Comparative Genomic Analysis of Biofilm-Forming Polar Microbacterium sp. Strains PAMC22086 and PAMC21962 Isolated from Extreme Habitats
The members of Microbacterium isolated from different environments are known to form peptidoglycan. In this study, we compared the biofilm-forming abilities of Microbacterium sp. PAMC22086 (PAMC22086), which was isolated from the soil in the South Shetland Islands and Microbacterium sp. PAMC21962 (P...
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ftdoajarticles:oai:doaj.org/article:e1fd27fce401413098f08e26c8bba613 2023-08-20T04:09:53+02:00 Comparative Genomic Analysis of Biofilm-Forming Polar Microbacterium sp. Strains PAMC22086 and PAMC21962 Isolated from Extreme Habitats Byeollee Kim Saru Gurung So-Ra Han Jun-Hyuck Lee Tae-Jin Oh 2023-07-01T00:00:00Z https://doi.org/10.3390/microorganisms11071757 https://doaj.org/article/e1fd27fce401413098f08e26c8bba613 EN eng MDPI AG https://www.mdpi.com/2076-2607/11/7/1757 https://doaj.org/toc/2076-2607 doi:10.3390/microorganisms11071757 2076-2607 https://doaj.org/article/e1fd27fce401413098f08e26c8bba613 Microorganisms, Vol 11, Iss 1757, p 1757 (2023) comparative genomics polar bacteria biofilm production Microbacterium microtiter dish biofilm formation assay Biology (General) QH301-705.5 article 2023 ftdoajarticles https://doi.org/10.3390/microorganisms11071757 2023-07-30T00:35:07Z The members of Microbacterium isolated from different environments are known to form peptidoglycan. In this study, we compared the biofilm-forming abilities of Microbacterium sp. PAMC22086 (PAMC22086), which was isolated from the soil in the South Shetland Islands and Microbacterium sp. PAMC21962 (PAMC21962), which was isolated from algae in the South Shetland Islands. The analysis of average nucleotide identity and phylogeny of PAMC22086 revealed a 97% similarity to Microbacterium oxydans VIU2A, while PAMC21962 showed a 99.1% similarity to Microbacterium hominis SGAir0570. For the comparative genomic analysis of PAMC22086 and PAMC21962, the genes related to biofilm formation were identified using EggNOG and KEGG pathway databases. The genes possessed by both PAMC22086 and PAMC21962 are cpdA , phnB , rhlC , and glgC , which regulate virulence, biofilm formation, and multicellular structure. Among the genes indirectly involved in biofilm formation, unlike PAMC21962, PAMC22086 possessed csrA , glgC , and glgB , which are responsible for attachment and glycogen biosynthesis. Additionally, in PAMC22086, additional functional genes rsmA, which is involved in mobility and polysaccharide production, and dksA , GTPase, and oxyR, which play roles in cell cycle and stress response, were identified. In addition, the biofilm-forming ability of the two isolates was examined in vivo using the standard crystal violet staining technique, and morphological differences in the biofilm were investigated. It is evident from the different distribution of biofilm-associated genes between the two strains that the bacteria can survive in different niches by employing distinct strategies. Both strains exhibit distinct morphologies. PAMC22086 forms a biofilm that attaches to the side, while PAMC21962 indicates growth starting from the center. The biofilm formation-related genes in Microbacterium are not well understood. However, it has been observed that Microbacterium species form biofilm regardless of the number of genes they possess. ... Article in Journal/Newspaper South Shetland Islands Directory of Open Access Journals: DOAJ Articles South Shetland Islands Microorganisms 11 7 1757 |
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Open Polar |
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Directory of Open Access Journals: DOAJ Articles |
op_collection_id |
ftdoajarticles |
language |
English |
topic |
comparative genomics polar bacteria biofilm production Microbacterium microtiter dish biofilm formation assay Biology (General) QH301-705.5 |
spellingShingle |
comparative genomics polar bacteria biofilm production Microbacterium microtiter dish biofilm formation assay Biology (General) QH301-705.5 Byeollee Kim Saru Gurung So-Ra Han Jun-Hyuck Lee Tae-Jin Oh Comparative Genomic Analysis of Biofilm-Forming Polar Microbacterium sp. Strains PAMC22086 and PAMC21962 Isolated from Extreme Habitats |
