Mesoflavibacter sabulilitoris sp. nov., isolated from seashore sand

Park, Sooyeon; Park, Ja-Min; Jung, Yong-Taek; Seong, Chi Nam; Yoon, Jung‐Hoon

doi:10.1099/ijs.0.067223-0

Cited by 8 publications

(5 citation statements)

References 23 publications

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“…Their high dDDH similarity indicates that Nonlabens sediminis (Yi and Chun, 2012) is a later heterotypic synonym of N. tegetincola (Lau et al, 2005). Moreover, according to the dDDH value (Table 3), Mesoflavibacter sabulilitoris (Park et al, 2014) should better be classified as Mesoflavibacter zeaxanthinifaciens subsp. sabulilitoris comb.…”

Section: Resultsmentioning

confidence: 99%

“…Mesoflavibacter (Asker et al, 2007) appeared as paraphyletic in GBDP tree (Figure 8) because the type species of the genus, M. zeaxanthinifaciens (Asker et al, 2007), along with M . sabulilitoris (Park et al, 2014) were more closely related to Olleya (Nichols et al, 2005) than to M. aestuarii (Lee J. H. et al, 2014). When M. aestuarii and M .…”

Section: Resultsmentioning

confidence: 99%

“…The description is as for Mesoflavibacter sabulilitoris (Park et al, 2014). The type strain is GJMS-9 = CECT 8597 = KCTC 42117.…”

Section: Discussionmentioning

confidence: 99%

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Analysis of 1,000 Type-Strain Genomes Improves Taxonomic Classification of Bacteroidetes

et al. 2019

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Although considerable progress has been made in recent years regarding the classification of bacteria assigned to the phylum Bacteroidetes, there remains a need to further clarify taxonomic relationships within a diverse assemblage that includes organisms of clinical, piscicultural, and ecological importance. Bacteroidetes classification has proved to be difficult, not least when taxonomic decisions rested heavily on interpretation of poorly resolved 16S rRNA gene trees and a limited number of phenotypic features. Here, draft genome sequences of a greatly enlarged collection of genomes of more than 1,000 Bacteroidetes and outgroup type strains were used to infer phylogenetic trees from genome-scale data using the principles drawn from phylogenetic systematics. The majority of taxa were found to be monophyletic but several orders, families and genera, including taxa proposed long ago such as Bacteroides, Cytophaga, and Flavobacterium but also quite recent taxa, as well as a few species were shown to be in need of revision. According proposals are made for the recognition of new orders, families and genera, as well as the transfer of a variety of species to other genera. In addition, emended descriptions are given for many species mainly involving information on DNA G+C content and (approximate) genome size, both of which can be considered valuable taxonomic markers. We detected many incongruities when comparing the results of the present study with existing classifications, which appear to be caused by insufficiently resolved 16S rRNA gene trees or incomplete taxon sampling. The few significant incongruities found between 16S rRNA gene and whole genome trees underline the pitfalls inherent in phylogenies based upon single gene sequences and the impediment in using ordinary bootstrapping in phylogenomic studies, particularly when combined with too narrow gene selections. While a significant degree of phylogenetic conservation was detected in all phenotypic characters investigated, the overall fit to the tree varied considerably, which is one of the probable causes of misclassifications in the past, much like the use of plesiomorphic character states as diagnostic features.

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

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Analysis of 1,000 Type-Strain Genomes Improves Taxonomic Classification of Bacteroidetes

et al. 2019

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“…Flexirubin is also a common pigment in some Flavobacteriales members, which produce carotenoids and form yellow-orange-colored bacterial colonies ( Achenbach et al , 1978 )— e.g. , Ichthyenterobacterium magnum ( Shakeela et al , 2015 ), Mesoflavibacter sabulilitoris ( Park et al , 2014 ), and Flavivirga amylovorans ( Yi et al , 2012 ). During maturation, the cephalopod ANG turns red-orange and becomes darker; this has been attributed to ANG-associated Alphaproteobacteria , such as members of the family Rhodobacteraceae ( Collins et al , 2012 ).…”

