Complete genome sequence of marine Roseobacter lineage member Monaibacterium sp. ALG8 with six plasmids isolated from seawater around brown algae

Sun, Cong; Fang, Yuan-Chun; Li, Hao; Chen, Jie; Ye, Yong-Lian; Ni, Ling-Fang; Xu, Lin; Han, Bingnan; Wu, Min; Wang, Chunsheng; Xu, Xue-Wei

doi:10.1016/j.margen.2021.100878

Cited by 3 publications

(3 citation statements)

References 32 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The marine Roseobacter Monaibacterium sp. ALG8 associated with brown algae harbors two distinct CRISPR/Cas immune systems [ 98 ]. Additionally, CRISPR/Cas systems have been found in epibiotic cyanobacteria such as Acaryochloris marina [ 99 ] and endosymbiotic cyanobacteria such as Candidatus Endoriftia persephone within Riftia pachyptila [ 100 ].…”

Section: Huge Inventory Of Crispr/cas In the Oceanmentioning

confidence: 99%

Clustered Regularly Interspaced Short Palindromic Repeat/CRISPR-Associated Protein and Its Utility All at Sea: Status, Challenges, and Prospects

Li,

Wu,

Zhang

et al. 2024

Microorganisms

View full text Add to dashboard Cite

Initially discovered over 35 years ago in the bacterium Escherichia coli as a defense system against invasion of viral (or other exogenous) DNA into the genome, CRISPR/Cas has ushered in a new era of functional genetics and served as a versatile genetic tool in all branches of life science. CRISPR/Cas has revolutionized the methodology of gene knockout with simplicity and rapidity, but it is also powerful for gene knock-in and gene modification. In the field of marine biology and ecology, this tool has been instrumental in the functional characterization of ‘dark’ genes and the documentation of the functional differentiation of gene paralogs. Powerful as it is, challenges exist that have hindered the advances in functional genetics in some important lineages. This review examines the status of applications of CRISPR/Cas in marine research and assesses the prospect of quickly expanding the deployment of this powerful tool to address the myriad fundamental marine biology and biological oceanography questions.

show abstract

Section: Huge Inventory Of Crispr/cas In the Oceanmentioning

confidence: 99%

Clustered Regularly Interspaced Short Palindromic Repeat/CRISPR-Associated Protein and Its Utility All at Sea: Status, Challenges, and Prospects

Li,

Wu,

Zhang

et al. 2024

Microorganisms

View full text Add to dashboard Cite

show abstract

“… §The genome of strain ALG8 contains one complete chromosome and six circular plasmids. ||Data from NCBI (https://www.ncbi.nlm.nih.gov/genome/). ¶Data from Sun et al [16]. AGL, aminoglycolipid; DPG, diphosphatidylglycerol; GL, glycolipid; L, polar lipid; PC, phosphatidylcholine; PE, phosphatidylethanolamine; PG, phosphatidylglycerol; PL, phospholipid. …”

Section: Physiology and Chemotaxonomymentioning

confidence: 99%

“…The genome of strain h42 T was 3 545 821 bp and contained 44 contigs with 3466 genes and 3358 protein-coding sequences (CDS). Assembly and analysis of the strain ALG8 genome was completed by Sun et al [16]. The genome of strain ALG8 was 3 575 444 bp, consisting of one 3 036 380 bp circular chromosome and six circular plasmids (pALG1-6) ranging from 12 229 to 151 263 bp, and contained 3509 predicted CDS.…”

Section: Genome Featuresmentioning

confidence: 99%

Pontibrevibacter nitratireducens gen. nov., sp. nov., a member of the family Rhodobacteraceae isolated from seawater of the Indian Ocean and intertidal zone

