Paracoccus
            sediminis sp. nov., isolated from Pacific Ocean marine sediment

Pan, Jie; Sun, Cong; Zhang, Xin-Qi; Huo, Ying‐Yi; Zhu, Xuemei; Wu, Min

doi:10.1099/ijs.0.051318-0

Cited by 45 publications

(25 citation statements)

References 16 publications

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“…The strain was tested for H 2 S production and the methyl red and Voges-Proskauer reactions as described previously (49). Anaerobic growth was determined according to the method of Pan et al (50). GN2 MicroPlates (Biolog, USA) were used to detect the utilization of organic substrates according to the manufacturer's instructions.…”

Section: Methodsmentioning

confidence: 99%

Isolation and Complete Genome Sequence of Algibacter alginolytica sp. nov., a Novel Seaweed-Degrading Bacteroidetes Bacterium with Diverse Putative Polysaccharide Utilization Loci

Sun

Zhang

et al. 2016

Appl Environ Microbiol

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eThe members of the phylum Bacteroidetes are recognized as some of the most important specialists for the degradation of polysaccharides. However, in contrast to research on Bacteroidetes in the human gut, research on polysaccharide degradation by marine Bacteroidetes is still rare. The genus Algibacter belongs to the Flavobacteriaceae family of the Bacteroidetes, and most species in this genus are isolated from or near the habitat of algae, indicating a preference for the complex polysaccharides of algae. In this work, a novel brown-seaweed-degrading strain designated HZ22 was isolated from the surface of a brown seaweed (Laminaria japonica). On the basis of its physiological, chemotaxonomic, and genotypic characteristics, it is proposed that strain HZ22 represents a novel species in the genus Algibacter with the proposed name Algibacter alginolytica sp. nov. The genome of strain HZ22, the type strain of this species, harbors 3,371 coding sequences (CDSs) and 255 carbohydrate-active enzymes (CAZymes), including 104 glycoside hydrolases (GHs) and 18 polysaccharide lyases (PLs); this appears to be the highest proportion of CAZymes (ϳ7.5%) among the reported strains in the class Flavobacteria. Seventeen polysaccharide utilization loci (PUL) are predicted to be specific for marine polysaccharides, especially algal polysaccharides from red, green, and brown seaweeds. In particular, PUL N is predicted to be specific for alginate. Taking these findings together with the results of assays of crude alginate lyases, we prove that strain HZ22 T can completely degrade alginate. This work reveals that strain HZ22 T has good potential for the degradation of algal polysaccharides and that the structure and related mechanism of PUL in strain HZ22T are worth further research. Members of the phylum Bacteroidetes, formerly also known as the Cytophaga-Flavobacteria-Bacteroides cluster, constitute one of the major groups of marine heterotrophic bacterioplankton (1, 2). They have been found in various marine habitats, including coastal sediments (3), coastal waters (4, 5), hydrothermal vents (6, 7), and open ocean waters (8-10). In previous studies, marine Bacteroidetes have been reported as important contributors to the utilization of biopolymers such as polysaccharides and proteins (2,(11)(12)(13)(14). As a result, marine Bacteroidetes are assumed to play an important role in the degradation of algae. Marine phytoplankton have been estimated to be responsible for about 50% of global net primary production (15). Polysaccharides constitute a substantial fraction of the primary production from marine phytoplankton. Algae can be an important source of polysaccharides. Brown seaweeds, a traditional and plentiful mariculture product in East Asia, make up a large proportion of the total biomass of algae and synthesize a wide variety of compounds, such as alginate, fucoidan, laminarin, and mannitol (16). Among these compounds, alginate has been assumed to be a potential source for bioethanol production (17-19).The genus Algibacter belongs...