Section: Discussionmentioning

confidence: 99%

Bacterial Dynamics in the Accessory Nidamental Gland of <i>Sepioteuthis lessoniana</i> throughout Maturation

et al. 2021

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The accessory nidamental gland (ANG) is part of the reproduction organ in the majority of female cephalopods, including the bigfin reef squid Sepioteuthis lessoniana, an economically important fishery product. Microbes in Alphaproteobacteria, Gammaproteobacteria, and Verrucomicrobia have been suggested to play a role in the maturation of the S. lessoniana ANG and are responsible for its color. However, the bacterial composition and dynamics of the different maturation stages of the ANG remain unclear. In the present study, we surveyed ANG-associated bacterial dynamics in wild-caught S. lessoniana at various developmental stages in different populations over 3 years. The results obtained showed that the ANG bacterial community shifted gradually and decreased in diversity throughout maturation. Verrucomicrobia occupied the ANG during the early stages in large numbers, and was replaced by Bacteroidia, Alphaproteobacteria, and Gammaproteobacteria in the later stages. Flavobacteriales and Alphaproteobacteria both appeared to contribute to pigmentation, while Bacteroidia, Alphaproteobacteria, and Gammaproteobacteria may be involved in enriching the heme biosynthesis pathway in the ANG with the maturation of S. lessoniana. The present results provide an open question of whether S. lessoniana actively selects the bacterial community in the ANG to adjust to its surrounding environment.

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“…Whereas for Bgl3b amino acid sequence, it has the closest relationship with β-glucosidase produced by Mesoflavibacter sabulilitoris and was clustered with another group of GH3 β-glucosidase from bacteria such as Winogradskyella spp. and Mangrovimonas xylaniphaga [46,47]. Interestingly, all the aforementioned bacteria belong to the same family taxon Flavobacteriaceae, indicating that the protein sequence of either Bgl3a or Bgl3b is most probably encoded by similar genes that found in the members of the family; these two GH3 proteins might be part of the core genome shared among the family members.…”

Section: Analysis Of Protein Sequence Related To β-Glucosidase Activitymentioning

confidence: 95%

Characterization of β-glucosidases from Meridianimaribacter sp. CL38

Hong,

Chen,

Liew

et al. 2023

JTLS

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The production of second-generation biofuel requires a huge amount of freshwater. It is estimated that at least three gal of freshwater is used to produce one gal of biofuel. The replacement of freshwater with seawater serves as a potential alternative in biofuel generation. Therefore, salt-tolerant enzymes play an important role in saccharification and fermentation process. Halophilic β-glucosidase is one of the key enzymes for the process. In this study, the β-glucosidase of halophile Meridianimaribacter sp. CL38 isolated from mangrove soil was characterized. Strain CL38 achieved maximum production of β-glucosidase at 12th hour of growth. The β-glucosidase showed highest activity at 2% (w/v) NaCl while highly stable at salt concentration ranging from 1-2% (w/v) (more than 96% of relative activity). Its β-glucosidase activity remained active in the presence of 5mM Mn2+, Mg2+, Ca2+ ions, and 1% (v/v) Tween-20 and Tween-80. The draft genome sequence of strain CL38 was retrieved from GenBank database and submitted to dbCAN meta server for CAZymes annotation. Strain CL38 harbors 44 GHs and GH3 are annotated as β-glucosidases. The β-glucosidases of Meridianimaribacter flavus (99.61%) and Mesoflavibacter sabulilitoris (97.44%) showed the closest identity with Bgl3a and Bgl3b protein sequences from strain CL38, respectively. Glycoside hydrolase family 3 domain was identified in both enzymes via InterPro scan server. The presence of signal peptides indicated that both enzymes were secreted extracellularly. Five motifs were identified in Bgl3a and Bgl3b, with the active site (nucleophile) found at Asp296 and Asp297, respectively. Collectively, these β-glucosidases could be potentially used in the biofuel production, in particular the lignocellulosic biomass pretreatment process. This is the first attempt to characterize the β-glucosidase in genus Meridianimaribacter as so far none of the lignocellulolytic enzymes from this genus were characterized.

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Mesoflavibacter sabulilitoris sp. nov., isolated from seashore sand

Cited by 8 publications

References 23 publications

Analysis of 1,000 Type-Strain Genomes Improves Taxonomic Classification of Bacteroidetes

Analysis of 1,000 Type-Strain Genomes Improves Taxonomic Classification of Bacteroidetes

Bacterial Dynamics in the Accessory Nidamental Gland of <i>Sepioteuthis lessoniana</i> throughout Maturation

Characterization of β-glucosidases from Meridianimaribacter sp. CL38

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