De novo genome assembly of Bacillus altitudinis 19RS3 and Bacillus altitudinis T5S-T4, two plant growth-promoting bacteria isolated from Ilex paraguariensis St. Hil. (yerba mate)

CORTESE, ILIANA JULIETA; CASTRILLO, MARIA LORENA; ONETTO, ANDREA LILIANA; BICH, GUSTAVO ANGEL; ZAPATA, PEDRO DARIO; LACZESKI, MARGARITA ESTER

PLOS ONE

PUBLIC LIBRARY SCIENCE

Lugar: San Francisco; Año: 2021 vol. 16

1932-6203

Plant growth-promoting bacteria (PGPB) are a heterogeneous group of bacteria that canexert beneficial effects on plant growth directly or indirectly by different mechanisms.PGPB-based inoculant formulation has been used to replace chemical fertilizers and pesticides. In our previous studies, two endophytic endospore-forming bacteria identified asBacillus altitudinis were isolated from roots of Ilex paraguariensis St. Hil. seedlings andselected for their plant growth-promoting (PGP) properties shown in vitro and in vivo. Thepurposes of this work were to assemble the genomes of B. altitudinis 19RS3 and T5S-T4,using different assemblers available for Windows and Linux and to select the best assemblyfor each strain. Both genomes were also automatically annotated to detect PGP genes andcompare sequences with other genomes reported. Library construction and draft genomesequencing were performed by Macrogen services. Raw reads were filtered using the Trimmomatic tool. Genomes were assembled using SPAdes, ABySS, Velvet, and SOAPdenovo2 assemblers for Linux, and Geneious and CLC Genomics Workbench assemblers forWindows. Assembly evaluation was done by the QUAST tool. The parameters evaluatedwere the number of contigs � 500 bp and � 1000 bp, the length of the longest contig, andthe N50 value. For genome annotation PROKKA, RAST, and KAAS tools were used. Thebest assembly for both genomes was obtained using Velvet. The B. altitudinis 19RS3genome was assembled into 15 contigs with an N50 value of 1,943,801 bp. The B. altitudinisT5S-T4 genome was assembled into 24 contigs with an N50 of 344,151 bp. Both genomescomprise several genes related to PGP mechanisms, such as those for nitrogen fixation,iron metabolism, phosphate metabolism, and auxin biosynthesis. The results obtained offerthe basis for a better understanding of B. altitudinis 19RS3 and T5S-T4 and make thempromissory for bioinoculant development.