Year: 2024
Type: article
Abstract: Acetic acid bacteria are strictly aerobic, Gram-negative, and non-spore-forming bacteria belonging to the family Acetobacteraceae and typically exhibit optimal growth at pH 5-6.5, with the ability to grow at pH 3-4 [1].Acetobacter is commonly found in alcoholic, acidic, sugary habitats, including traditional fermented foods and alcoholic beverages like vinegar, kombucha, sour beer, and water kefir [2,3].Acetobacter oryzifermentans was isolated from Korean traditional vinegar and proposed as a novel species due to its low average nucleotide identity (ANI) value (<91.0%) and in silico DNA-DNA hybridization (DDH) values (44.2%) with A. pasteurianus, despite its high 16S rRNA gene sequence similarity (>99.59%) to A. pasteurianus [4]. A. oryzifermentans AFY-4, known for its high acetic acid production and tolerance to low pH 3 [5], was previously reported as A. pasteurianus AFY-4 based on 16S rRNA sequences.This study confirmed that the AFY-4 strain is A. oryzifermentans based on genome sequence and present draft genome information.A. oryzifermentans AFY-4 was incubated in YCM broth (0.5% yeast extract, 1.0% CaCO 3 , 2.5% mannitol, 3.0% ethanol) at 25℃ for 48 h.Genomic DNA was extracted using the FastDNA TM spin kit (MP Biomedicals, USA) according to the manufacturer's instructions.Size selection was performed using the BluePippin TM size selection system (Sage Science, USA) according to the PacBio 20-kb library protocol.The sequencing library was prepared using the SMRTbell template prep kit 1.0 (Pacific Biosciences, USA).It was sequenced using the PacBio RS II sequencer (Pacific Biosciences) based on a single molecule, real-time (SMRT) sequencing technology.The library was filtered for genome assembly using the hierarchical genome assembly process (HGAP, ver.2) protocol with default parameter in SMRT analysis software (ver.2.3.0)[6].Acetobacter oryzifermentans AFY-4, a potent acetic acid producer, was isolated from traditional Korean rice vinegar.This study presents the draft genome sequence of A. oryzifermentans AFY-4.The genome of A. oryzifermentans AFY-4 is 3,222,280 bp in length, with a G+C content of 52.5%, including 2,962 protein-coding sequences (CDSs), 57 transfer RNA genes, and 15 ribosomal RNA genes.A. oryzifermentans AFY-4 exhibited high orthologous average nucleotide identity values with other A. oryzifermentans strains, including SLV-7, DmCS_004, and DM001.Pan-and core-genome analysis showed that the AFY-4 strain is more closely related to the SLV-7 strain than other A. oryzifermentans strains.
Authors: Ha-Yeon Lee, Jeong-Ah Yoon, Jae-Geel Lim, Hye-Jeong Kwon, Eun-Hee Park, Myoung-Dong Kim
Institution: Kangwon National University
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
SDG: Zero hunger
Open Access status: bronze
Award: G928482144
OpenAlex ID: W4405871647