Complete genome sequence and analysis of three kinds of β -agarase of Cellulophaga lytica DAU203 isolated from marine sediment

Lee, Yong-Suk; Choi, Yong-Lark

doi:10.1016/j.margen.2017.05.005

Cited by 6 publications

(5 citation statements)

References 14 publications

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“…On the other hand, the cellulolysis and intracellular parasite function were higher in TR than in NR. This result could be explained by the fact that TR's macroalgae and reef creature biomass were higher [91].…”

Section: Sediment Microbial Functional Annotationmentioning

confidence: 96%

The Effect of the Artificial Reef on the Structure and Function of Sediment Bacterial Community

et al. 2022

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The bacterial community in sediment is sensitive to artificial disturbance, and they respond differently to human disturbance, such as changing the nutrient cycling and energy flow in marine ecosystems. However, little is known about the dynamics and distribution of bacterial community structures in marine sediments and potential biogeochemical functions during the long-time succession in marine ranching. In the present study, we compared the dynamics of the bacterial composition and potential biogeochemical functions of sediment to ten years (TR) and one-year new artificial reef (NR) areas using metagenomic next-generation sequencing technology. Results revealed that NR reduces the Pielou’s evenness and Shannon index. Similarly, nonmetric multidimensional scaling showed that the beta diversity of sediment bacterial communities in NR significantly differed between TR and non-artificial reef areas. Previously, TR biomarkers were frequently associated with organic matter decomposing and assimilating in the organically enriched sediments (i.e., Acinetobacter). The soluble reactive phosphate (SRP) and total phosphorus (TP) concentrations were thought to be the primary driving forces in shaping the microbial community in sediment. Pseudomonas, Lactobacillus, and Ralstonia have a significant positive correlation with SRP, TP, nitrate, and TN, but a negative association with pH, Salinity, Hg, and depth. NR was found to have more negative correlation nodes, indicating that taxa face more competition or predation press. Vibrio served as the module-hubs in the network in all areas. In addition, chemoheterotrophy, aerobic chemoheterotrophy, and fermentation were the three most prominent functions of the three areas, accounting for 59.96% of the relative abundance of the functional annotation. Different bacteria in sediments may change the amount of biogeochemical cycle in the marine ranching ecosystem. These findings can increase our understanding of the succession of the microecosystem for the marine ranching sedimentary environment by revealing how artificial reefs affect the indigenous sediment bacterial community and their responses to environmental variation.

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Section: Sediment Microbial Functional Annotationmentioning

confidence: 96%

The Effect of the Artificial Reef on the Structure and Function of Sediment Bacterial Community

et al. 2022

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“…A possible explanation for the growth promotion on solid media could be that Nannochloropsis cells consumed the by-products from the agar degradation by the bacteria. For instance, Cellulophaga lytica (PAL10) has previously been shown to synthesize different kinds of agarases (Lee and Choi, 2017), and the enzymatic hydrolysis of agar yields monomeric sugars, such as Dgalactose, 3,6-anhydro-L-galactose and L-galactose-6sulphate (Chi et al, 2012). Research has shown that supplementation with galactose increases the growth rate of Nannochloropsis salina by nearly 10% (Velu et al, 2015).…”

Section: Effect Of Bacteria On the Growth Of Algaementioning

confidence: 99%

Different co‐occurring bacteria enhance or decrease the growth of the microalga Nannochloropsis sp. CCAP211/78

Lian

Schimmel

Sanchez-Garcia

et al. 2021

Microbial Biotechnology

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Marine photosynthetic microalgae are ubiquitously associated with bacteria in nature. However, the influence of these bacteria on algal cultures in bioreactors is still largely unknown. In this study, eighteen different bacterial strains were isolated from cultures of Nannochloropsis sp. CCAP211/78 in two outdoor pilot-scale tubular photobioreactors. The majority of isolates was affiliated with the classes Alphaproteobacteria and Flavobacteriia. To assess the impact of the eighteen strains on the growth of Nannochloropsis sp. CCAP211/78, 24-well plates coupled with custom-made LED boxes were used to simultaneously compare replicate axenic microalgal cultures with addition of individual bacterial isolates. Co-culturing of Nannochloropsis sp. CCAP211/78 with these strains demonstrated distinct responses, which shows that the technique we developed is an efficient method for screening the influence of harmful/beneficial bacteria. Two of the tested strains, namely a strain of Maritalea porphyrae (DMSP31) and a Labrenzia aggregata strain (YP26), significantly enhanced microalgal growth with a 14% and 12% increase of the chlorophyll concentration, respectively, whereas flavobacterial strain YP206 greatly inhibited the growth of the microalga with 28% reduction of the chlorophyll concentration. Our study suggests that algal production systems represent a 'natural' source to isolate and study microorganisms that can either benefit or harm algal cultures.

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“…Among new examples found in the two year literature span, others should be cited: Acinetobacter junii PS12B from which an extracellular agarase was identified [ 27 ], the alkaliphilic bacterium Cellvibrio sp. WU-0601 with a neoagaro-oligosaccharide-specific hydrolase (EC 3.2.1.159, α-NAOS hydrolase) that hydrolyzes short oligosaccharides (from neoagarobiose to neoagarohexaose) at the α-1,3 linkage [ 28 ], Cellulophaga lytica DAU203 with three β-agarases [ 29 ], Cellulophaga omnivescoria [ 30 ], Flavobacteria and Gammaproteobacteria libraries, where different agarases and other algal-associated enzymes were identified [ 31 ], an alkaline β-agarase from the marine bacterium Stenotrophomonas sp. that degrades agarose into neoagarobiose, neoagarotetraose and neoagarohexaose as predominant products [ 32 ] and an agarase of the GH family 16 from the marine bacterium Aquimarina agarilytica ZC1 [ 33 ] producing neoagaro-tetraose, neoagaro-hexaose and neoagaro-octaose as main hydrolysis products.…”

Section: General Analysis Of Reference Materialsmentioning

confidence: 99%

Update on Marine Carbohydrate Hydrolyzing Enzymes: Biotechnological Applications

Trincone

2018

Molecules

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After generating much interest in the past as an aid in solving structural problems for complex molecules such as polysaccharides, carbohydrate-hydrolyzing enzymes of marine origin still appear as interesting biocatalysts for a range of useful applications in strong interdisciplinary fields such as green chemistry and similar domains. The multifaceted fields in which these enzymes are of interest and the scarce number of original articles in literature prompted us to provide the specialized analysis here reported. General considerations from modern (2016–2017 interval time) review articles are at start of this manuscript; then it is subsequently organized in sections according to particular biopolymers and original research articles are discussed. Literature sources like the Science Direct database with an optimized W/in search, and the Espacenet patent database were used.

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Complete genome sequence and analysis of three kinds of β -agarase of Cellulophaga lytica DAU203 isolated from marine sediment

Cited by 6 publications

References 14 publications

The Effect of the Artificial Reef on the Structure and Function of Sediment Bacterial Community

The Effect of the Artificial Reef on the Structure and Function of Sediment Bacterial Community

Different co‐occurring bacteria enhance or decrease the growth of the microalga Nannochloropsis sp. CCAP211/78

Update on Marine Carbohydrate Hydrolyzing Enzymes: Biotechnological Applications

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