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A computational approach to identify CRISPR-Cas loci in the complete genomes of the lichen-associated Burkholderia sp. PAMC28687 and PAMC26561

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Title
A computational approach to identify CRISPR-Cas loci in the complete genomes of the lichen-associated Burkholderia sp. PAMC28687 and PAMC26561
Other Titles
남극 지의류 공생 미생물 2종 (Burkholderia sp. PAMC28687 and PAMC26561) 의 유전체 분석을 통한 CRISPR-Cas 관련 유전자 발견
Authors
Shrestha, Prasansah
Han, So-Ra
Lee, Jun Hyuck
Park, Hyun
Oh, Tae-Jin
Subject
Biotechnology & Applied MicrobiologyGenetics & Heredity
Keywords
Burkholderia PAMC26561Burkholderia PAMC28687CRISPR-Cas classificationLichen
Issue Date
2021-05
Citation
Shrestha, Prasansah, et al. 2021. "A computational approach to identify CRISPR-Cas loci in the complete genomes of the lichen-associated Burkholderia sp. PAMC28687 and PAMC26561". GENOMICS, 113(3): 881-888.
Abstract
The genus Burkholderia and its strains PAMC28687 and PAMC26561 are lichen-associated bacteria isolated from the Antarctic region. Our study is the first to provide the genome sequence of the Burkholderia sp. PAMC26561 strain. The genus Burkholderia includes bacteria that are pathogenic to plants, animals, and humans. Computational analysis of complete genomes of strains from the uncategorized Burkholderia group was performed using the NCBI databank and PATRIC (for genome sequence information) and CRISPRCasFinder (online and offline versions) software in order to predict the CRISPR loci and Cas genes. The RNAfold Webserver online software was used to predict RNA secondary structures. Our study showed that strain MSMB0852 (plasmid) possesses CRISPR-Cas system Class 2, and two lichen-associated strains, PAMC28687 (chromosome I) and PAMC26561 (chromosome I), possess CRISPR-Cas system Class 1. Additionally, only the two lichen-associated strains possess a variety of Cas genes.
URI
https://repository.kopri.re.kr/handle/201206/13032
DOI
http://dx.doi.org/10.1016/j.ygeno.2021.01.019
Type
Article
Station
King Sejong Station
Indexed
SCIE
Appears in Collections  
2020-2020, Development of potential candidates as antibiotics based on polar genetic resources (20-20) / Lee, Jun Hyuck (PM20030)
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