Halomonas populi sp. nov. isolated from Populus euphratica

Xu, Lin; Ying, Jiang; Fang, Yuan-Chun; Zhang, Ran; Wu, Min; Han, Bingnan; Sun, Cong

doi:10.1007/s00203-021-02704-w

Cited by 12 publications

(4 citation statements)

References 31 publications

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“…The description is as given in the proposal of the basonym (Xu et al, 2021), with the following addition. The genome size of the type strain is 3.80 Mbp.…”

Section: Description Of Vreelandella Profundi Comb Novmentioning

confidence: 99%

A long-awaited taxogenomic investigation of the family Halomonadaceae

de la Haba,

Arahal,

Sánchez-Porro

et al. 2023

Front. Microbiol.

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The family Halomonadaceae is the largest family composed of halophilic bacteria, with more than 160 species with validly published names as of July 2023. Several classifications to circumscribe this family are available in major resources, such as those provided by the List of Prokaryotic names with Standing in Nomenclature (LPSN), NCBI Taxonomy, Genome Taxonomy Database (GTDB), and Bergey’s Manual of Systematics of Archaea and Bacteria (BMSAB), with some degree of disagreement between them. Moreover, regardless of the classification adopted, the genus Halomonas is not phylogenetically consistent, likely because it has been used as a catch-all for newly described species within the family Halomonadaceae that could not be clearly accommodated in other Halomonadaceae genera. In the past decade, some taxonomic rearrangements have been conducted on the Halomonadaceae based on ribosomal and alternative single-copy housekeeping gene sequence analysis. High-throughput technologies have enabled access to the genome sequences of many type strains belonging to the family Halomonadaceae; however, genome-based studies specifically addressing its taxonomic status have not been performed to date. In this study, we accomplished the genome sequencing of 17 missing type strains of Halomonadaceae species that, together with other publicly available genome sequences, allowed us to re-evaluate the genetic relationship, phylogeny, and taxonomy of the species and genera within this family. The approach followed included the estimate of the Overall Genome Relatedness Indexes (OGRIs) such as the average amino acid identity (AAI), phylogenomic reconstructions using amino acid substitution matrices customized for the family Halomonadaceae, and the analysis of clade-specific signature genes. Based on our results, we conclude that the genus Halovibrio is obviously out of place within the family Halomonadaceae, and, on the other hand, we propose a division of the genus Halomonas into seven separate genera and the transfer of seven species from Halomonas to the genus Modicisalibacter, together with the emendation of the latter. Additionally, data from this study demonstrate the existence of various synonym species names in this family.

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“…The description is as given in the proposal of the basonym (Xu et al, 2021), with the following addition. The genome size of the type strain is 3.80 Mbp.…”

Section: Description Of Vreelandella Profundi Comb Novmentioning

confidence: 99%

A long-awaited taxogenomic investigation of the family Halomonadaceae

de la Haba,

Arahal,

Sánchez-Porro

et al. 2023

Front. Microbiol.

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“…Motility was observed by dipping a small amount of bacterial solution into a semi-solid culture medium (MA, reduce 0.5% agar content) with an inoculation needle and cultivating the bacterial solution under optimal conditions for 3 days. Anaerobic growth was tested using the formulated anaerobic culture medium as described (Xu et al, 2021). The activities of catalase and oxidase were tested as described (Sun et al, 2018).…”

Section: Morphological Physiological Biochemical and Chemotaxonomic F...mentioning

confidence: 99%

Characterization of Maribacter polysaccharolyticus sp. nov., Maribacter huludaoensis sp. nov., and Maribacter zhoushanensis sp. nov. and illumination of the distinct adaptative strategies of the genus Maribacter

Gao,

Ying,

Dong

et al. 2023

Front. Mar. Sci.

