Single-cell analysis identifies genes facilitating rhizobium infection in Lotus japonicus
Abstract Legume-rhizobium signaling during establishment of symbiotic nitrogen fixation restricts rhizobium colonization to specific cells. A limited number of root hair cells allow infection threads to form, and only a fraction of the epidermal infection threads progress to cortical layers to estab...
| Main Authors: | , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2023-11-01
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| Series: | Nature Communications |
| Online Access: | https://doi.org/10.1038/s41467-023-42911-1 |
| _version_ | 1827764281862520832 |
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| author | Manuel Frank Lavinia Ioana Fechete Francesca Tedeschi Marcin Nadzieja Malita Malou Malekzadeh Nørgaard Jesus Montiel Kasper Røjkjær Andersen Mikkel H. Schierup Dugald Reid Stig Uggerhøj Andersen |
| author_facet | Manuel Frank Lavinia Ioana Fechete Francesca Tedeschi Marcin Nadzieja Malita Malou Malekzadeh Nørgaard Jesus Montiel Kasper Røjkjær Andersen Mikkel H. Schierup Dugald Reid Stig Uggerhøj Andersen |
| author_sort | Manuel Frank |
| collection | DOAJ |
| description | Abstract Legume-rhizobium signaling during establishment of symbiotic nitrogen fixation restricts rhizobium colonization to specific cells. A limited number of root hair cells allow infection threads to form, and only a fraction of the epidermal infection threads progress to cortical layers to establish functional nodules. Here we use single-cell analysis to define the epidermal and cortical cell populations that respond to and facilitate rhizobium infection. We then identify high-confidence nodulation gene candidates based on their specific expression in these populations, pinpointing genes stably associated with infection across genotypes and time points. We show that one of these, which we name SYMRKL1, encodes a protein with an ectodomain predicted to be nearly identical to that of SYMRK and is required for normal infection thread formation. Our work disentangles cellular processes and transcriptional modules that were previously confounded due to lack of cellular resolution, providing a more detailed understanding of symbiotic interactions. |
| first_indexed | 2024-03-11T11:03:10Z |
| format | Article |
| id | doaj.art-51e452f000a84be9a0cd5533069c7184 |
| institution | Directory Open Access Journal |
| issn | 2041-1723 |
| language | English |
| last_indexed | 2024-03-11T11:03:10Z |
| publishDate | 2023-11-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Nature Communications |
| spelling | doaj.art-51e452f000a84be9a0cd5533069c71842023-11-12T12:22:37ZengNature PortfolioNature Communications2041-17232023-11-0114111110.1038/s41467-023-42911-1Single-cell analysis identifies genes facilitating rhizobium infection in Lotus japonicusManuel Frank0Lavinia Ioana Fechete1Francesca Tedeschi2Marcin Nadzieja3Malita Malou Malekzadeh Nørgaard4Jesus Montiel5Kasper Røjkjær Andersen6Mikkel H. Schierup7Dugald Reid8Stig Uggerhøj Andersen9Department of Molecular Biology and Genetics, Aarhus UniversityDepartment of Molecular Biology and Genetics, Aarhus UniversityDepartment of Molecular Biology and Genetics, Aarhus UniversityDepartment of Molecular Biology and Genetics, Aarhus UniversityDepartment of Molecular Biology and Genetics, Aarhus UniversityDepartment of Molecular Biology and Genetics, Aarhus UniversityDepartment of Molecular Biology and Genetics, Aarhus UniversityBioinformatics Research Centre, Aarhus UniversityDepartment of Molecular Biology and Genetics, Aarhus UniversityDepartment of Molecular Biology and Genetics, Aarhus UniversityAbstract Legume-rhizobium signaling during establishment of symbiotic nitrogen fixation restricts rhizobium colonization to specific cells. A limited number of root hair cells allow infection threads to form, and only a fraction of the epidermal infection threads progress to cortical layers to establish functional nodules. Here we use single-cell analysis to define the epidermal and cortical cell populations that respond to and facilitate rhizobium infection. We then identify high-confidence nodulation gene candidates based on their specific expression in these populations, pinpointing genes stably associated with infection across genotypes and time points. We show that one of these, which we name SYMRKL1, encodes a protein with an ectodomain predicted to be nearly identical to that of SYMRK and is required for normal infection thread formation. Our work disentangles cellular processes and transcriptional modules that were previously confounded due to lack of cellular resolution, providing a more detailed understanding of symbiotic interactions.https://doi.org/10.1038/s41467-023-42911-1 |
| spellingShingle | Manuel Frank Lavinia Ioana Fechete Francesca Tedeschi Marcin Nadzieja Malita Malou Malekzadeh Nørgaard Jesus Montiel Kasper Røjkjær Andersen Mikkel H. Schierup Dugald Reid Stig Uggerhøj Andersen Single-cell analysis identifies genes facilitating rhizobium infection in Lotus japonicus Nature Communications |
| title | Single-cell analysis identifies genes facilitating rhizobium infection in Lotus japonicus |
| title_full | Single-cell analysis identifies genes facilitating rhizobium infection in Lotus japonicus |
| title_fullStr | Single-cell analysis identifies genes facilitating rhizobium infection in Lotus japonicus |
| title_full_unstemmed | Single-cell analysis identifies genes facilitating rhizobium infection in Lotus japonicus |
| title_short | Single-cell analysis identifies genes facilitating rhizobium infection in Lotus japonicus |
| title_sort | single cell analysis identifies genes facilitating rhizobium infection in lotus japonicus |
| url | https://doi.org/10.1038/s41467-023-42911-1 |
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