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Section: Methodsmentioning

confidence: 99%

Isolation and Complete Genome Sequence of Algibacter alginolytica sp. nov., a Novel Seaweed-Degrading Bacteroidetes Bacterium with Diverse Putative Polysaccharide Utilization Loci

Sun

Zhang

et al. 2016

Appl Environ Microbiol

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“…Members of this family have been also isolated from other microalgae, namely Chlorella pyrenoidosa and Scenedesmus obliquus (Schwenk et al, 2014 Manuscript to be reviewed nitratireducens (Table 2). All three neighbours were isolated from water environments (Li and Zhou, 2015;Pan et al, 2014).…”

Section: Discussionmentioning

confidence: 99%

Peer Review #1 of "Associated bacteria of Botryococcus braunii (Chlorophyta) (v0.1)"

2019

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Botryococcus braunii (Chlorophyta) is a green microalga known for producing hydrocarbons and exopolysaccharides. Improving the biomass productivity of B. braunii and hence, the productivity of the hydrocarbons and of the exopolysaccharides, will make B. braunii more attractive for industries. Microalgae usually cohabit with bacteria which leads to the formation of species-specific communities with environmental and biological advantages. Bacteria have been found and identified with a few B. braunii strains, but little is known about the bacterial community across the different strains. A better knowledge of the bacterial community of B. braunii will help to optimize the biomass productivity, hydrocarbons and exopolysaccharide accumulation. To better understand the bacterial community diversity of B. braunii, we screened 12 strains from culture collections. Using 16S rRNA gene analysis by MiSeq we described the bacterial diversity across twelve B. braunii strains and identified possible shared communities. We found three bacterial families common to all strains: Rhizobiaceae, Bradyrhizobiaceae and Comamonadaceae. Additionally, the results also suggest that each strain has its own specific bacteria that may be the result of long-term isolated culture.

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“…Members of the genus Paracoccus are metabolically versatile and have been isolated from soil (Dastager et al, 2011;Nguyen et al, 2015;Sun et al, 2015), sediment (Pan et al, 2014;Jung et al, 2014), activated sludge (Lee et al, 2011;Lee & Lee, 2013;Sun et al, 2013), root nodules (Deng et al, 2011), cornetfish (Kim et al, 2010) and marine environments . At the time of writing, the genus Paracoccus included 46 species with validly published names, with recent introduction of Paracoccus fistulariae (Kim et al, 2010); P. sphaerophysae (Deng et al, 2011); P. caeni (Lee et al, 2011); P. isoporae ; P. stylophorae ; P. rhizosphaerae (K€ ampfer et al, 2012); P. niistensis (Dastager et al, 2011); P. tibetensis (Zhu et al, 2012); P. limosus (Lee & Lee, 2013); P. huijuniae (Sun et al, 2013); P. communis (Poroshina et al, 2013); P. sediminis (Pan et al, 2014); P. lutimaris (Jung et al, 2014); P. pacificus ; P. panacisoli (Nguyen et al, 2015); P. sanguinis (McGinnis et al, 2015); P. angustae (Sun et al, 2015) and P. cavernae (Dominguez-Moñino et al, 2016).…”

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confidence: 99%

Paracoccus a cridae sp. nov., isolated from the insect Acrida cinerea living in deserted cropland

Shuai

Gan

Qin

et al. 2016

International Journal of Systematic and Evolutionary Microbiology

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Paracoccus sediminis sp. nov., isolated from Pacific Ocean marine sediment

Cited by 45 publications

References 16 publications

Isolation and Complete Genome Sequence of Algibacter alginolytica sp. nov., a Novel Seaweed-Degrading Bacteroidetes Bacterium with Diverse Putative Polysaccharide Utilization Loci

Isolation and Complete Genome Sequence of Algibacter alginolytica sp. nov., a Novel Seaweed-Degrading Bacteroidetes Bacterium with Diverse Putative Polysaccharide Utilization Loci

Peer Review #1 of "Associated bacteria of Botryococcus braunii (Chlorophyta) (v0.1)"

Paracoccus a cridae sp. nov., isolated from the insect Acrida cinerea living in deserted cropland

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