Jiahui Shao

Nanjing Agricultural University

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Ruifu Zhang

Nanjing Agricultural University

Qirong Shen

Nanjing Agricultural University

Zhihui Xu

Nanjing Agricultural University

Nan Zhang

Nanjing Agricultural University

Haichao Feng

Henan University

Youzhi Miao

Nanjing Agricultural University

Yunpeng Liu

Institute of Agricultural Resources and Regional Planning

Weibing Xun

Nanjing Agricultural University

Xuan Zhou

Sun Yat-sen University

Shuqing Li

Third Affiliated Hospital of Zhengzhou University

Cooperative Institutions

Nanjing Agricultural University

Ministry of Agriculture and Rural Affairs

Chinese Academy of Agricultural Sciences

Institute of Agricultural Resources and Regional Planning

Chinese Academy of Sciences

University of Toronto

Sinai Health System

Lunenfeld-Tanenbaum Research Institute

Central South University

Mount Sinai Hospital

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Additional file 7: Table S4. of Whole transcriptomic analysis of the plant-beneficial rhizobacterium Bacillus amyloliquefaciens SQR9 during enhanced biofilm formation regulated by maize root exudates

Figshare (2015)

Nan Zhang Dongqing Yang Dandan Wang Youzhi Miao Jiahui Shao

Genomic island (GI) prediction of Bacillus amyloliquefaciens SQR9. GIs were predicted by IslandViewer and M-GCAT (Sheet 1). Sheet 2 shows the detailed information for all genes in the 11 predicted GIs. (XLSX 209 kb)

Bacillus amyloliquefaciens

Table (database)

10.6084/m9.figshare.c.3616508_d19

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Citations (0)

A unique genomic island-governed cannibalism in Bacillus enhanced biofilm formation through a novel regulation mechanism

bioRxiv (Cold Spring Harbor Laboratory) (2021)

Rong Huang Qing Li Dandan Wang Haichao Feng Nan Zhang

Abstract Cannibalism is a differentiation strategy and social multicellular behavior in biofilms. The novel factors and mechanisms to trigger the bacterial cannibalism remain scarce. Here, we report a novel bacillunoic acids-mediated strategy for manipulating cannibalism in Bacillus velezensis SQR9 biofilm formation. A subfraction of cells differentiate into cannibals that secrete toxic bacillunoic acids to lyse a fraction of their sensitive siblings, and the released nutrients enhance biofilm formation. Meanwhile, the self-immunity of cannibal cells was induced by bacillunoic acids. A two-component system, the OmpS-OmpR signal-transduction pathway, controls the expression of the ABC transporter BnaAB for self-immunity. Specifically, bacillunoic acids activate the autophosphorylation of OmpS, a transmembrane histidine kinase, which then transfers a phosphoryl group to its response regulator OmpR. The phosphorylation of OmpR activates the transcription of the transporter gene bnaAB by binding its promoter. Thus, bacillunoic acids are pumped out of cells by the ABC transporter BnaAB. Moreover, we discovered that strain SQR9 could use the bacillunoic acids-mediated cannibalism to optimize its community to produce more bacillunoic acids for bacterial competition. This study revealed that bacillunoic acids play a previously undiscovered dual role in both cannibalism during biofilm formation and interspecies competition, which has an important biological significance.

Histidine kinase

Cannibalism

Response regulator

Multicellular organism

10.1101/2021.10.04.462985

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Citations (3)

Persistent neurochemical and behavioral abnormalities in adulthood despite early iron supplementation for perinatal iron deficiency anemia in rats☆

Behavioural Brain Research (2006)

Barbara T. Felt J.D. Beard Timothy Schallert Jiahui Shao J. Wayne Aldridge

Neurochemical

Monoaminergic

Spontaneous alternation

10.1016/j.bbr.2006.04.001

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Citations (213)

Construction of Recombinant Retroviral Vector Carrying Lab Gene of Foot-and-mouth Disease Virus and Its Expression in Bovine Kidney (MDBK) Cells

Chinese journal of biotechnology/Shengwu gongcheng xuebao (2008)

Gao Cong Jian-Hua Zhou Song Gao Jing Du Jiahui Shao

10.1016/s1872-2075(08)60038-2

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Citations (0)

Novel fatty acids-governed cannibalism in beneficial rhizosphere Bacillus enhances biofilm formation via a two-component system OmpS/R and toxin transporter

Science Bulletin (2023)

Rong Huang Qing Li Dandan Wang Haichao Feng Nan Zhang

Cannibalism

Component (thermodynamics)

10.1016/j.scib.2023.06.022

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Citations (1)

A genomic island in a plant beneficial rhizobacterium encodes novel antimicrobial fatty acids and a self‐protection shield to enhance its competition

Environmental Microbiology (2019)

Dandan Wang Zhihui Xu Guishan Zhang Liming Xia Xiaoyan Dong

Rhizobacteria devote a relatively large percentage of their genomes to encode bioactive natural products that are important for competition in the rhizosphere. In this study, a plant beneficial rhizobacterium Bacillus velezensis SQR9 was discovered to produce novel antibacterial fatty acids, Bacillunoic acids, which are encoded on a genomic island (GI). This GI contains a hybrid type I fatty acid synthase (FAS)-polyketide synthase (PKS) system and an ABC transporter. The FAS was predicted to synthesize a primer that was transferred to the PKS to synthesize Bacillunoic acids. The synthesized Bacillunoic acids inhibit the growth of diverse bacteria, with the strongest activity against closely related Bacillus strains, the ABC transporter exported the toxic Bacillunoic acids upon their induction for protecting the producing strain. The inhibition of other Bacillus strains by Bacillunoic acids extended the antimicrobial spectrum of SQR9 and enhanced its competition with closely related root-associated bacteria. So, through the obtaining of this GI by horizontal gene transfer, strain SQR9 not only acquired a competitive weapon but also acquired a self-protecting shield, which increased its competition with other rhizobacteria.

