Li, Xiang and Cai, Kewei and Han, Zhiming and Zhang, Shikai and Sun, Anran and Xie, Ying and Han, Rui and Guo, Ruixue and Tigabu, Mulualem and Sederoff, Ronald and Pei, Xiaona and Zhao, Chunli and Zhao, Xiyang
(2022).
Chromosome-Level Genome Assembly for Acer pseudosieboldianum and Highlights to Mechanisms for Leaf Color and Shape Change.
Frontiers in Plant Science. 13
, 850054
[Research article]
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Abstract
Acer pseudosieboldianum (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 A. pseudosieboldianum 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 A. pseudosieboldianum. 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 A. pseudosieboldianum, Acer yangbiense and Acer truncatum. Overall, this reference genome is a valuable resource for evolutionary history studies of A. pseudosieboldianum and lays a fundamental foundation for its molecular breeding.
| Authors/Creators: | Li, Xiang and Cai, Kewei and Han, Zhiming and Zhang, Shikai and Sun, Anran and Xie, Ying and Han, Rui and Guo, Ruixue and Tigabu, Mulualem and Sederoff, Ronald and Pei, Xiaona and Zhao, Chunli and Zhao, Xiyang | ||||||
|---|---|---|---|---|---|---|---|
| Title: | Chromosome-Level Genome Assembly for Acer pseudosieboldianum and Highlights to Mechanisms for Leaf Color and Shape Change | ||||||
| Series Name/Journal: | Frontiers in Plant Science | ||||||
| Year of publishing : | 2022 | ||||||
| Volume: | 13 | ||||||
| Article number: | 850054 | ||||||
| Number of Pages: | 18 | ||||||
| Publisher: | FRONTIERS MEDIA SA | ||||||
| ISSN: | 1664-462X | ||||||
| Language: | English | ||||||
| Publication Type: | Research article | ||||||
| Article category: | Scientific peer reviewed | ||||||
| Version: | Published version | ||||||
| Copyright: | Creative Commons: Attribution 4.0 | ||||||
| Full Text Status: | Public | ||||||
| Subjects: | (A) Swedish standard research categories 2011 > 4 Agricultural Sciences > 401 Agricultural, Forestry and Fisheries > Forest Science (A) Swedish standard research categories 2011 > 1 Natural sciences > 106 Biological Sciences (Medical to be 3 and Agricultural to be 4) > Bioinformatics and Systems Biology (methods development to be 10203) | ||||||
| Keywords: | Acer pseudosieboldianum, PacBio SMRT, HiFi, genome assembly, Hi-C, TCPs | ||||||
| URN:NBN: | urn:nbn:se:slu:epsilon-p-116843 | ||||||
| Permanent URL: | http://urn.kb.se/resolve?urn=urn:nbn:se:slu:epsilon-p-116843 | ||||||
| Additional ID: |
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| ID Code: | 27691 | ||||||
| Faculty: | S - Faculty of Forest Sciences | ||||||
| Department: | (S) > Southern Swedish Forest Research Centre | ||||||
| Deposited By: | SLUpub Connector | ||||||
| Deposited On: | 03 May 2022 10:25 | ||||||
| Metadata Last Modified: | 03 May 2022 10:31 |
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