Draft genome sequence of a new carotenoid-producing strain Brevibacterium sp. XU54, isolated from radioactive soil in Xinjiang, China

Zhang, Zhidong; Huang, Chun-Yan; Du, Bangmian; Xie, Chengzhi; Jiang, Ling; Tang, Shuming; Xu, Xing‐You

doi:10.1007/s13205-022-03366-1

Cited by 2 publications

(2 citation statements)

References 29 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Altogether, a group of other class BGCs, Terpenes and NRPS, groups with a carotenoid BGC from MIBiG (BGC0000636), and it is included in clade III and clade IV, with the exception of one BGC from strains in clade II-A. Carotenoids have been isolated previously from Brevibacterium strains [34,92]. This is consistent with the high presence of cheese-related strains within those clades, where carotenoids confer key organoleptic properties.…”

Section: Bgc Diversity and Distribution Among Brevibacterium Phylogen...supporting

confidence: 72%

“…Clade IV-B is quite homogenous with several B. aurantiacum strains which share an ANIb of at least 96.2%. Within this clade, some strains could be new species in the Brevibacterium genus, such as strain CNRZ918, together with P10, strain 239c together with FME17, and FM37, and nally, strain RIT803 and XU54 [92], each could be new species.…”

Section: Average Nucleotide Identity Analysismentioning

confidence: 99%

See 1 more Smart Citation

Exploring the Biosynthetic Gene Clusters in Brevibacterium: A Comparative Genomic Analysis of Diversity and Distribution

Cumsille

Serna-Cardona

González

et al. 2023

Preprint

View full text Add to dashboard Cite

Exploring Brevibacterium strains from various ecosystems may lead to the discovery of new antibiotic-producing strains. Brevibacterium sp. H-BE7, a strain isolated from marine sediments from Northern Patagonia, Chile, exhibited antimicrobial activity against Salmonella enterica and Listeria monocytogenes. Chemical dereplication identified bioactive compounds, such as 1-methoxyphenazine in the crude extracts of strain H-BE7, which could be responsible of the observed antibacterial activity. The genome of Brevibacterium sp. H-BE7 was sequenced and a phenazine-like biosynthetic gene clusters (BGCs) is not present within the genome. To study the biosynthetic potential of strain H-BE7 and Brevibacterium genus, the genome sequences of 98 Brevibacterium strains, including strain H-BE7, were selected for a genomic analysis. A phylogenomic cladogram was generated, which divided the Brevibacterium strains into four major clades. A total of 25 strains are potentially unique new species according to Average Nucleotide Identity (ANIb) values. These strains were isolated from various environments, emphasizing the importance of exploring diverse ecosystems to discover the full diversity of Brevibacterium. Pangenome analysis of Brevibacterium strains revealed that only 2.5% of gene clusters are included within the core genome, and most gene clusters occur either as singletons or as cloud genes present in less than ten strains. Brevibacterium strains from various phylogenomic clades exhibit diverse BGCs. Specific groups of BGCs show clade-specific distribution patterns, such as siderophore BGCs and carotenoid-related BGCs. A group of clade IV-A Brevibacterium strains possess a clade-specific Polyketide synthase (PKS) BGCs that connects with phenazine-related BGCs and could be related to the production of 1-methoxyphenazine in HBE-7’s crude extract. Within the PKS BGC, five genes, including the biosynthetic PKS gene, participate in the mevalonate pathway and exhibit similarities with the phenazine A BGC. However, additional core biosynthetic phenazine genes were exclusively discovered in nine Brevibacterium strains, primarily isolated from cheese. While strain H-BE7 lacks the core phenazine biosynthetic genes, it produces 1-methoxyphenazine, indicating the presence of an unknown biosynthetic pathway for this compound. This suggests the existence of alternative biosynthetic pathways or promiscuous enzymes within H-BE7's genome.

show abstract

Section: Bgc Diversity and Distribution Among Brevibacterium Phylogen...supporting

confidence: 72%

Section: Average Nucleotide Identity Analysismentioning

confidence: 99%

Exploring the Biosynthetic Gene Clusters in Brevibacterium: A Comparative Genomic Analysis of Diversity and Distribution

Cumsille

Serna-Cardona

González

et al. 2023

Preprint

View full text Add to dashboard Cite

show abstract

Exploring the biosynthetic gene clusters in Brevibacterium: a comparative genomic analysis of diversity and distribution

Cumsille,

Serna-Cardona,

González

et al. 2023

BMC Genomics

View full text Add to dashboard Cite

Exploring Brevibacterium strains from various ecosystems may lead to the discovery of new antibiotic-producing strains. Brevibacterium sp. H-BE7, a strain isolated from marine sediments from Northern Patagonia, Chile, had its genome sequenced to study the biosynthetic potential to produce novel natural products within the Brevibacterium genus. The genome sequences of 98 Brevibacterium strains, including strain H-BE7, were selected for a genomic analysis. A phylogenomic cladogram was generated, which divided the Brevibacterium strains into four major clades. A total of 25 strains are potentially unique new species according to Average Nucleotide Identity (ANIb) values. These strains were isolated from various environments, emphasizing the importance of exploring diverse ecosystems to discover the full diversity of Brevibacterium. Pangenome analysis of Brevibacterium strains revealed that only 2.5% of gene clusters are included within the core genome, and most gene clusters occur either as singletons or as cloud genes present in less than ten strains. Brevibacterium strains from various phylogenomic clades exhibit diverse BGCs. Specific groups of BGCs show clade-specific distribution patterns, such as siderophore BGCs and carotenoid-related BGCs. A group of clade IV-A Brevibacterium strains possess a clade-specific Polyketide synthase (PKS) BGCs that connects with phenazine-related BGCs. Within the PKS BGC, five genes, including the biosynthetic PKS gene, participate in the mevalonate pathway and exhibit similarities with the phenazine A BGC. However, additional core biosynthetic phenazine genes were exclusively discovered in nine Brevibacterium strains, primarily isolated from cheese. Evaluating the antibacterial activity of strain H-BE7, it exhibited antimicrobial activity against Salmonella enterica and Listeria monocytogenes. Chemical dereplication identified bioactive compounds, such as 1-methoxyphenazine in the crude extracts of strain H-BE7, which could be responsible of the observed antibacterial activity. While strain H-BE7 lacks the core phenazine biosynthetic genes, it produces 1-methoxyphenazine, indicating the presence of an unknown biosynthetic pathway for this compound. This suggests the existence of alternative biosynthetic pathways or promiscuous enzymes within H-BE7’s genome.

show abstract

Draft genome sequence of a new carotenoid-producing strain Brevibacterium sp. XU54, isolated from radioactive soil in Xinjiang, China

Cited by 2 publications

References 29 publications

Exploring the Biosynthetic Gene Clusters in Brevibacterium: A Comparative Genomic Analysis of Diversity and Distribution

Exploring the Biosynthetic Gene Clusters in Brevibacterium: A Comparative Genomic Analysis of Diversity and Distribution

Exploring the biosynthetic gene clusters in Brevibacterium: a comparative genomic analysis of diversity and distribution

Contact Info

Product

Resources

About