Open AccessPseudomonas lalkuanensis sp. nov., isolated from a bacterial consortia of contaminated soil enriched for the remediation of e-waste
Author(s) -
Vipool Thorat,
Kiran Kirdat,
Bhavesh Tiwarekar,
Elaine DaCosta,
Prasenjit Debbarma,
Yogesh S. Shouche,
Shivaji Sathe,
Reeta Goel,
Tushar Lodha,
Amit Yadav
Publication year - 2020
Publication title -
international journal of systematic and evolutionary microbiology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.925
H-Index - 173
eISSN - 1466-5034
pISSN - 1466-5026
DOI - 10.1099/ijsem.0.004559
Subject(s) - biology , 16s ribosomal rna , microbiology and biotechnology , rpob , pseudomonas , strain (injury) , phylogenetic tree , bacteria , genome size , phylogenetics , genome , gene , genetics , anatomy
A novel e-waste-degrading strain, PE08 T , was isolated from contaminated soil collected from a paper mill yard in Lalkuan, Uttarakhand, India. Strain PE08 T was Gram-stain-negative, rod-shaped, aerobic, oxidase-positive and catalase-positive. Optimum growth was observed at 30 °C (range, 5–40 °C), with 1–2 % NaCl (range, 0–3 %) and at pH 7 (range 6–11). The phylogeny based on 16S rRNA gene sequences delineated strain PE08 T to the genus Pseudomonas and showed highest sequence similarity to Pseudomonas furukawaii KF707 T (98.70 %), followed by Pseudomonas aeruginosa DSM 50071 T (98.62 %) and Pseudomonas resinovorans DSM 21078 T (97.93 %). The genome of strain PE08 T was sequenced and had one scaffold of 6056953 bp, 99.84 % completeness and 182× coverage were obtained. The G+C content in the genome was 64.24 mol%. The DNA–DNA hybridization and average nucleotide identity values between strain PE08 T and its closely related type strain, P. resinovorans DSM 21078 T were below 34.8 % and 87.96 %, respectively. The phylogenetic analysis based on whole-genome sequence and concatenated GyrB and RpoB proteins revealed that strain PE08 T forms a district clade in the family Pseudomonadaceae . The predominant fatty acids were summed feature 8 (C 18 : 1 ω7 c and/or C 18 :1 ω6 c ), summed feature 3 (C 16 : 1 ω7 c and/or C 16 : 1 ω6 c ), C 16 : 0 and C 12 : 0 . The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The phenotypic, chemotaxonomic and genetic analysis, including overall genome relatedness index values, indicated that strain PE08 T represents a novel species of the genus Pseudomonas , for which the name Pseudomonas lalkuanensis sp. nov. is proposed. The type strain is PE08 T (=MCC 3792=KCTC 72454=CCUG 73691).