The microbiome of a striped dolphin (Stenella coeruleoalba) stranded in Portugal

Godoy-Vitorino, Filipa; Rodríguez-Hilario, Arnold; Alves, Ana L.; Gonçalves, Filipa; Cabrera-Colon, Beatriz; Mesquita, Cristina S.; Soares-Castro, Pedro; Ferreira, Marisa; Marçalo, Ana; Vingada, José; Eira, Catarina; Santos, Pedro M.

doi:10.1016/j.resmic.2016.08.004

Cited by 41 publications

(51 citation statements)

References 48 publications

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“…In contrast to the kogiid colonic content sampled from stranded wild individuals, fecal samples from bottlenose dolphins and beluga whales were collected following defecation by captive individuals 25 . However, similarly low diversity communities have been reported in other toothed whale species, including rectal swabs of wild (36 ± 2) and captive (41 ± 8) bottlenose dolphins 20 , striped dolphins ( Stenella coeruleoalba , 75 OTUs) 23 and colonic contents of the Yangtze finless porpoise ( Neophocaena phocaenoides asiaeorientalis , 30 OTUs) 24 , indicating that different sampling methods and host status (wild vs. captive) alone do not account for the observed differences in microbiome richness between kogiids and other toothed whales. As such, kogiid whales appear to represent a more fertile microbial habitat compared to other toothed whale species, possibly related to the unique colonic sac that enlarges the large intestine of kogiid whales (e.g.…”

Section: Discussionmentioning

confidence: 59%

“…seals 17 – 19 , sea lions 20 ), while cetaceans remain largely unexplored (whales, dolphins and porpoises, Order Cetartiodactyla) 21 , due in part to difficulties in in situ sample collection and the opportunistic nature of stranding events 22 . The emerging field of cetacean microbiology has largely focused on gut microbiome composition 20 , 23 , 24 , with recent metagenomic surveys characterizing the putative functionality of these symbiotic communities 25 . Preliminary trends in the structure of cetacean gut microbiomes include divergence between cetacean-associated and free-living microbial communities 20 , a high degree of host-specificity, and lower diversity microbiomes in toothed whale species compared to baleen whales 25 .…”

Section: Introductionmentioning

confidence: 99%

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High diversity and unique composition of gut microbiomes in pygmy (Kogia breviceps) and dwarf (K. sima) sperm whales

Erwin

Rhodes

Kiser

et al. 2017

Sci Rep

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Mammals host diverse bacterial and archaeal symbiont communities (i.e. microbiomes) that play important roles in digestive and immune system functioning, yet cetacean microbiomes remain largely unexplored, in part due to sample collection difficulties. Here, fecal samples from stranded pygmy (Kogia breviceps) and dwarf (K. sima) sperm whales were used to characterize the gut microbiomes of two closely-related species with similar diets. 16S rRNA gene sequencing revealed diverse microbial communities in kogiid whales dominated by Firmicutes and Bacteroidetes. Core symbiont taxa were affiliated with phylogenetic lineages capable of fermentative metabolism and sulfate respiration, indicating potential symbiont contributions to energy acquisition during prey digestion. The diversity and phylum-level composition of kogiid microbiomes differed from those previously reported in toothed whales, which exhibited low diversity communities dominated by Proteobacteria and Actinobacteria. Community structure analyses revealed distinct gut microbiomes in K. breviceps and K. sima, driven by differential relative abundances of shared taxa, and unique microbiomes in kogiid hosts compared to other toothed and baleen whales, driven by differences in symbiont membership. These results provide insight into the diversity, composition and structure of kogiid gut microbiomes and indicate that host identity plays an important role in structuring cetacean microbiomes, even at fine-scale taxonomic levels.

