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Commensalibacter

ABSTRACT: Commensalibacter sp. overview

PROVIDER: PRJNA170579 | ENA |

REPOSITORIES: ENA

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			Action	DRS
		Other
	SRR8084165_1.fastq.gz	Fastqsanger.gz
	SRR8084165_2.fastq.gz	Fastqsanger.gz
	SRR8084166_1.fastq.gz	Fastqsanger.gz

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Commensalibacter intestini

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Commensalibacter melissae strain:AMU001

Project description:Commensalibacter sp. complete reference genome assembly

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Commensalibacter intestini A911

Project description:Commensalibacter intestini A911 Genome sequencing and assembly

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Comparative genomics of insect associated Commensalibacter reveals host specific adaptations

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Project description:Commensalibacter sp.

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Commensalibacter papalotli (ex Servi¦ün-Garciduen¦âas et al. 2014) strain:MX-MONARCH01

Project description:Commensalibacter papalotli (ex Servi¦ün-Garciduen¦âas et al. 2014) strain:MX-MONARCH01 Genome sequencing and assembly

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A phylogenomic and comparative genomic analysis of Commensalibacter, a versatile insect symbiont.

Project description:BackgroundTo understand mechanisms of adaptation and plasticity of pollinators and other insects a better understanding of diversity and function of their key symbionts is required. Commensalibacter is a genus of acetic acid bacterial symbionts in the gut of honey bees and other insect species, yet little information is available on the diversity and function of Commensalibacter bacteria. In the present study, whole-genome sequences of 12 Commensalibacter isolates from bumble bees, butterflies, Asian hornets and rowan berries were determined, and publicly available genome assemblies of 14 Commensalibacter strains were used in a phylogenomic and comparative genomic analysis.ResultsThe phylogenomic analysis revealed that the 26 Commensalibacter isolates represented four species, i.e. Commensalibacter intestini and three novel species for which we propose the names Commensalibacter melissae sp. nov., Commensalibacter communis sp. nov. and Commensalibacter papalotli sp. nov. Comparative genomic analysis revealed that the four Commensalibacter species had similar genetic pathways for central metabolism characterized by a complete tricarboxylic acid cycle and pentose phosphate pathway, but their genomes differed in size, G + C content, amino acid metabolism and carbohydrate-utilizing enzymes. The reduced genome size, the large number of species-specific gene clusters, and the small number of gene clusters shared between C. melissae and other Commensalibacter species suggested a unique evolutionary process in C. melissae, the Western honey bee symbiont.ConclusionThe genus Commensalibacter is a widely distributed insect symbiont that consists of multiple species, each contributing in a species specific manner to the physiology of the holobiont host.

| S-EPMC10149009 | biostudies-literature

Commensalibacter_wgs

Project description:Genomic analysis of Commensalibacter species

| PRJEB54578 | ENA

Transcriptomic and epigenetic dissection of spinal ependymomas (SP-EPN) identifies clinically relevant subtypes enriched for tumors with and without NF2 mutation [RNA-seq]

Project description:Background: Ependymomas encompass multiple, clinically relevant tumor types based on localization and molecular profiles. Although tumors of the methylation class “spinal ependymoma” (SP-EPN) represent the most common intramedullary neoplasms in children and adults, their developmental origin is ill-defined, molecular data are scarce, and the potential heterogeneity within SP-EPN remains unexplored. The only known recurrent genetic events in SP-EPN are loss of chromosome 22q and NF2 mutations, but neither types and frequency of these alterations nor their clinical meaning have been described in a large, epigenetically defined series. Methods: We mapped SP-EPN transcriptomes (n=76) to developmental atlases of the developing and adult spinal cord to uncover potential developmental origins of these tumors. In addition, transcriptomic, epigenetic (n=234), genetic (n=140), and clinical analyses (n=115) were integrated for a detailed overview on this entity. Results: Integration of transcriptomic ependymoma data with single-cell atlases of the spinal cord identified mature adult ependymal cells to display highest similarities to SP-EPN. Unsupervised hierarchical clustering of tumor data together with integrated analysis of methylation profiles identified two molecular SP-EPN subtypes. Subtype 1 predominantly contained NF2 wild type sequences with regular NF2 expression but revealed more extensive copy number alterations. Subtype 2 harbored previously known germline or sporadic NF2 mutations and was NF2-deficient in most cases, more often showed multilocular disease, and demonstrated a significantly reduced progression-free survival. Conclusion: Based on integrated molecular profiling of a large tumor series we identify two distinct SP-EPN subtypes with important implications for genetic counseling, patient surveillance, and drug development priorities.

2024-01-26 | GSE242992 | GEO

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