文献类型：期刊文献

英文题名：The flying spider-monkey tree fern genome provides insights into fern evolution and arborescence

作者：Huang, Xiong[1] Wang, Wenling[2] Gong, Ting[3,4,5] Wickell, David[6,7] Kuo, Li-Yaung[8] Zhang, Xingtan[2] Wen, Jialong[9] Kim, Hoon[10,11] Lu, Fachuang[10,11] Zhao, Hansheng[12] Chen, Song[13] Li, Hui[1] Wu, Wenqi[14] Yu, Changjiang[15] Chen, Su[13] Fan, Wei[1] Chen, Shuai[2] Bao, Xiuqi[3,4,5] Li, Li[3,4,5] Zhang, Dan[3,4,5] Jiang, Longyu[3,4,5] Yan, Xiaojing[1] Liao, Zhenyang[2] Zhou, Gongke[15] Guo, Yalong[16] Ralph, John[10,11] Sederoff, Ronald R.[17] Wei, Hairong[18] Zhu, Ping[3,4,5] Li, Fay-Wei[6,7] Ming, Ray[19] Li, Quanzi[1]

第一作者：Huang, Xiong

通信作者：Li, QZ[1];Zhu, P[2];Zhu, P[3];Zhu, P[4];Li, FW[5];Li, FW[6];Wei, HR[7];Ming, R[8]

机构：[1]Chinese Acad Forestry, State Key Lab Tree Genet & Breeding, Beijing, Peoples R China;[2]Chinese Acad Agr Sci, Agr Genom Inst Shenzhen, Shenzhen Branch,Minist Agr & Rural Affairs, Guangdong Lab Lingnan Modern Agr,Genome Anal Lab, Shenzhen, Peoples R China;[3]Chinese Acad Med Sci & Peking Union Med Coll, State Key Lab Bioact Subst & Funct Nat Med, Beijing, Peoples R China;[4]Chinese Acad Med Sci & Peking Union Med Coll, NHC Key Lab Biosynth Nat Prod, Beijing, Peoples R China;[5]Chinese Acad Med Sci & Peking Union Med Coll, CAMS Key Lab Enzyme & Biocatalysis Nat Drugs, Inst Mat Med, Beijing, Peoples R China;[6]Thompson Inst, Ithaca, NY 14853 USA;[7]Cornell Univ, Plant Biol Sect, Ithaca, NY 14853 USA;[8]Natl Tsing Hua Univ, Inst Mol & Cellular Biol, Hsinchu, Taiwan;[9]Beijing Forestry Univ, Beijing Key Lab Lignocellulos Chem, Beijing, Peoples R China;[10]Univ Wisconsin, Dept Biochem, Wisconsin Energy Inst, 420 Henry Mall, Madison, WI 53705 USA;[11]Univ Wisconsin, DOE Great Lakes Bioenergy Res Ctr, Wisconsin Energy Inst, Madison, WI USA;[12]State Forestry Adm, Inst Gene Bamboo & Rattan Resources, Int Ctr Bamboo & Rattan, Key Open Lab Sci & Technol Bamboo & Rattan, Beijing, Peoples R China;[13]Northeast Forestry Univ, State Key Lab Tree Genet & Breeding, Harbin, Peoples R China;[14]Beijing Forestry Univ, Beijing Adv Innovat Ctr Tree Breeding Mol Design, Beijing, Peoples R China;[15]Qingdao Agr Univ, Coll Landscape Architecture & Forestry, Qingdao, Peoples R China;[16]Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing, Peoples R China;[17]North Carolina State Univ, Dept Forestry & Environm Resources, Forest Biotechnol Grp, Raleigh, NC USA;[18]Michigan Technol Univ, Coll Forest Resources & Environm Sci, Houghton, MI 49931 USA;[19]Univ Illinois, Dept Plant Biol, Urbana, IL 61801 USA

年份：2022

卷号：8

期号：5

起止页码：500-+

外文期刊名：NATURE PLANTS

收录：;Scopus(收录号：2-s2.0-85129752872);WOS:【SCI-EXPANDED(收录号:WOS:000792577300003)】；

基金：This work was supported by the Fundamental Research Funds of Chinese Academy of Forestry (grant no. CAFYBB2017ZY001 to Q.L.); the National Natural Science Foundation of China (grant no. 32071787 to Q.L.); start-up funding for polyploid poplar research from the Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Beijing Forestry University (to H.W.); CAMS Innovation Fund for Medical Sciences (grant no. CIFMS2021-I2M-1-029 to P.Z. and T.G.); PUMC Disciplinary Development of Synthetic Biology (grant no. 201920100801 to P.Z.); and the DOE Great Lakes Bioenergy Research Center (DOE BER Office of Science, grant no. DE-SC0018409 to J.R.). We acknowledge the research team of X. Chen and Q. Hou, Department of Pharmacology of our Institute, for the cytotoxic and anti-inflammation bioassays. We thank Y. Fang for providing the gene annotations in A. capillus-veneris. We also thank H. Liu, K. Dipak and S. Shi for helping in resequencing the sample collections, and Y. Cao (State Key Laboratory of Tree Genetics and Breeding, Chinese Academy of Forestry) and H. Zhang (the Core Facilities of Life Sciences at Peking University) for assistance with the microscopic observations.

语种：英文

摘要：To date, little is known about the evolution of fern genomes, with only two small genomes published from the heterosporous Salviniales. Here we assembled the genome of Alsophila spinulosa, known as the flying spider-monkey tree fern, onto 69 pseudochromosomes. The remarkable preservation of synteny, despite resulting from an ancient whole-genome duplication over 100 million years ago, is unprecedented in plants and probably speaks to the uniqueness of tree ferns. Our detailed investigations into stem anatomy and lignin biosynthesis shed new light on the evolution of stem formation in tree ferns. We identified a phenolic compound, alsophilin, that is abundant in xylem, and we provided the molecular basis for its biosynthesis. Finally, analysis of demographic history revealed two genetic bottlenecks, resulting in rapid demographic declines of A. spinulosa. The A. spinulosa genome fills a crucial gap in the plant genomic landscape and helps elucidate many unique aspects of tree fern biology. The genome of the flying spider-monkey tree fern and investigations on stem formation and secondary metabolite biosynthesis promote our understanding of fern evolution and arborescence, facilitating the protection and utilization of this endangered species.