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Section: Discussionmentioning

confidence: 59%

Section: Introductionmentioning

confidence: 99%

High diversity and unique composition of gut microbiomes in pygmy (Kogia breviceps) and dwarf (K. sima) sperm whales

Erwin

Rhodes

Kiser

et al. 2017

Sci Rep

View full text Add to dashboard Cite

show abstract

“…Metagenomic studies do not require prior information about the disease agents and allow detailed comparisons of health and disease, identifying new insights into the virome and microbiome of wildlife. Metagenomic studies of marine mammals focused on the viral and microbial community of many tissues and body niches have displayed a big diversity of the microbiota according to the organ type and may be used as a baseline survey for comparison with samples from stranded animals during unexplained disease outbreaks (Godoy-Vitorino et al, 2017). A viral metagenomic study to investigate potential viral pathogens associated with a mortality event of captive California sea lions identified a novel species-specific anellovirus (ZcAV) (Ng et al, 2009).…”

Section: Applications Of Modern Genomics Techniques: Metagenomics Formentioning

confidence: 99%

“…Metagenomic studies in cetaceans have also indicated how the cetacean microbiome is affected by human-related bacteria (Godoy-Vitorino et al, 2017). This is particularly relevant since many human infections have a zoonotic, i.e., wild or domestic animal, origin.…”

Section: Applications Of Modern Genomics Techniques: Metagenomics Formentioning

confidence: 99%

New Technologies for Monitoring Marine Mammal Health

Mancia

2018

Marine Mammal Ecotoxicology

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“…To our best knowledge Leptotrichiaceae microbiota of northern elephant seals have not yet been investigated. However, a number of studies [14][15][16] have demonstrated the presence of Leptotrichiaceae operational taxonomic units in microbiota of different marine mammals, including seals, dolphins and whales (e.g., BioProject database accession numbers PRJNA316486, PRJNA174530, PRJNA509077, PRJNA401637; www. ncbi.…”

mentioning

confidence: 99%

Oceanivirga miroungae sp. nov., isolated from oral cavity of northern elephant seal (Mirounga angustirostris)

Volokhov

Blom

Amselle

et al. 2020

International Journal of Systematic and Evolutionary Microbiology

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Two independent strains of a Leptotrichia species (ES3154-GLUT and ES2714_GLU) were isolated from the oral cavity of northern elephant seals (Mirounga angustirostris) that were admitted to The Marine Mammal Centre facilities in California, USA. The strains were isolated from oral swabs by cultivation in PPLO broth supplemented with serum, penicillin and colistin in anaerobic conditions. The strains were Gram-negative, pleomorphic, indole-, oxidase- and catalase-negative, non-spore-forming, non-motile rods/coccobacilli in short chains. The 16S rRNA gene sequence of these strains shared 94.42 % nucleotide similarity with Oceanivirga salmonicida AVG 2115T but demonstrated ≤86.00–92.50 % nucleotide similarity to the 16S rRNA genes of other species of the family Leptotrichiaceae . The genome was sequenced for strain ES3154-GLUT. Average nucleotide identity values between strain ES3154-GLUT and 15 type strain genomes from the family Leptotrichiaceae ranged from 66.74 % vs. Sebaldella termitidis to 73.35 % vs. O. salmonicida . The whole genome phylogeny revealed that the novel species was most closely related to O. salmonicida AVG 2115T. This relationship was also confirmed by nucleotide similarity and multilocus phylogenetic analyses employing various housekeeping genes (partial 23S rRNA, rpoB, rpoC, rpoD, polC, adh, gyrA and gyrB genes). Chemotaxonomic and phenotypical features of strain ES3154-GLUT were in congruence with closely related members of the family Leptotrichiaceae , represented by similar enzyme profiles and fatty acid patterns. MALDI-TOF MS analysis was capable to clearly discriminate strain ES3154-GLUT from all currently described taxa of the family Leptotrichiaceae . Based on these data, we propose a novel species of the genus Oceanivirga , for which the name Oceanivirga miroungae sp. nov. is proposed with the type strain ES3154-GLUT (=DSM 109740T=CCUG 73653T=ATCC TSD-189T=NCTC 14411T) and one representative strain ES2714_GLU. The G+C content is 26.82 %, genome size is 1 356 983 bp.

show abstract

The microbiome of a striped dolphin (Stenella coeruleoalba) stranded in Portugal

Cited by 41 publications

References 48 publications

High diversity and unique composition of gut microbiomes in pygmy (Kogia breviceps) and dwarf (K. sima) sperm whales

High diversity and unique composition of gut microbiomes in pygmy (Kogia breviceps) and dwarf (K. sima) sperm whales

New Technologies for Monitoring Marine Mammal Health

Oceanivirga miroungae sp. nov., isolated from oral cavity of northern elephant seal (Mirounga angustirostris)

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