Proposal of three novel insect-associated Commensalibacter species: Commensalibacter melissae sp. nov., Commensalibacter communis sp. nov. and Commensalibacter papalotli sp. nov.

Botero, Juliana; Vandamme, Peter

doi:10.1099/ijsem.0.006224

Cited by 2 publications

(2 citation statements)

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“…Strains TBRC 10068 T and TBRC 16381 T shared a similarity of 98.56 and 97.70 % respectively to C. intestini A911 T (). Furthermore, the two strains were very similar to C. communis LMG 31819 T , with values of 98.99 and 98.28 %, respectively, followed by C. papalotli LMG 32512 T (98.21 and 97.70 %) and C. melissae LMG 31900 T (96.55 and 97.49 %) [8], when compared with the recently published and validated species after submitting this paper [9]. According to Kim et al [28], the 16S rRNA gene similarity values for strains TBRC 10068 T and TBRC 16381 T were nearly below the proposed threshold for the delineation of bacterial species (98.65 %), with only the exception of strain TBRC 10068 T and C. communis LMG 31819 T .…”

Section: Results and Disscussionmentioning

confidence: 99%

Commensalibacter nepenthis sp. nov. and Commensalibacter oyaizuii sp. nov., from fluid in a Nepenthes pitcher cup and a butterfly (Junonia lemonias) in Thailand

Yukphan,

Charoenyingcharoen,

Muangham

et al. 2024

International Journal of Systematic and Evolutionary Microbiology

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Two novel Gram-negative, aerobic, rod-shaped, non-motile bacteria, strains TBRC 10068T and TBRC 16381T, were isolated from a fluid sample from a close-pitcher cup (Nepenthes gracilis) and an insect sample (Junonia lemonias), respectively. Comparing the 16S rRNA gene sequences with those found in EzBioCloud’s publicly available databases revealed that the two strains exhibited a close genetic relationship with Commensalibacter intestini A911T; the calculated sequence similarities were 98.56 and 97.70 %, respectively. The average nucleotide identity and digital DNA–DNA hybridization values of the two Commensalibacter strains, as well as those of their closely related type strains, were found to be lower than the species demarcation threshold of 95 and 70 %, respectively. The phylogenomic analysis of strains TBRC 10068T and TBRC 16381T showed that they belong to the genus Commensalibacter. However, they formed distinct lineages separate from all other strains of Commensalibacter by use of 81 bacterial core genes. In addition, the comparative genomic analysis revealed that the core orthologues of strains TBRC 10068T and TBRC 16381T, compared to the closely related type strains of Commensalibacter species, had distinct genetic profiles. Strain TBRC 10068T contained 163 unique genes, whereas strain TBRC 16381T contained 83. The three Commensalibacter species possessed Q-9 as the primary isoprenoid quinone homologue. The results of a polyphasic taxonomic investigation indicated that strains TBRC 10068T and TBRC 16381T represent two separate new species within the genus Commensalibacter. The species were designated as Commensalibacter nepenthis sp. nov. with the type strain TBRC 10068T (=KCTC 92798T) and Commensalibacter oyaizuii sp. nov. with the type strain TBRC 16381T (=KCTC 92799T).

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Section: Results and Disscussionmentioning

confidence: 99%

Commensalibacter nepenthis sp. nov. and Commensalibacter oyaizuii sp. nov., from fluid in a Nepenthes pitcher cup and a butterfly (Junonia lemonias) in Thailand

Yukphan,

Charoenyingcharoen,

Muangham

et al. 2024

International Journal of Systematic and Evolutionary Microbiology

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“…For our first comparison, we included Lactobacillus apis, L. bombicola, L. helsingborgensis, L. kimbladii, L. kullabergensis, L. melliventris, L. panisapium, L. acetotolerans, and L. acetotolerans from the obligately necrophagous bee's gut. For the second, we were interested in bee-associated Commensalibacter and included C. communis, C. intestini, C. melissae, and one C. intestini from our obligately necrophagous bees' guts and another from one of our facultative necrophages (Trigona fulviventris) (Botero et al, 2023;Botero & Vandamme, 2024;Li, Praet, et al, 2015). For both analyses, we used Orthofinder with the flags "-M msa -S blast" to pull single-copy orthologues and create species trees (Emms & Kelly, 2019).…”

Section: Selection Analysesmentioning

confidence: 99%

From pollen to putrid: Comparative metagenomics reveals how microbiomes support dietary specialization in vulture bees

Maccaro,

Figueroa,

McFrederick

2024

Molecular Ecology

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For most animals, the microbiome is key for nutrition and pathogen defence, and is often shaped by diet. Corbiculate bees, including honey bees, bumble bees, and stingless bees, share a core microbiome that has been shaped, at least in part, by the challenges associated with pollen digestion. However, three species of stingless bees deviate from the general rule of bees obtaining their protein exclusively from pollen (obligate pollinivores) and instead consume carrion as their sole protein source (obligate necrophages) or consume both pollen and carrion (facultative necrophages). These three life histories can provide missing insights into microbiome evolution associated with extreme dietary transitions. Here, we investigate, via shotgun metagenomics, the functionality of the microbiome across three bee diet types: obligate pollinivory, obligate necrophagy, and facultative necrophagy. We find distinct differences in microbiome composition and gene functional profiles between the diet types. Obligate necrophages and pollinivores have more specialized microbes, whereas facultative necrophages have a diversity of environmental microbes associated with several dietary niches. Our study suggests that necrophagous bee microbiomes may have evolved to overcome cellular stress and microbial competition associated with carrion. We hypothesize that the microbiome evolved social phenotypes, such as biofilms, that protect the bees from opportunistic pathogens present on carcasses, allowing them to overcome novel nutritional challenges. Whether specific microbes enabled diet shifts or diet shifts occurred first and microbial evolution followed requires further research to disentangle. Nonetheless, we find that necrophagous microbiomes, vertebrate and invertebrate alike, have functional commonalities regardless of their taxonomy.

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Proposal of three novel insect-associated Commensalibacter species: Commensalibacter melissae sp. nov., Commensalibacter communis sp. nov. and Commensalibacter papalotli sp. nov.

Cited by 2 publications

References 4 publications

Commensalibacter nepenthis sp. nov. and Commensalibacter oyaizuii sp. nov., from fluid in a Nepenthes pitcher cup and a butterfly (Junonia lemonias) in Thailand

Commensalibacter nepenthis sp. nov. and Commensalibacter oyaizuii sp. nov., from fluid in a Nepenthes pitcher cup and a butterfly (Junonia lemonias) in Thailand

From pollen to putrid: Comparative metagenomics reveals how microbiomes support dietary specialization in vulture bees

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