Bacillus kwashiorkori sp. nov., a new bacterial species isolated from a malnourished child using culturomics

Abstract

Strain SIT6T was isolated from the fecal flora of a severely malnourished child as part of a broad “culturomics” study aiming to maximize the culture conditions for the in‐depth exploration of the human microbiota. An analysis of the 16S rRNA gene sequence showed that strain SIT6T shared 94.1% 16S rRNA gene sequence similarity with Bacillus thermoamylovorans DKPT (NR_029151), the phylogenetically closest type species. Colonies are creamy white, circular, 4–5 mm in diameter after cultivation at 37°C for 24 hr on 5% sheep blood‐enriched Colombia agar. Growth occurs at temperatures in the range of 25–56°C (optimally at 37°C). Strain SIT6T is a gram‐positive, facultative anaerobic rod and motile by means of peritrichous flagella and sporulating; it is catalase and oxidase positive. The 2,784,637‐bp‐long genome, composed of 16 contigs, has a G+C content of 35.19%. Of the 2,646 predicted genes, 2,572 were protein‐coding genes and 74 were RNAs. The major fatty acids are saturated species (15:0 iso, 16:0 and 17:0 anteiso). Of the 14 detected fatty acids, 11 are saturated, either linear or branched (iso and anteiso). Digital DNA–DNA hybridization (dDDH) estimation and average genomic identity of orthologous gene sequences (AGIOS) of the strain SIT6T against genomes of the type strains of related species ranged between 18.6% and 38.3% and between 54.77% and 65.50%, respectively. According to our taxonogenomics results, we propose the creation of Bacillus kwashiorkori sp. nov. that contains the type strain SIT6T (=CSUR P2452T, =DSM 29059T).

Bacterial Microbiota in Unfed Ticks (Dermacentor nuttalli) From Xinjiang Detected Through 16S rDNA Amplicon Sequencing and Culturomics

“…Bacterial identification with MALDI-TOF mass spectrometry and 16S rDNA sequencing When colonies appeared, four colonies with the same morphology were selected randomly, and three-zone inoculation was performed for further isolation. Bacteria were identified with matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) mass spectrometry (BrukerDaltonics, Germany; AutoBio, China) according to the manufacturer's recommendations [25,26]. Additionally, for isolates that could not be identified by MALDI-TOF, PCR was performed on 16S rDNA with the universal primer pairs 27F/1492R, and the products were analyzed with BLAST from NCBI (https://blast.ncbi.nlm.nih.gov/ Blast.cgi?PAGE_TYPE=BlastSearch) and RDP (https:// rdp.cme.msu.edu/classifier/classifier.jsp).…”