Single-cell analysis identifies genes facilitating rhizobium infection in Lotus japonicus

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

doi:10.1038/s41467-023-42911-1

Single-cell analysis identifies genes facilitating rhizobium infection in Lotus japonicus

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^*

^*Corresponding author af dette arbejde

Publikation: Bidrag til tidsskrift/Konferencebidrag i tidsskrift /Bidrag til avis › Tidsskriftartikel › Forskning › peer review

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.

Originalsprog	Engelsk
Artikelnummer	7171
Tidsskrift	Nature Communications
Vol/bind	14
Nummer	1
ISSN	2041-1723
DOI	https://doi.org/10.1038/s41467-023-42911-1
Status	Udgivet - dec. 2023

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10.1038/s41467-023-42911-1Licens: CC BY

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title = "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 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.",

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AU - Frank, Manuel

AU - Fechete, Lavinia Ioana

AU - Tedeschi, Francesca

AU - Nadzieja, Marcin

AU - Nørgaard, Malita Malou Malekzadeh

AU - Montiel, Jesus

AU - Andersen, Kasper Røjkjær

AU - Schierup, Mikkel H

AU - Reid, Dugald

AU - Andersen, Stig Uggerhøj

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Y1 - 2023/12

N2 - 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.

AB - 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.

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KW - Root Nodules, Plant/metabolism

KW - Lotus/metabolism

KW - Plant Proteins/genetics

KW - Phenotype

KW - Symbiosis/genetics

KW - Single-Cell Analysis

KW - Gene Expression Regulation, Plant

KW - Plant Roots/metabolism

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DO - 10.1038/s41467-023-42911-1

M3 - Journal article

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SN - 2041-1723

VL - 14

JO - Nature Communications

JF - Nature Communications

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ER -

Single-cell analysis identifies genes facilitating rhizobium infection in Lotus japonicus

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