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    Home > Biochemistry News > Microbiology News > ISME J Rhizobia research team from the School of Biology, China Agricultural University reveals the regulatory mechanism of exogenous gene silencers on the adaptive evolution of rhizobia

    ISME J Rhizobia research team from the School of Biology, China Agricultural University reveals the regulatory mechanism of exogenous gene silencers on the adaptive evolution of rhizobia

    • Last Update: 2021-10-22
    • Source: Internet
    • Author: User
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    On September 28, 2021, the first-class microbiology journal The ISME Journal published online a research paper by the Rhizobium research team of China Agricultural University: The zinc-finger bearing xenogeneic silencer MucR in α-proteobacteria balances adaptation and regulatory integrity
    .

    Professor Tian Changfu is the main corresponding author, Professor Zhang Ziding is the co-corresponding author; team member Associate Professor Jiao Jian is the first author, PhD student Zhang Biliang is the joint first author; Dr.
    Li Menglin, who has graduated, is the co-author
    .

    The study used the broad host rhizobia Sinorhizobium fredii as material (in symbiosis with cultivated soybeans, wild soybeans, pigeon peas, etc.
    ), and revealed that MucR, a conserved zinc finger structural protein of the α-Proteobacteria, was used as an exogenous gene silencer to balance "adaptability" "And the mechanism of "regulatory integrity"
    .

    The rhizobia-legume symbiotic nitrogen fixation system is a key component of reducing the application of chemical nitrogen fertilizers and ensuring the sustainable development of agriculture
    .

    The inoculation effect of commercial rhizobia is usually affected by many factors such as soil conditions, plant varieties, field management measures and so on
    .

    Understanding the survival and evolution mechanism of rhizobia in the saprophytic and symbiotic stages in the soil is of great significance to promote the popularization and application of rhizobia
    .

    The previous research of Tian Changfu's research group found that the dominant indigenous rhizobia in the farmland of different ecological regions often dominate both the rhizosphere and nodules of leguminous crops, reflecting high local ecological adaptability (Soil Biol Biochem 2018, 2017; J Biogeography) 2017); Some unmatched indigenous rhizobia under the selective pressure of soybean varieties can achieve rapid adaptive evolution of matching in one inoculation cycle (ISME J 2018); functional genomics, genetics and molecular biology analysis show symbiosis matching The optimization involves the integration of a large number of species-specific genes with the core gene regulatory network (mSystems 2021; mBio 2020; PLoS Genetics 2018; Environ Microbiol 2017), while the conservative zinc finger structural protein MucR of the α-proteobacteria regulates the spontaneous growth of rhizobia and Symbiosis of global transcription factors for multiple important processes (mBio 2021; Comput Struct Biotech J 2020; MPMI 2016; Figure 1)
    .

    Figure 1.
    MucR, a conserved zinc finger structural protein from the class of α-Proteobacteria, is necessary for the symbiosis of the broad-host Rhizobium S.
    fredii.
    On the basis of the previous stage, this study comprehensively used ChIP-seq, comparative transcriptome and molecular evolution analysis methods.
    It was found that the transcription levels of the target genes and non-target genes of the global transcription factor MucR increased with the increase of conservation under the conditions of Rhizobium spontaneous and symbiosis; the target genes known to be related to adversity adaptation and symbiosis belong to the species or These genes are core genes, which are inhibited or activated by MucR in a condition-dependent manner, reflecting the characteristics of integration with the core regulatory network; however, most MucR target genes are strain-specific genes, and these genes have high AT content (typical foreign genes).
    Characteristics), low transcription level; At the same degree of conservation, the AT content and transcription level of target genes are higher than non-target genes, and the overall transcription level will be further up-regulated in mucR deletion mutants; the upstream of the target gene and the internal promoter of the gene- The AT content of 35 and -10 spacer sequences is significantly higher than that of non-target genes.
    This feature gives these foreign genes "innate" high-level transcription potential; the recruitment level of MucR in the target sequence increases with AT content and periodic T or Increased by the increase in the number of TT
    .

    The research further proposes a working model (Figure 2): MucR directly inhibits AT-rich foreign genes with high transcription potential-reserves genetic resources for adaptive evolution, and the MucR binding sites in foreign DNA gradually " "Erosion" contributes to the integration of foreign genes in the core regulatory network during adaptive evolution
    .

    This work has important theoretical significance for understanding the adaptive evolution mechanism of symbiotic nitrogen-fixing rhizobia and other bacteria of the class α-Proteobacteria (including pathogenic bacteria), and also has reference significance for the study of the adaptation mechanism of foreign genes and chassis in synthetic biology
    .

    Figure 2.
    Exogenous gene silencer MucR balances "adaptability" and "regulatory integrity" mechanism model.
    This research has been awarded the National Key Research and Development Program, the National Natural Science Foundation of China, the independent research project of the State Key Laboratory of Agricultural Biotechnology, China Support for projects such as the "2115 Talent Cultivation and Development Support Program" (Young Scientist Innovation Team and Young Star B) of the Agricultural University
    .

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