TY - JOUR
T1 - The genome and gene editing system of sea barleygrass provide a novel platform for cereal domestication and stress tolerance studies
AU - Kuang, Liuhui
AU - Shen, Qiufang
AU - Chen, Liyang
AU - Ye, Lingzhen
AU - Yan, Tao
AU - Chen, Zhong-Hua
AU - Waugh, Robbie
AU - Li, Qi
AU - Huang, Lu
AU - Cai, Shengguan
AU - Fu, Liangbo
AU - Xing, Pengwei
AU - Wang, Kai
AU - Shao, Jiari
AU - Wu, Feibo
AU - Jiang, Lixi
AU - Wu, Dezhi
AU - Zhang, Guoping
N1 - Funding Information:
This research was supported by The National Key Research and Development Program of China (2018YFD1000704), the National Natural Science Foundation of China (32071934), the key research project of Zhejiang (2020C02002, 2021C02064-3), the China Agriculture Research System of MOF and MARA, and the Jiangsu Collaborative Innovation Center for Modern Crop Production
Copyright Information:
© 2022 The Author(s).
PY - 2022/9/12
Y1 - 2022/9/12
N2 - The tribe Triticeae provides important staple cereal crops and contains elite wild species with wide genetic diversity and high tolerance to abiotic stresses. Sea barleygrass (Hordeum marinum Huds.), a wild Triticeae species, thrives in saline marshlands and is well known for its high tolerance to salinity and waterlogging. Here, a 3.82-Gb high-quality reference genome of sea barleygrass is assembled de novo, with 3.69 Gb (96.8%) of its sequences anchored onto seven chromosomes. In total, 41 045 high-confidence (HC) genes are annotated by homology, de novo prediction, and transcriptome analysis. Phylogenetics, non-synonymous/synonymous mutation ratios (Ka/Ks), and transcriptomic and functional analyses provide genetic evidence for the divergence in morphology and salt tolerance among sea barleygrass, barley, and wheat. The large variation in post-domestication genes (e.g. IPA1 and MOC1) may cause interspecies differences in plant morphology. The extremely high salt tolerance of sea barleygrass is mainly attributed to low Na+ uptake and root-to-shoot translocation, which are mainly controlled by SOS1, HKT, and NHX transporters. Agrobacterium-mediated transformation and CRISPR/Cas9-mediated gene editing systems were developed for sea barleygrass to promote its utilization for exploration and functional studies of hub genes and for the genetic improvement of cereal crops.
AB - The tribe Triticeae provides important staple cereal crops and contains elite wild species with wide genetic diversity and high tolerance to abiotic stresses. Sea barleygrass (Hordeum marinum Huds.), a wild Triticeae species, thrives in saline marshlands and is well known for its high tolerance to salinity and waterlogging. Here, a 3.82-Gb high-quality reference genome of sea barleygrass is assembled de novo, with 3.69 Gb (96.8%) of its sequences anchored onto seven chromosomes. In total, 41 045 high-confidence (HC) genes are annotated by homology, de novo prediction, and transcriptome analysis. Phylogenetics, non-synonymous/synonymous mutation ratios (Ka/Ks), and transcriptomic and functional analyses provide genetic evidence for the divergence in morphology and salt tolerance among sea barleygrass, barley, and wheat. The large variation in post-domestication genes (e.g. IPA1 and MOC1) may cause interspecies differences in plant morphology. The extremely high salt tolerance of sea barleygrass is mainly attributed to low Na+ uptake and root-to-shoot translocation, which are mainly controlled by SOS1, HKT, and NHX transporters. Agrobacterium-mediated transformation and CRISPR/Cas9-mediated gene editing systems were developed for sea barleygrass to promote its utilization for exploration and functional studies of hub genes and for the genetic improvement of cereal crops.
KW - divergence
KW - genome
KW - salt tolerance
KW - sea barleygrass
KW - transcriptome
UR - http://www.scopus.com/inward/record.url?scp=85131130188&partnerID=8YFLogxK
U2 - 10.1016/j.xplc.2022.100333
DO - 10.1016/j.xplc.2022.100333
M3 - Article
C2 - 35643085
SN - 2590-3462
VL - 3
JO - Plant Communications
JF - Plant Communications
IS - 5
M1 - 100333
ER -