Primer (cosmetics)

10.1111/1462-2920.14683

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Citations (24)

Vibrio chanodichtyis sp. nov., isolated from the intestine of swordfish Chanodichthys dabryi

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (2023)

Ningning Wu Le Liu Kai Liu Jiahui Shao Zhijuan Nie

A Gram-stain-negative, facultatively anaerobic, motile, curved-rod-shaped flagellated bacterium, designated DSL-7T, was isolated from the intestine of Chanodichthys dabryi in the Yangtze river, PR China. The strain grew optimally in tryptone soy broth medium at 37 °C, pH 7.0 and with 1 % (w/v) NaCl. Strain DSL-7T showed less than 96.2 % 16S rRNA gene sequence similarity to type strains of the genus Vibrio. Phylogenetic analysis based on genomes indicated that strain DSL-7T belonged to the genus Vibrio and formed a subclade with Vibrio mimicus NCTC 11435T, Vibrio metoecus OP3HT, Vibrio cholerae ATCC 14035T, Vibrio albensis ATCC14547T, Vibrio paracholerae OP3HEDC-792T and Vibrio tarriae 2521-89T. The average nucleotide identity (ANI) and in digital DNA-DNA hybridization (dDDH) values between DSL-7T and closely related type strains were below the accepted threshold to delineate a new species of 95 and 70 %, respectively. The major cellular fatty acids were summed feature 3 (C16 : 1 ω7c and/or C16 : 1 ω6c), C16 : 0, summed feature 8 (C18 : 1 ω7c and/or C18 : 1 ω6c) and C14 : 0. The genomic DNA G+C content was 47.6 mol%. Based on the phenotypic, chemotaxonomic, phylogenetic and genomic data, strain DSL-7T represents a novel species of the genus Vibrio, for which the name Vibrio chanodichtyis sp. nov. is proposed, with strain DSL-7T (=KCTC 92851T=CCTCC AB 2022396T) as the type strain.

Strain (injury)

10.1099/ijsem.0.006117

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Citations (1)

Dissection of rhizosphere microbiome and exploiting strategies for sustainable agriculture

New Phytologist (2024)

Weibing Xun Yunpeng Liu Aiyuan Ma Yan He Youzhi Miao

Summary The rhizosphere microbiome plays critical roles in plant growth and provides promising solutions for sustainable agriculture. While the rhizosphere microbiome frequently fluctuates with the soil environment, recent studies have demonstrated that a small proportion of the microbiome is consistently assembled in the rhizosphere of a specific plant genotype regardless of the soil condition, which is determined by host genetics. Based on these breakthroughs, which involved exploiting the plant‐beneficial function of the rhizosphere microbiome, we propose to divide the rhizosphere microbiome into environment‐dominated and plant genetic‐dominated components based on their different assembly mechanisms. Subsequently, two strategies to explore the different rhizosphere microbiome components for agricultural production are suggested, that is, the precise management of the environment‐dominated rhizosphere microbiome by agronomic practices, and the elucidation of the plant genetic basis of the plant genetic‐dominated rhizosphere microbiome for breeding microbiome‐assisted crop varieties. We finally present the major challenges that need to be overcome to implement strategies for modulating these two components of the rhizosphere microbiome.

10.1111/nph.19697

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Citations (24)

Additional file 5: Table S3. of Whole transcriptomic analysis of the plant-beneficial rhizobacterium Bacillus amyloliquefaciens SQR9 during enhanced biofilm formation regulated by maize root exudates

Figshare (2015)

Nan Zhang Dongqing Yang Dandan Wang Youzhi Miao Jiahui Shao

Genes shared by Bacillus amyloliquefaciens SQR9 and B. amyloliquefaciens FZB42 but absent in Bacillus subtilis 168 (Sheet 1), or shared by SQR9 and 168 but absent in FZB42 (Sheet 2). (XLSX 77 kb)

Bacillus amyloliquefaciens

Table (database)

Bacillus (shape)

10.6084/m9.figshare.c.3616508_d6

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Citations (0)

Synthesis and detoxification of nitric oxide in the plant beneficial rhizobacterium Bacillus amyloliquefaciens SQR9 and its effect on biofilm formation

Biochemical and Biophysical Research Communications (2018)

Xiaoyan Dong Yunpeng Liu Guishan Zhang Dandan Wang Xuan Zhou

Bacillus amyloliquefaciens

Biopterin

Strain (injury)

10.1016/j.bbrc.2018.06.076

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Citations (8)