Liang

Sun

et al. 2022

International Journal of Systematic and Evolutionary Microbiology

Self Cite

View full text Add to dashboard Cite

Two Gram-stain-negative, facultatively anaerobic, non-motile, rod-shaped bacteria, strains h42T and ALG8, were isolated individually from the Indian Ocean and intertidal zone of Zhoushan, China. The results of 16S rRNA gene sequence analysis showed that the sequence similarity between strains h42T and ALG8 was 99.7 %, and the closest related strains were Monaibacterium marinum C7T (97.77 and 97.62 %) and Pontivivens insulae GYSW-23T (95.31 and 95.45 %). Phylogenetic analysis based on 16S rRNA gene sequences shows that these two novel strains belong to a distinct new lineage of the family Rhodobacteraceae in the order Rhodobacterales . The average nucleotide identity and in silico DNA–DNA hybridization values between the two novel strains and M. marinum C7T and P. insulae GYSW-23T were 72.73–78.15 % and 19.70–20.80 %, respectively. The DNA G+C content of strains h42T and ALG8 was 62.36 % and 62.17 mol %. The major fatty acids (>10 %) in strain h42T were C18 : 0, C19 : 0 cyclo ω8c and summed feature 8 (C18 : 1 ω6c and/or C18 : 1 ω7c), and in strain ALG8 were C19 : 0 cyclo ω8c and summed feature 8 (C18 : 1ω6c and/or C18 : 1 ω7c). The predominant isoprenoid ubiquinone of the two novel strains was Q-10; their major polar lipids were identified as diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, two unidentified glycolipids, an unidentified aminoglycolipid, an unidentified phospholipid and an unidentified lipid. Based on the results of the morphological, physiological, chemotaxonomic and phylogenetic analysis of these two strains, a novel species of a new genus in the family Rhodobacteraceae is proposed, named as Pontibrevibacter nitratireducens gen. nov., sp. nov. The type strain and non-type strain of P. nitratireducens are h42T (=KCTC 72875T=CGMCC 1.17849T=MCCC 1K04735T) and ALG8 (=KCTC 82194=MCCC 1K04733).

show abstract

Metagenomic analyses of a consortium for the bioremediation of hydrocarbons polluted soils

Pandolfo,

Durán-Wendt,

Martínez-Cuesta

et al. 2024

AMB Expr

View full text Add to dashboard Cite

A bacterial consortium was isolated from a soil in Noblejas (Toledo, Spain) with a long history of mixed hydrocarbons pollution, by enrichment cultivation. Serial cultures of hydrocarbons polluted soil samples were grown in a minimal medium using diesel (1 mL/L) as the sole carbon and energy source. The bacterial composition of the Noblejas Consortium (NC) was determined by sequencing 16S rRNA gene amplicon libraries. The consortium contained around 50 amplicon sequence variants (ASVs) and the major populations belonged to the genera Pseudomonas, Enterobacter, Delftia, Stenotrophomonas, Achromobacter, Acinetobacter, Novosphingobium, Allorhizobium-Neorhizobium-Rhizobium, Ochrobactrum and Luteibacter. All other genera were below 1%. Metagenomic analysis of NC has shown a high abundance of genes encoding enzymes implicated in aliphatic and (poly) aromatic hydrocarbons degradation, and almost all pathways for hydrocarbon degradation are represented. Metagenomic analysis has also allowed the construction of metagenome assembled genomes (MAGs) for the major players of NC. Metatranscriptomic analysis has shown that several of the ASVs are implicated in hydrocarbon degradation, being Pseudomonas, Acinetobacter and Delftia the most active populations.

show abstract

Complete genome sequence of marine Roseobacter lineage member Monaibacterium sp. ALG8 with six plasmids isolated from seawater around brown algae

Cited by 3 publications

References 32 publications

Clustered Regularly Interspaced Short Palindromic Repeat/CRISPR-Associated Protein and Its Utility All at Sea: Status, Challenges, and Prospects

Clustered Regularly Interspaced Short Palindromic Repeat/CRISPR-Associated Protein and Its Utility All at Sea: Status, Challenges, and Prospects

Pontibrevibacter nitratireducens gen. nov., sp. nov., a member of the family Rhodobacteraceae isolated from seawater of the Indian Ocean and intertidal zone

Metagenomic analyses of a consortium for the bioremediation of hydrocarbons polluted soils

Contact Info

Product

Resources

About