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1. Complete genome sequence and analysis of Alcaligenes faecalis strain Mc250, a new potential plant bioinoculant.

Author

Érica Barbosa Felestrino, Angélica Bianchini Sanchez, Washington Luiz Caneschi, Camila Gracyelle de Carvalho Lemes, Renata de Almeida Barbosa Assis, Isabella Ferreira Cordeiro, Natasha Peixoto Fonseca, Morghana Marina Villa, Izadora Tabuso Vieira, Luciana Hiromi Yoshino Kamino, Flávio Fonseca do Carmo, Aline Maria da Silva, Andrew Maltez Thomas, José Salvatore Leister Patané, Fernanda Carla Ferreira, Leandro Grassi de Freitas, Alessandro de Mello Varani, Jesus Aparecido Ferro, Robson Soares Silva, Nalvo Franco Almeida, Camila Carrião Machado Garcia, João Carlos Setubal, and Leandro Marcio Moreira

Subjects
Medicine, Science
Abstract

Here we present and analyze the complete genome of Alcaligenes faecalis strain Mc250 (Mc250), a bacterium isolated from the roots of Mimosa calodendron, an endemic plant growing in ferruginous rupestrian grasslands in Minas Gerais State, Brazil. The genome has 4,159,911 bp and 3,719 predicted protein-coding genes, in a single chromosome. Comparison of the Mc250 genome with 36 other Alcaligenes faecalis genomes revealed that there is considerable gene content variation among these strains, with the core genome representing only 39% of the protein-coding gene repertoire of Mc250. Mc250 encodes a complete denitrification pathway, a network of pathways associated with phenolic compounds degradation, and genes associated with HCN and siderophores synthesis; we also found a repertoire of genes associated with metal internalization and metabolism, sulfate/sulfonate and cysteine metabolism, oxidative stress and DNA repair. These findings reveal the genomic basis for the adaptation of this bacterium to the harsh environmental conditions from where it was isolated. Gene clusters associated with ectoine, terpene, resorcinol, and emulsan biosynthesis that can confer some competitive advantage were also found. Experimental results showed that Mc250 was able to reduce (~60%) the virulence phenotype of the plant pathogen Xanthomonas citri subsp. citri when co-inoculated in Citrus sinensis, and was able to eradicate 98% of juveniles and stabilize the hatching rate of eggs to 4% in two species of agricultural nematodes. These results reveal biotechnological potential for the Mc250 strain and warrant its further investigation as a biocontrol and plant growth-promoting bacterium.

Published
2020
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2. Complete genome sequence and analysis of Alcaligenes faecalis strain Mc250, a new potential plant bioinoculant

Author

Fernanda Carla Ferreira, Angélica Bianchini Sanchez, José S. L. Patané, Alessandro M. Varani, Washington Luiz Caneschi, Renata de Almeida Barbosa Assis, Aline Maria Da Silva, Érica Barbosa Felestrino, Leandro Marcio Moreira, Morghana Marina Villa, Jesus Aparecido Ferro, Leandro Grassi de Freitas, Natasha Peixoto Fonseca, Isabella Ferreira Cordeiro, Flávio Fonseca do Carmo, Luciana Hiromi Yoshino Kamino, Andrew Maltez Thomas, João C. Setubal, Camila Carrião Machado Garcia, Robson Soares Silva, Nalvo F. Almeida, Izadora Tabuso Vieira, Camila Gracyelle de Carvalho Lemes, Universidade Federal de Ouro Preto, Universidade Federal de Ouro Preto (UFOP), Instituto Pristino, Universidade de São Paulo (USP), Universidade Federal de Viçosa (UFV), Universidade Estadual Paulista (Unesp), and Universidade Federal de Mato Grosso do Sul (UFMS)

Subjects
Citrus, Mimosa, Nematoda, Denitrification pathway, Gene Expression, Protein Synthesis, Ectoine, Genome, Biochemistry, Xanthomonas citri, chemistry.chemical_compound, Phylogeny, Protein Metabolism, Genetics, 0303 health sciences, Multidisciplinary, Bacterial Genomics, Alcaligenes faecalis, Microbial Genetics, Chemical Synthesis, food and beverages, Drug Resistance, Microbial, Genomics, Anti-Bacterial Agents, Chemistry, Physical Sciences, Medicine, Metabolic Pathways, DNA, Circular, Research Article, Biosynthetic Techniques, Genomic Islands, Iron, Science, Microbial Genomics, Biology, Research and Analysis Methods, Microbiology, 03 medical and health sciences, Phenols, BACTÉRIAS GRAM-NEGATIVAS, Metals, Heavy, Bacterial Genetics, Animals, Gene Regulation, Gene, 030304 developmental biology, Whole genome sequencing, Base Sequence, Whole Genome Sequencing, 030306 microbiology, Chemical Compounds, Biology and Life Sciences, Computational Biology, Proteins, Bacteriology, biology.organism_classification, Genome Analysis, Metabolism, chemistry, Genome, Bacterial
Abstract

Made available in DSpace on 2021-06-25T10:44:05Z (GMT). No. of bitstreams: 0 Previous issue date: 2020-11-01 Here we present and analyze the complete genome of Alcaligenes faecalis strain Mc250 (Mc250), a bacterium isolated from the roots of Mimosa calodendron, an endemic plant growing in ferruginous rupestrian grasslands in Minas Gerais State, Brazil. The genome has 4,159,911 bp and 3,719 predicted protein-coding genes, in a single chromosome. Comparison of the Mc250 genome with 36 other Alcaligenes faecalis genomes revealed that there is considerable gene content variation among these strains, with the core genome representing only 39% of the protein-coding gene repertoire of Mc250. Mc250 encodes a complete denitrification pathway, a network of pathways associated with phenolic compounds degradation, and genes associated with HCN and siderophores synthesis; we also found a repertoire of genes associated with metal internalization and metabolism, sulfate/sulfonate and cysteine metabolism, oxidative stress and DNA repair. These findings reveal the genomic basis for the adaptation of this bacterium to the harsh environmental conditions from where it was isolated. Gene clusters associated with ectoine, terpene, resorcinol, and emulsan biosynthesis that can confer some competitive advantage were also found. Experimental results showed that Mc250 was able to reduce (∼60%) the virulence phenotype of the plant pathogen Xanthomonas citri subsp. citri when co-inoculated in Citrus sinensis, and was able to eradicate 98% of juveniles and stabilize the hatching rate of eggs to 4% in two species of agricultural nematodes. These results reveal biotechnological potential for the Mc250 strain and warrant its further investigation as a biocontrol and plant growth-promoting bacterium. Núcleo de Pesquisas em Ciências Biológicas (NUPEB) Universidade Federal de Ouro Preto Departamento de Ciências Biológicas (DECBI) Instituto de Ciências Exatas e Biológicas (ICEB) Universidade Federal de Ouro Preto (UFOP) Instituto Pristino Departamento de Bioquimica (DBQ) Instituto de Quimica (IQ) Universidade de São Paulo (USP) Instituto de Biotecnologia Aplicada a Agropecuária (BIOAGRO) Universidade Federal de Vicosa (UFV) Departamento de Tecnologia Faculdade de Ciências Agrárias e Veterinárias de Jaboticabal (FCAV) Universidade Estadual Paulista (UNESP) Faculdade de Computação (FACOM) Universidade Federal de Mato Grosso do Sul Departamento de Tecnologia Faculdade de Ciências Agrárias e Veterinárias de Jaboticabal (FCAV) Universidade Estadual Paulista (UNESP)

Published
2020

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