Dataset Information

Plant-on-chip: Core morphogenesis processes in the tiny plant Wolffia australiana.

ABSTRACT: A plant can be thought of as a colony comprising numerous growth buds, each developing to its own rhythm. Such lack of synchrony impedes efforts to describe core principles of plant morphogenesis, dissect the underlying mechanisms, and identify regulators. Here, we use the minimalist known angiosperm to overcome this challenge and provide a model system for plant morphogenesis. We present a detailed morphological description of the monocot Wolffia australiana, as well as high-quality genome information. Further, we developed the plant-on-chip culture system and demonstrate the application of advanced technologies such as single-nucleus RNA-sequencing, protein structure prediction, and gene editing. We provide proof-of-concept examples that illustrate how W. australiana can decipher the core regulatory mechanisms of plant morphogenesis.

SUBMITTER: Li F

PROVIDER: S-EPMC10169700 | biostudies-literature | 2023 May

REPOSITORIES: biostudies-literature

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Publications

Plant-on-chip: Core morphogenesis processes in the tiny plant <i>Wolffia australiana</i>.

Li Feng F Yang Jing-Jing JJ Sun Zong-Yi ZY Wang Lei L Qi Le-Yao LY A Sina S Liu Yi-Qun YQ Zhang Hong-Mei HM Dang Lei-Fan LF Wang Shu-Jing SJ Luo Chun-Xiong CX Nian Wei-Feng WF O'Conner Seth S Ju Long-Zhen LZ Quan Wei-Peng WP Li Xiao-Kang XK Wang Chao C Wang De-Peng DP You Han-Li HL Cheng Zhu-Kuan ZK Yan Jia J Tang Fu-Chou FC Yang De-Chang DC Xia Chu-Wei CW Gao Ge G Wang Yan Y Zhang Bao-Cai BC Zhou Yi-Hua YH Guo Xing X Xiang Sun-Huan SH Liu Huan H Peng Tian-Bo TB Su Xiao-Dong XD Chen Yong Y Ouyang Qi Q Wang Dong-Hui DH Zhang Da-Ming DM Xu Zhi-Hong ZH Hou Hong-Wei HW Bai Shu-Nong SN Li Ling L

PNAS nexus 20230419 5

A plant can be thought of as a colony comprising numerous growth buds, each developing to its own rhythm. Such lack of synchrony impedes efforts to describe core principles of plant morphogenesis, dissect the underlying mechanisms, and identify regulators. Here, we use the minimalist known angiosperm to overcome this challenge and provide a model system for plant morphogenesis. We present a detailed morphological description of the monocot <i>Wolffia australiana</i>, as well as high-quality geno ...[more]

PMID: 37181047

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Project description:Background: Studying genomic variation in rapidly evolving pathogens potentially enables definition of genes supporting their “core biology” present, functional and expressed by all strains or “flexible biology”, varying between strains. Genes supporting flexible biology may be considered to be “accessory”, whilst the “core” gene set is likely to be important for common features of a pathogen species biology, including virulence on all host genotypes. The wheat-pathogenic fungus Zymoseptoria tritici represents one of the most rapidly evolving threats to global food security and was the focus of this study. Results:We constructed a pangenome of 18 European field isolates, with 12 also subjected to RNAseq transcription profiling during infection. Combining this data, we predicted a “core” gene set comprising 9807 sequences which were; (1) present in all isolates; (2) lacking inactivating polymorphisms ; and (3) expressed by all isolates. A large accessory genome, consisting of 45% of the total genes was also defined. We classified genetic and genomic polymorphism at both chromosomal and individual gene scales. Proteins required for essential functions including virulence, had lower-than average sequence variability amongst core genes. Both core and accessory genomes encoded many small, secreted candidate effector proteins that likely interact with plant immunity. Viral vector-mediated transient in planta overexpression of 88 candidates failed to identify any which induced leaf necrosis characteristic of disease. However, functional complementation of a non-pathogenic deletion mutant lacking five core genes, demonstrated that full virulence was restored by re-introduction of the single gene exhibiting least sequence polymorphism and highest expression. Conclusions:These data support the combined use of pangenomics and transcriptomics for defining genes which represent core, and potentially exploitable, weaknesses in rapidly evolving pathogens.

Dataset Information

Plant-on-chip: Core morphogenesis processes in the tiny plant Wolffia australiana.

Publications

Plant-on-chip: Core morphogenesis processes in the tiny plant <i>Wolffia australiana</i>.

Similar Datasets

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