STOmics technology:BGI Stereomics Stereo-Seq

Data type:Spatial transcriptomics

Sample scope:Multiisolate

Summary:Legumes, such as Lotus japonicus, can gain symbiotic nitrogen fixation ability by forming root nodules. Previous research has shown that these plants do not possess a unique gene family for nodulation, and instead, it is achieved by recruiting genes from other organogenesis pathways. Therefore, understanding the expression sites of genes is crucial in studying nodulation. To investigate determinate nodule organogenesis, we used Stereo-seq to capture spatial transcriptomes on the nodules of L. japonicus. Our study identified key tissue types, at different developmental stages, and characterized them at the molecular level. We determined that the infected zone is distinctive from other tissues, mainly due to the symbiosis, and revealed its coordinate development with the surrounding peripheral tissues. Our analysis discovered several candidate genes involved in nodulation, some of which are likely recruited from root organogenesis. Specifically, we investigated LjNLP3, a member of the NIN-LIKE PROTEIN family, which is highly expressed at a late developmental stage. Functional studies revealed a dual role for LjNLP3 in braking nodule development and promoting maturation, thereby enhancing our understanding of this critical family's functions in nodulation. In summary, our spatiotemporal transcriptomic atlas of L. japonicus nodules provides valuable insights into the molecular mechanisms and functional genes involved in nodulation.

Contributor(s):Keyi Ye, Jianshu Zheng, Liyuan Zhong, Fengjiao Bu, Zhaonian Dong.

Submitter:Zhong Liyuan,BGI

Release date:2024-06-25

Updated:2024-06-25