Niabella aquatica sp. nov., isolated from lake water

Ṣiddiqi, Muḥammad Zubair; Im, Wan‐Taek

doi:10.1099/ijsem.0.001053

Cited by 14 publications

(5 citation statements)

References 27 publications

(25 reference statements)

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“…These are Gram-negative bacteria, aerobic, non-flagellated, and rod-shaped and they produce flexirubin-type pigments ( Dai et al, 2011 ). There are seven species described ( Glaeser et al, 2013 ) isolated from soils ( Dai et al, 2011 ; Ngo et al, 2017 ), water ( Siddiqi and Im, 2016 ) medicinal leeches ( Kikuchi et al, 2009 ), as well as epiphytic communities in the green macroalgae Cladophoraglomerata ( Zulkifly et al, 2012 ). This bacterium was indeed found associated with leeches and macroalgae, both highly humid environments, just like the toad skin.…”

Section: Discussionmentioning

confidence: 99%

Characterization of the Skin Microbiota of the Cane Toad Rhinella cf. marina in Puerto Rico and Costa Rica

et al. 2018

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Rhinella marina is a toad native to South America that has been introduced in the Antilles, likely carrying high loads of microorganisms, potentially impacting local community diversity. The amphibian skin is involved in pathogen defense and its microbiota has been relatively well studied, however, research focusing on the cane toad microbiota is lacking. We hypothesize that the skin microbial communities will differ between toads inhabiting different geographical regions in Central America and the Caribbean. To test our hypothesis, we compared the microbiota of three populations of R. cf. marina toads, two from Costa Rican (native) and one Puerto Rican (exotic) locations. In Costa Rica, we collected 11 toads, 7 in Sarapiquí and 4 from Turrialba while in Puerto Rico, 10 animals were collected in Santa Ana. Separate swab samples were collected from the dorsal and ventral sites resulting in 42 samples. We found significant differences in the structure of the microbial communities between Puerto Rico and Costa Rica. We detected as much as 35 different phyla; however, communities were dominated by Proteobacteria, Bacteroidetes, Firmicutes, and Actinobacteria. Alpha diversity and richness were significantly higher in toads from Puerto Rico and betadiversity revealed significant differences between the microbiota samples from the two countries. At the genus level, we found in Santa Ana, Puerto Rico, a high dominance of Kokuria , Niabella , and Rhodobacteraceae, while in Costa Rica we found Halomonas and Pseudomonas in Sarapiquí, and Acinetobacter and Citrobacter in Turrialba. This is the first report of Niabella associated with the amphibian skin. The core microbiome represented 128 Operational Taxonomic Units (OTUs) mainly from five genera shared among all samples, which may represent the symbiotic Rhinella ’s skin. These results provide insights into the habitat-induced microbial changes facing this amphibian species. The differences in the microbial diversity in Puerto Rican toads compared to those in Costa Rica provide additional evidence of the geographically induced patterns in the amphibian skin microbiome, and highlight the importance of discussing the microbial tradeoffs in the colonization of new ecosystems.

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Section: Discussionmentioning

confidence: 99%

Characterization of the Skin Microbiota of the Cane Toad Rhinella cf. marina in Puerto Rico and Costa Rica

et al. 2018

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“…Chitinophagaceae (phylum Bacteroidetes) comprises a ubiquitous bacterial family that was recently described in soil (Bailey, Fansler, Stegen, & McCue, 2013;Lv, Wang, Chen, You, & Qiu, 2016), freshwater (Leite et al, 2016;Siddiqi & Im, 2016), a hypersaline lake (Vavourakis et al, 2016), hot springs (Hanada, Tamaki, Nakamura, & Kamagata, 2014), maize roots (Gao et al, 2016) and human tumours (Lo et al, 2015). This is a clade with strong taxonomic support, even though few genomes have been fully sequenced to date.…”

