Genomic and transcriptomic analyses provide insights into valuable fatty acid biosynthesis and environmental adaptation of yellowhorn

被引:9
作者
Liang, Qiang [1 ]
Liu, Jian Ning [1 ]
Fang, Hongcheng [1 ]
Dong, Yuhui [1 ]
Wang, Changxi [1 ]
Bao, Yan [1 ]
Hou, Wenrui [1 ]
Zhou, Rui [1 ]
Ma, Xinmei [1 ]
Gai, Shasha [1 ]
Wang, Lichang [1 ]
Li, Shouke [2 ]
Yang, Ke Qiang [1 ,3 ,4 ]
Sang, Ya Lin [1 ,3 ,4 ]
机构
[1] Shandong Agr Univ, Coll Forestry, Tai An, Shandong, Peoples R China
[2] Worth Agr Dev Co Ltd, Weifang, Peoples R China
[3] Shandong Agr Univ, State Forestry & Grassland Adm Key Lab Silvicultur, Tai An, Shandong, Peoples R China
[4] Shandong Agr Univ, Shandong Taishan Forest Ecosyst Res Stn, Tai An, Shandong, Peoples R China
基金
中国国家自然科学基金;
关键词
yellowhorn (Xanthoceras sorbifolium); haplotype-resolved; genome assembly; transcriptome; fatty acids biosynthesis; adaptation; ANKYRIN-REPEAT PROTEIN; SYNTHETASE; LACS1; GENE FAMILY; PHYLOGENETIC ANALYSIS; ARABIDOPSIS; IDENTIFICATION; SEQUENCE; TOOL; OIL; CLASSIFICATION;
D O I
10.3389/fpls.2022.991197
中图分类号
Q94 [植物学];
学科分类号
071001 ;
摘要
Yellowhorn (Xanthoceras sorbifolium) is an oil-bearing tree species growing naturally in poor soil. The kernel of yellowhorn contains valuable fatty acids like nervonic acid. However, the genetic basis underlying the biosynthesis of valued fatty acids and adaptation to harsh environments is mainly unexplored in yellowhorn. Here, we presented a haplotype-resolved chromosome-scale genome assembly of yellowhorn with the size of 490.44 Mb containing scaffold N50 of 34.27 Mb. Comparative genomics, in combination with transcriptome profiling analyses, showed that expansion of gene families like long-chain acyl-CoA synthetase and ankyrins contribute to yellowhorn fatty acid biosynthesis and defense against abiotic stresses, respectively. By integrating genomic and transcriptomic data of yellowhorn, we found that the transcription of 3-ketoacyl-CoA synthase gene XS04G00959 was consistent with the accumulation of nervonic and erucic acid biosynthesis, suggesting its critical regulatory roles in their biosynthesis. Collectively, these results enhance our understanding of the genetic basis underlying the biosynthesis of valuable fatty acids and adaptation to harsh environments in yellowhorn and provide foundations for its genetic improvement.
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页数:14
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共 103 条
[1]  
Abiodun OA, 2017, OILSEED CROPS: YIELD AND ADAPTATIONS UNDER ENVIRONMENTAL STRESS, P249
[2]   The very-long-chain hydroxy fatty acyl-CoA dehydratase PASTICCINO2 is essential and limiting for plant development [J].
Bach, Lien ;
Michaelson, Louise V. ;
Haslam, Richard ;
Bellec, Yannick ;
Gissot, Lionel ;
Marion, Jessica ;
Da Costa, Marco ;
Boutin, Jean-Pierre ;
Miquel, Martine ;
Tellier, Frederique ;
Domergue, Frederic ;
Markham, Jonathan E. ;
Beaudoin, Frederic ;
Napier, Johnathan A. ;
Faure, Jean-Denis .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2008, 105 (38) :14727-14731
[3]   Genetic strategies for improving crop yields [J].
Bailey-Serres, Julia ;
Parker, Jane E. ;
Ainsworth, Elizabeth A. ;
Oldroyd, Giles E. D. ;
Schroeder, Julian I. .
NATURE, 2019, 575 (7781) :109-118
[4]  
Balbino S, 2017, OILSEED CROPS: YIELD AND ADAPTATIONS UNDER ENVIRONMENTAL STRESS, P80
[5]   Repbase Update, a database of repetitive elements in eukaryotic genomes [J].
Bao, Weidong ;
Kojima, Kenji K. ;
Kohany, Oleksiy .
MOBILE DNA, 2015, 6
[6]   Functional Characterization of the Arabidopsis β-Ketoacyl-Coenzyme A Reductase Candidates of the Fatty Acid Elongase [J].
Beaudoin, Frederic ;
Wu, Xianzhong ;
Li, Fengling ;
Haslam, Richard P. ;
Markham, Jonathan E. ;
Zheng, Huanquan ;
Napier, Johnathan A. ;
Kunst, Ljerka .
PLANT PHYSIOLOGY, 2009, 150 (03) :1174-1191
[7]   Ankyrin repeat-containing proteins in Arabidopsis:: characterization of a novel and abundant group of genes coding ankyrin-transmembrane proteins [J].
Becerra, C ;
Jahrmann, T ;
Puigdomènech, P ;
Vicient, CM .
GENE, 2004, 340 (01) :111-121
[8]   Pseudomolecule-level assembly of the Chinese oil tree yellowhorn (Xanthoceras sorbifolium) genome [J].
Bi, Quanxin ;
Zhao, Yang ;
Du, Wei ;
Lu, Ying ;
Gui, Lang ;
Zheng, Zhimin ;
Yu, Haiyan ;
Cui, Yifan ;
Liu, Zhi ;
Cui, Tianpeng ;
Cui, Deshi ;
Liu, Xiaojuan ;
Li, Yingchao ;
Fan, Siqi ;
Hu, Xiaoyu ;
Fu, Guanghui ;
Ding, Jian ;
Ruan, Chengjiang ;
Wang, Libing .
GIGASCIENCE, 2019, 8 (06)
[9]   The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003 [J].
Boeckmann, B ;
Bairoch, A ;
Apweiler, R ;
Blatter, MC ;
Estreicher, A ;
Gasteiger, E ;
Martin, MJ ;
Michoud, K ;
O'Donovan, C ;
Phan, I ;
Pilbout, S ;
Schneider, M .
NUCLEIC ACIDS RESEARCH, 2003, 31 (01) :365-370
[10]   Trimmomatic: a flexible trimmer for Illumina sequence data [J].
Bolger, Anthony M. ;
Lohse, Marc ;
Usadel, Bjoern .
BIOINFORMATICS, 2014, 30 (15) :2114-2120