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Article|11 Feb 2021|OPEN
Genome sequence and evolution of Betula platyphylla
Su Chen1, Yucheng Wang1, Lili Yu2, Tao Zheng3, Sui Wang1, Zhen Yue3, Jing Jiang1, Sapna Kumari4, Chunfang Zheng5, Haibao Tang6,7, Jun Li8, Yuqi Li3, Jiongjiong Chen9, Wenbo Zhang1, Hanhui Kuang9, Jon S. Robertson10, Patrick X. Zhao8, Huiyu Li1, Shengqiang Shu11, Yordan S. Yordanov12, Haijiao Huang1, David M. Goodstein11, Ying Gai13, Qi Qi13, JiuMeng Min3, ChunYan Xu3, SongBo Wang3, Guan-Zheng Qu1, Andrew H. Paterson10, David Sankoff5, Hairong Wei4, Guifeng Liu1, & Chuanping Yang1,
1State Key Laboratory of Tree Genetics and Breeding (Northeast Forestry University), Harbin, China
2BGI-Qingdao, BGI-Shenzhen, Qingdao, China
3BGITech, BGI-Shenzhen, Shenzhen, China
4College of Forest Resources and Environmental Science, Institute of Computing and Cybersystems, Michigan Technological University, Houghton, MI, USA
5Department of Mathematics and Statistics, University of Ottawa, Ottawa, ON, Canada
6Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian Province, China
7School of Plant Sciences, University of Arizona, Tucson, AZ, USA
8Noble Research Institute, 2510 Sam Noble Parkway, Ardmore, OK, USA
9Department of Vegetable Crops, College of Horticulture and Forestry, Huazhong Agricultural University, Wuhan, P.R. China
10Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia
11US Department of Energy Joint Genome Institute, Walnut Creek, CA, USA
12Department of Biological Sciences, Eastern Illinois University, Charleston, IL, USA
13College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, P. R. China

Horticulture Research 8,
Article number: 37 (2021)
doi: 10.1038/hortres.2021.37
Views: 454

Received: 20 Jul 2020
Revised: 08 Nov 2020
Accepted: 13 Dec 2020
Published online: 11 Feb 2021

Abstract

Betula L. (birch) is a pioneer hardwood tree species with ecological, economic, and evolutionary importance in the Northern Hemisphere. We sequenced the Betula platyphylla genome and assembled the sequences into 14 chromosomes. The Betula genome lacks evidence of recent whole-genome duplication and has the same paleoploidy level as Vitis vinifera and Prunus mume. Phylogenetic analysis of lignin pathway genes coupled with tissue-specific expression patterns provided clues for understanding the formation of higher ratios of syringyl to guaiacyl lignin observed in Betula species. Our transcriptome analysis of leaf tissues under a time-series cold stress experiment revealed the presence of the MEKK1–MKK2–MPK4 cascade and six additional mitogen-activated protein kinases that can be linked to a gene regulatory network involving many transcription factors and cold tolerance genes. Our genomic and transcriptome analyses provide insight into the structures, features, and evolution of the B. platyphylla genome. The chromosome-level genome and gene resources of B. platyphylla obtained in this study will facilitate the identification of important and essential genes governing important traits of trees and genetic improvement of B. platyphylla.