Section: Introductionmentioning

confidence: 99%

Single‐cell sequencing unveils the lifestyle and CRISPR‐based population history of Hydrotalea sp. in acid mine drainage

et al. 2017

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Acid mine drainage (AMD) is characterized by an acid and metal-rich run-off that originates from mining systems. Despite having been studied for many decades, much remains unknown about the microbial community dynamics in AMD sites, especially during their early development, when the acidity is moderate. Here, we describe draft genome assemblies from single cells retrieved from an early-stage AMD sample. These cells belong to the genus Hydrotalea and are closely related to Hydrotalea flava. The phylogeny and average nucleotide identity analysis suggest that all single amplified genomes (SAGs) form two clades that may represent different strains. These cells have the genomic potential for denitrification, copper and other metal resistance. Two coexisting CRISPR-Cas loci were recovered across SAGs, and we observed heterogeneity in the population with regard to the spacer sequences, together with the loss of trailer-end spacers. Our results suggest that the genomes of Hydrotalea sp. strains studied here are adjusting to a quickly changing selective pressure at the microhabitat scale, and an important form of this selective pressure is infection by foreign DNA.

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“…Betaproteobacteriales_SC-I-84 , linked to high nitrogen concentrations, had a relative abundance of 0.05–2.8% in roots and 3.1–9.7% in the aquaculture effluent. Niabella , a facultative denitrifier commonly found in compost, lake water, and municipal wastewater treatment plants, presented relative abundances of 0.1–0.3% in roots and 0.3–12.4% in the aquaculture effluent. − Hydrogenispora , a strictly anaerobic carbohydrate-fermenting bacterium, showed a relative abundance of 0.0–0.01% in the roots and 0.0–11.2% in the aquaculture effluent . These dominant bacteria in the aquaculture effluent could have significantly contributed to the degradation of organic matter in the fish excreta.…”

Section: Resultsmentioning

confidence: 99%

Micronanobubble Aeration Enhances Plant Yield and Nitrification in Aquaponic Systems

Marcelino,

Wongkiew,

Shitanaka

et al. 2023

ACS EST Eng.

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Aquaponics is a climate-smart food production system that relies on nutrient recovery from aquaculture effluent. The availability of dissolved oxygen (DO) limits the performance of aquaponic systems. To address this issue, air micronanobubbles (MNBs) were tested as an alternative aeration method. Due to their small size (<50 μm) and long-term stability, MNBs can enhance the gas−liquid mass transfer of oxygen and maintain DO concentrations above saturation, enhancing aerobic biochemical processes. Through 16S rRNA gene metabarcoding and water quality analyses, we investigated the influence of continuous MNB aeration on DO concentrations and carbon−nitrogen cycling. Our results indicated that continuous MNB aeration (K L a 20 = 7.76 ± 0.38 h −1 ) in the grow bed of an aquaponic system increased DO concentrations to 9.31 ± 1.57 mg L −1 without affecting other system components. In comparison, aeration with a conventional diffuser (K L a 20 = 1.73 ± 0.54 h −1 ) maintained lower DO concentrations of 6.32 ± 0.32 mg L −1 on average. Further benefits of MNBs include higher reductions in total solids (16 ± 2%) and volatile solids (32 ± 2%) and an increase in nitrate concentrations over time. Notably, MNB aeration enhanced the total butterhead lettuce yield and root biomass per plant by 35 ± 8% and 20 ± 5%, respectively. While MNB aeration reshaped the microbial community and potentially disturbed certain microbial symbiotic relationships (e.g., Denitratisoma, Thermomonas, and Nitrospira), the overall metabolic pathways remained largely intact. Overall, our study provides insights into the application of MNB aeration to enhance plant biomass production in floating raft aquaponic systems and increase nitrification and remineralization.

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Niabella aquatica sp. nov., isolated from lake water

Cited by 14 publications

References 27 publications

Characterization of the Skin Microbiota of the Cane Toad Rhinella cf. marina in Puerto Rico and Costa Rica

Characterization of the Skin Microbiota of the Cane Toad Rhinella cf. marina in Puerto Rico and Costa Rica

Single‐cell sequencing unveils the lifestyle and CRISPR‐based population history of Hydrotalea sp. in acid mine drainage

Micronanobubble Aeration Enhances Plant Yield and Nitrification in Aquaponic Systems

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