Chromosome-Level Genome Assembly for Acer pseudosieboldianum and Highlights to Mechanisms for Leaf Color and Shape Change

(Pax) Komarov is an ornamental plant with prominent potential and is naturally distributed in Northeast China. Here, we obtained a chromosome-scale genome assembly of combining HiFi and Hi-C data, and the final assembled genome size was 690.24 Mb and consisted of 287 contigs, with a contig N50 value...

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Published inFrontiers in plant science Vol. 13; p. 850054
Main Authors Li, Xiang, Cai, Kewei, Han, Zhiming, Zhang, Shikai, Sun, Anran, Xie, Ying, Han, Rui, Guo, Ruixue, Tigabu, Mulualem, Sederoff, Ronald, Pei, Xiaona, Zhao, Chunli, Zhao, Xiyang
Format Journal Article
LanguageEnglish
Published Switzerland Frontiers Media S.A 03.03.2022
Subjects
Acer pseudosieboldianum
Bioinformatics and Systems Biology
Bioinformatik och systembiologi
Forest Science
genome assembly
Hi-C
HiFi
PacBio SMRT
Plant Science
Skogsvetenskap
TCPs
Acer pseudosieboldianum
PacBio SMRT
Hi-C
TCPs
HiFi
genome assembly
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Summary:(Pax) Komarov is an ornamental plant with prominent potential and is naturally distributed in Northeast China. Here, we obtained a chromosome-scale genome assembly of combining HiFi and Hi-C data, and the final assembled genome size was 690.24 Mb and consisted of 287 contigs, with a contig N50 value of 5.7 Mb and a BUSCO complete gene percentage of 98.4%. Genome evolution analysis showed that an ancient duplication occurred in . Phylogenetic analyses revealed that Aceraceae family could be incorporated into Sapindaceae, consistent with the present Angiosperm Phylogeny Group system. We further construct a gene-to-metabolite correlation network and identified key genes and metabolites that might be involved in anthocyanin biosynthesis pathways during leaf color change. Additionally, we identified crucial teosinte branched1, cycloidea, and proliferating cell factors (TCP) transcription factors that might be involved in leaf morphology regulation of , and . Overall, this reference genome is a valuable resource for evolutionary history studies of and lays a fundamental foundation for its molecular breeding.
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Edited by: Nunzio D’Agostino, University of Naples Federico II, Italy
Reviewed by: Liping Rong, Yanbian University, China; Xin Yi, Institute of Botany, Chinese Academy of Sciences (CAS), China
These authors have contributed equally to this work
This article was submitted to Plant Bioinformatics, a section of the journal Frontiers in Plant Science
ISSN:1664-462X
1664-462X
DOI:10.3389/fpls.2022.850054