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Microbiol. Biotechnol. Lett. 2023; 51(3): 296-299
Amani Sliti1, Min-Ji Kim1, GyuDae Lee1, Yeong-Jun Park2, and Jae-Ho Shin1,2*
1Department of Applied Biosciences, 2NGS Core Facility, Kyungpook National University, Daegu 41566, Republic of Korea
Correspondence to :
Jae-Ho Shin, firstname.lastname@example.org
We present the complete genome sequence of Priestia aryabhattai strain S2 isolated from the soybean rhizosphere. The genome consists of a single circular chromosome of 5,070,860 bp with a G+C content of 38.3% and 2 plasmids, P1(148,124 bp, GC content 33.3%) and P2 (76,418 bp, GC content 36.5%).
Keywords: Priestia aryabhattai, genome, soybean, rhizosphere
The increasing reliance on chemical fertilizers for enhancing agricultural productivity has raised grave environmental concerns. The uncontrolled usage of these chemicals has led to the pollution of the ecosystem, the contamination of food, and significant risks to human health. As an alternative approach, exploring the potential of plant growth-promoting bacteria (PGPB) offers a sustainable solution to improve crop production and stress resilience while reducing our dependence on harmful chemicals such as pesticides . Consequently, biofertilizers based on PGPB inoculants are becoming more prominent due to their eco-friendly nature and ability to enhance soil fertility and plant growth sustainably [2, 3].
In this study,
Genomic DNA was extracted from bacterial cells grown overnight at 30℃ in tryptic soy broth using the Wizard® Genomic DNA Purification Kit (Promega, USA) following the manufacturer’s instructions. Further, DNA concentration and quality were measured using the Qubit fluorometer 2.0 (Thermo Fisher Scientific, USA) and the NanoDrop UV-Vis spectrophotometer (Thermo Fisher Scientific), respectively. Prior to the construction of the sequencing library, genomic DNA was not subjected to size selection. Furthermore, the sequencing library was constructed with the Oxford Nanopore Technology using the V14 kit chemistry (SQK-LSK114, Oxford Nanopore Technologies, UK) according to the manufacturer’s instructions. This technique includes minimal fragmentation of the genomic input DNA in a sequence independent manner. The ligation kit was used to prepare the sequencing library using the NEBNext ® Module (New England Biolabs, USA). Additionally, Genomic DNA was sequenced on an R10.4.1 flow cell using the MinION device. FASTQ files were generated by Guppy v4.4.1 software with high accuracy mode. In addition, low-quality reads (5% of worst fastq reads) were removed using Filtlong v0.2.1 with default parameters . The sequencing was performed at the KNU NGS Core Facility (Korea).
The sequencing produced a total of 116,000 reads (791,903,685 bp) with an estimated genome coverage of 149 x and a relative N50 (rN50) of 13,578 bp. A
The average nucleotide identity was conducted between the genome of
Genomic functional annotation of
The applications of
The genomic investigation of
The genome sequence of
This work was carried out with the support of “The Cooperative Research Program for Agriculture Science & Technology Development (Project No. PJ015697)” Rural Development Administration, Republic of Korea. Supported by Korea Basic Science Institute (National Research Facilities and Equipment Center) grant funded by the Ministry of Education (2021R1A6C101A416) and by a project to train professional personnel in biological materials by the Ministry of Environment. We express our sincere appreciation to the Kyungpook National University NGS Core Facility for collaborative efforts in facilitating the Nanopore sequencing.
The authors have no financial conflicts of interest to declare.
Sihyun Park, GyuDae Lee, Ikwhan Kim, Yeongyu Jeong, and Jae-Ho ShinMicrobiol. Biotechnol. Lett. 2023; 51(3): 306-308 https://doi.org/10.48022/mbl.2307.07013
Jeong-Seon Kim, Parthiban Subramanian, Seunghwan Kim, Jun Heo, Bong-Sik Yun, and Yiseul KimMicrobiol. Biotechnol. Lett. 2023; 51(3): 328-331 https://doi.org/10.48022/mbl.2307.07002
Junghyun Park, Jong Hun Kim, and Do-Won JeongMicrobiol. Biotechnol. Lett. 2023; 51(2): 208-211 https://doi.org/10.48022/mbl.2306.06001