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

Author:

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

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.

Funder

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior

Conselho Nacional de Desenvolvimento Científico e Tecnológico

Fundação de Amparo à Pesquisa do Estado de Minas Gerais

Fundação de Apoio ao Desenvolvimento do Ensino, Ciência e Tecnologia do Estado de Mato Grosso do Sul

Universidade Federal de Ouro Preto

Publisher

Public Library of Science (PLoS)

Subject

Multidisciplinary

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