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, MARÍA LORENA; ONETTO, ANDREA LILIANA; BICH, GUSTAVO ÁNGEL; ZAPATA, PEDRO DARÍO; LACZESKI, MARGARITA ESTER

PLOS ONE

PUBLIC LIBRARY SCIENCE

Año: 2021 vol. 16 p. 1 - 17

1932-6203

Plant growth-promoting bacteria (PGPB) are a heterogeneous group of bacteria thatcan exert beneficial effects on plant growth directly or indirectly by differentmechanisms. PGPB-based inoculant formulation has been used to replace chemicalfertilizers and pesticides. In our previous studies, two endophytic endospore-formingbacteria identified as Bacillus altitudinis were isolated from roots of Ilexparaguariensis St. Hil. seedlings and selected for their plant growth-promoting (PGP)properties shown in vitro and in vivo . The purposes of this work were to assemblethe genomes of B. altitudinis 19RS3 and T5S-T4, using different assemblers availablefor Windows and Linux and to select the best assembly for each strain. Both genomeswere also automatically annotated to detect PGP genes and compare sequences withother genomes reported.Library construction and draft genome sequencing were performed by Macrogenservices. Raw reads were filtered using the Trimmomatic tool. Genomes wereassembled using SPAdes, ABySS, Velvet, and SOAPdenovo2 assemblers for Linux,and Geneious and CLC Genomics Workbench assemblers for Windows. Assemblyevaluation was done by the QUAST tool. The parameters evaluated were the numberof contigs ≥ 500 bp and ≥ 1000 bp, the length of the longest contig, and the N50value. For genome annotation PROKKA, RAST, and KAAS tools were used. The bestassembly 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.altitudinis T5S-T4 genome was assembled into 24 contigs with an N50 of 344,151 bp.Both genomes comprise several genes related to PGP mechanisms, such as those fornitrogen fixation, iron metabolism, phosphate metabolism, and auxin biosynthesis. Theresults obtained offer the basis for a better understanding of B. altitudinis 19RS3 andT5S-T4 and make them promissory for a bioinoculant development.