topic_facet |
comparative genomics polar bacteria biofilm production Microbacterium microtiter dish biofilm formation assay Biology (General) QH301-705.5 |
description |
The members of Microbacterium isolated from different environments are known to form peptidoglycan. In this study, we compared the biofilm-forming abilities of Microbacterium sp. PAMC22086 (PAMC22086), which was isolated from the soil in the South Shetland Islands and Microbacterium sp. PAMC21962 (PAMC21962), which was isolated from algae in the South Shetland Islands. The analysis of average nucleotide identity and phylogeny of PAMC22086 revealed a 97% similarity to Microbacterium oxydans VIU2A, while PAMC21962 showed a 99.1% similarity to Microbacterium hominis SGAir0570. For the comparative genomic analysis of PAMC22086 and PAMC21962, the genes related to biofilm formation were identified using EggNOG and KEGG pathway databases. The genes possessed by both PAMC22086 and PAMC21962 are cpdA , phnB , rhlC , and glgC , which regulate virulence, biofilm formation, and multicellular structure. Among the genes indirectly involved in biofilm formation, unlike PAMC21962, PAMC22086 possessed csrA , glgC , and glgB , which are responsible for attachment and glycogen biosynthesis. Additionally, in PAMC22086, additional functional genes rsmA, which is involved in mobility and polysaccharide production, and dksA , GTPase, and oxyR, which play roles in cell cycle and stress response, were identified. In addition, the biofilm-forming ability of the two isolates was examined in vivo using the standard crystal violet staining technique, and morphological differences in the biofilm were investigated. It is evident from the different distribution of biofilm-associated genes between the two strains that the bacteria can survive in different niches by employing distinct strategies. Both strains exhibit distinct morphologies. PAMC22086 forms a biofilm that attaches to the side, while PAMC21962 indicates growth starting from the center. The biofilm formation-related genes in Microbacterium are not well understood. However, it has been observed that Microbacterium species form biofilm regardless of the number of genes they possess. ... |
format |
Article in Journal/Newspaper |
author |
Byeollee Kim Saru Gurung So-Ra Han Jun-Hyuck Lee Tae-Jin Oh |
author_facet |
Byeollee Kim Saru Gurung So-Ra Han Jun-Hyuck Lee Tae-Jin Oh |
author_sort |
Byeollee Kim |
title |
Comparative Genomic Analysis of Biofilm-Forming Polar Microbacterium sp. Strains PAMC22086 and PAMC21962 Isolated from Extreme Habitats |
title_short |
Comparative Genomic Analysis of Biofilm-Forming Polar Microbacterium sp. Strains PAMC22086 and PAMC21962 Isolated from Extreme Habitats |
title_full |
Comparative Genomic Analysis of Biofilm-Forming Polar Microbacterium sp. Strains PAMC22086 and PAMC21962 Isolated from Extreme Habitats |
title_fullStr |
Comparative Genomic Analysis of Biofilm-Forming Polar Microbacterium sp. Strains PAMC22086 and PAMC21962 Isolated from Extreme Habitats |
title_full_unstemmed |
Comparative Genomic Analysis of Biofilm-Forming Polar Microbacterium sp. Strains PAMC22086 and PAMC21962 Isolated from Extreme Habitats |
title_sort |
comparative genomic analysis of biofilm-forming polar microbacterium sp. strains pamc22086 and pamc21962 isolated from extreme habitats |
publisher |
MDPI AG |
publishDate |
2023 |
url |
https://doi.org/10.3390/microorganisms11071757 https://doaj.org/article/e1fd27fce401413098f08e26c8bba613 |
geographic |
South Shetland Islands |
geographic_facet |
South Shetland Islands |
genre |
South Shetland Islands |
genre_facet |
South Shetland Islands |
op_source |
Microorganisms, Vol 11, Iss 1757, p 1757 (2023) |
op_relation |
https://www.mdpi.com/2076-2607/11/7/1757 https://doaj.org/toc/2076-2607 doi:10.3390/microorganisms11071757 2076-2607 https://doaj.org/article/e1fd27fce401413098f08e26c8bba613 |
op_doi |
https://doi.org/10.3390/microorganisms11071757 |
container_title |
Microorganisms |
container_volume |
11 |
container_issue |
7 |
container_start_page |
1757 |
_version_ |
1774723628730941440 |