leaf mutants (WM), piebald leaf mutants (PM), light-green leaf mutants (LM) and normal leaves (NL) using bisulfite sequencing (BS-seq) and RNA sequencing (RNA-seq). There were 61,755, 79,824, and 74,899 differentially methylated regions (DMRs) and 7566, 3660, and 3546 differentially expressed genes (DEGs) identified in the WM/NL, PM/NL and LM/NL comparisons, respectively. CONCLUSION: The analysis of the methylome and transcriptome showed that 9 DMR-associated DEGs were involved in the carotenoid metabolism and flavonoid biosynthesis pathway. The expression of different transcription factors (TFs) may also influence the chlorophyll biosynthesis pathway, carotenoid metabolism and the flavonoid biosynthesis pathway in apple leaf mutants. This study provides a new method for understanding the differences in the formation of apple seedlings with different degrees of albinism. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12864-022-08535-3.
format Online
Article
Text
id pubmed-9016989
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher BioMed Central
record_format MEDLINE/PubMed
spelling pubmed-90169892022-04-20 Methylome and transcriptome analyses of three different degrees of albinism in apple seedlings Sun, Tingting Zhang, Junke Zhang, Qiang Li, Xingliang Li, Minji Yang, Yuzhang Zhou, Jia Wei, Qinping Zhou, Beibei BMC Genomics Research BACKGROUND: Leaf colour mutations are universally expressed at the seedling stage and are ideal materials for exploring the chlorophyll biosynthesis pathway, carotenoid metabolism and the flavonoid biosynthesis pathway in plants. RESULTS: In this research, we analysed the different degrees of albinism in apple (Malus domestica) seedlings, including white-leaf mutants (WM), piebald leaf mutants (PM), light-green leaf mutants (LM) and normal leaves (NL) using bisulfite sequencing (BS-seq) and RNA sequencing (RNA-seq). There were 61,755, 79,824, and 74,899 differentially methylated regions (DMRs) and 7566, 3660, and 3546 differentially expressed genes (DEGs) identified in the WM/NL, PM/NL and LM/NL comparisons, respectively. CONCLUSION: The analysis of the methylome and transcriptome showed that 9 DMR-associated DEGs were involved in the carotenoid metabolism and flavonoid biosynthesis pathway. The expression of different transcription factors (TFs) may also influence the chlorophyll biosynthesis pathway, carotenoid metabolism and the flavonoid biosynthesis pathway in apple leaf mutants. This study provides a new method for understanding the differences in the formation of apple seedlings with different degrees of albinism. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12864-022-08535-3. BioMed Central 2022-04-19 /pmc/articles/PMC9016989/ /pubmed/35439938 http://dx.doi.org/10.1186/s12864-022-08535-3 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
Sun, Tingting
Zhang, Junke
Zhang, Qiang
Li, Xingliang
Li, Minji
Yang, Yuzhang
Zhou, Jia
Wei, Qinping
Zhou, Beibei
Methylome and transcriptome analyses of three different degrees of albinism in apple seedlings
title Methylome and transcriptome analyses of three different degrees of albinism in apple seedlings
title_full Methylome and transcriptome analyses of three different degrees of albinism in apple seedlings
title_fullStr Methylome and transcriptome analyses of three different degrees of albinism in apple seedlings
title_full_unstemmed Methylome and transcriptome analyses of three different degrees of albinism in apple seedlings
title_short Methylome and transcriptome analyses of three different degrees of albinism in apple seedlings
title_sort methylome and transcriptome analyses of three different degrees of albinism in apple seedlings
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9016989/
https://www.ncbi.nlm.nih.gov/pubmed/35439938
http://dx.doi.org/10.1186/s12864-022-08535-3
work_keys_str_mv AT suntingting methylomeandtranscriptomeanalysesofthreedifferentdegreesofalbinisminappleseedlings
AT zhangjunke methylomeandtranscriptomeanalysesofthreedifferentdegreesofalbinisminappleseedlings
AT zhangqiang methylomeandtranscriptomeanalysesofthreedifferentdegreesofalbinisminappleseedlings
AT lixingliang methylomeandtranscriptomeanalysesofthreedifferentdegreesofalbinisminappleseedlings
AT liminji methylomeandtranscriptomeanalysesofthreedifferentdegreesofalbinisminappleseedlings
AT yangyuzhang methylomeandtranscriptomeanalysesofthreedifferentdegreesofalbinisminappleseedlings
AT zhoujia methylomeandtranscriptomeanalysesofthreedifferentdegreesofalbinisminappleseedlings
AT weiqinping methylomeandtranscriptomeanalysesofthreedifferentdegreesofalbinisminappleseedlings
AT zhoubeibei methylomeandtranscriptomeanalysesofthreedifferentdegreesofalbinisminappleseedlings

Ejemplares similares