Abstract
Acinetobacter species have been reported as opportunistic pathogens. Here, we report the draft genome sequence of Acinetobacter sp. HR7 isolated from the rumen of cannulated Korean native cattle (Hanwoo; Bos taurus coreanae).
GENOME ANNOUNCEMENT
The genus Acinetobacter comprises aerobic, nonfermenting, nonmotile, and Gram-negative coccobacilli. It was first described by Brisou and Prévot in 1954 and currently consists of 33 distinct species with validly published names (http://www.bacterio.cict.fr/a/acinetobacter.html). Acinetobacter species have been isolated in nature, such as in soil, water, dry environments, and on hospital equipment (1). Certain Acinetobacter species have emerged as pathogens that have been found in intensive care units (ICUs) (2). In the course of investigating the microbial diversity of the rumen of Korean native cattle and isolating culturable microbes, a novel Acinetobacter sp. was isolated from fluid in the rumen. Recently, Acinetobacter sp. was reported to be found in the rumens of dairy cattle through a pyrosequencing process (3, 4). However, no species have been isolated and/or identified in cattle rumen thus far. In this article, we announce the draft genome sequence of Acinetobacter sp. HR7. It is the first draft genome sequence of the genus Acinetobacter sp. to originate from a bovine rumen.
The HR7 genome was sequenced using an Illumina HiSeq 2000 system at the Genome Research Center of the Korea Research Institute of Bioscience and Bioengineering (KRIBB). A total of 12,307,475 paired-end reads (396.8-fold coverage) were obtained from the HiSeq 100-bp paired-end library and were preprocessed and de-novo-assembled using the CLC Genomics Workbench (CLC bio), version 7.5. The genome sequence was assembled into 221 scaffolds (227 contigs). The sizes of the largest and the N50 contigs were 113,099 and 27,989 bp, respectively. The open reading frames (ORFs) of the assembled genome were predicted and annotated using the Integrated Microbial Genomes—Expert Review (IMG-ER) (5), NCBI Clusters of Orthologous Groups (COG) (6), Pfam (7), and EzTaxon-e (8) databases, and the rRNA genes and tRNA genes were identified with the RNAmmer 1.2 (9) and tRNAscan-SE 1.23 (10) tools, respectively. The draft genome of Acinetobacter sp. HR7 was 3,132,425 bp. The G+C content was 43.5%, and ORF were 2,938. The numbers of tRNA and rRNA, and the protein coding genes with functions were 75, 3 and 1,682, respectively.
Based on the annotation results, 5 genes were found to be related to multidrug resistance and one gene is coded for beta-lactamase. One mechanism of resistance to beta-lactams of A. baumannii is considered to be the expression of oxacillinases (OXA) for hydrolyzing carbapenem (11) and a gene coding OXA-like protein was also found in the HR7 genome. These findings indicate that the isolate is resistant to multiple types of antibiotics. In addition, a putative siderophore biosynthesis operon and three genes for TonB-like proteins related to ferric siderophore transport systems were found in the genome, indicating that the isolate could be a pathogen because the expression of siderophores is thought to be one of the pathogenic mechanisms of A. baumannii infection (12). The partial sequence of the16S rRNA gene of the isolate showed 98.1% similarity to that of A. schindleri. The potential pathogenicity of the novel Acinetobacter sp. HR7 from the bovine rumen requires further study.
Nucleotide sequence accession numbers.
The draft genome sequence of Acinetobacter sp. HR7 is available in DDBJ/EMBL/GenBank under the accession no. JPQO00000000. The partial sequence of the 16S rRNA gene of Acinetobacter sp. HR7 has been deposited into the GenBank database under the accession no. KJ670315.1.
ACKNOWLEDGMENTS
This work was supported by the Research Program for Agricultural Science & Technology Development (project PJ010168) and was partially supported by grants from the National Research Foundation of Korea (NRF) (2008-2004721 and 2013M3A9A5076601), KRIBB Research Initiative Programs (KGM4111443 and KCM1051413), and the Korea Health Technology R&D Project through the Korea Health Industry Development Institute (KHIDI), funded by the Ministry of Health & Welfare, Republic of Korea (grant HI14C 03680200).
Footnotes
Citation Chang D-H, Rhee M-S, Jeong H, Kim S, Kim B-C. 2015. Draft genome sequence of Acinetobacter sp. HR7, isolated from Hanwoo, Korean native cattle. Genome Announc 3(1):e01358-14. doi:10.1128/genomeA.01358-14.
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