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Polysaccharides are complex carbohydrates and are abundant in the marine environment. Microbes degrade and utilize them using Carbohydrate-active enzymes (CAZymes), which mediate polysaccharides into the marine carbon cycle. With the continued supply of polysaccharides from the marine environment, tidal flats are also abundant in polysaccharides, resulting in an abundance of marine polysaccharide degrading strains. In this study, three novel strains, designated as D37T, M208T, and SA7T, were isolated from the intertidal sediment samples located in Zhoushan, Zhejiang and Huludao, Liaoning, PR China. The phylogenetic trees using the 16S rRNA gene and genome sequences showed that the three novel strains belonged to the genus Maribacter. The highest 16S rRNA gene sequence similarities between the three novel strains and other strains of the genus Maribacter were 98.7%, 99.2%, and 98.8%, respectively, while the ANI, AAI, and dDDH values between the three strains and the other strains of the genus Maribacter were 70-86%, 67-91%, and 17-30%, respectively, supporting their affiliation as novel species. Combined with other phenotypic and genotypic characterization in this study, three novel species are proposed as Maribacter polysaccharolyticus sp. nov., Maribacter huludaoensis sp. nov., and Maribacter zhoushanensis sp. nov., respectively, for the three strains. Furthermore, we compared all available genomes of Maribacter representatives and found that Maribacter strains could be divided into two groups (A and B). The two groups are different in genome size and G + C content and gene densities of CAZyme, peptidase, and sulfatase. Group A possesses more CAZymes which are related to degrading laminarin, fucoidan, mannan, xylose, and xylan. This result suggests that the two groups may have different niche adaptation strategies. Our study contributes to a better understanding of the role of marine flavobacteria in biogeochemical cycles and niche specialization.

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“…have been isolated from the endosphere of different plants, shrubs, and trees. They have been identified as Gramnegative, aerobic with yellow pigmentation, and are rod shaped [128]. Strains of Halomonas have been isolated from a variety of highly saline environments including salt marshes, the endosphere of halophytes, salt-cured meats, and fermented foods [125,[128][129][130][131].…”

Section: Salt-tolerant Bacterial Genus Halomonasmentioning

confidence: 99%

“…They have been identified as Gramnegative, aerobic with yellow pigmentation, and are rod shaped [128]. Strains of Halomonas have been isolated from a variety of highly saline environments including salt marshes, the endosphere of halophytes, salt-cured meats, and fermented foods [125,[128][129][130][131]. Bacteria from this genus have been found that produce a wide variety of diverse biochemicals and exopolysaccharides (EPSs) [129,130].…”

Section: Salt-tolerant Bacterial Genus Halomonasmentioning

confidence: 99%

Halophilic Plant-Associated Bacteria with Plant-Growth-Promoting Potential

Meinzer,

Ahmad,

Nielsen

2023

Microorganisms

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The salinization of soils is a growing agricultural concern worldwide. Irrigation practices, drought, and climate change are leading to elevated salinity levels in many regions, resulting in reduced crop yields. However, there is potential for a solution in the microbiome of halophytes, which are naturally salt-tolerant plants. These plants harbor a salt-tolerant microbiome in their rhizosphere (around roots) and endosphere (within plant tissue). These bacteria may play a significant role in conferring salt tolerance to the host plants. This leads to the possibility of transferring these beneficial bacteria, known as salt-tolerant plant-growth-promoting bacteria (ST-PGPB), to salt-sensitive plants, enabling them to grow in salt-affected areas to improve crop productivity. In this review, the background of salt-tolerant microbiomes is discussed and their potential use as ST-PGPB inocula is explored. We focus on two Gram-negative bacterial genera, Halomonas and Kushneria, which are commonly found in highly saline environments. These genera have been found to be associated with some halophytes, suggesting their potential for facilitating ST-PGPB activity. The study of salt-tolerant microbiomes and their use as PGPB holds promise for addressing the challenges posed by soil salinity in the context of efforts to improve crop growth in salt-affected areas.

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Halomonas populi sp. nov. isolated from Populus euphratica

Cited by 12 publications

References 31 publications

A long-awaited taxogenomic investigation of the family Halomonadaceae

A long-awaited taxogenomic investigation of the family Halomonadaceae

Characterization of Maribacter polysaccharolyticus sp. nov., Maribacter huludaoensis sp. nov., and Maribacter zhoushanensis sp. nov. and illumination of the distinct adaptative strategies of the genus Maribacter

Halophilic Plant-Associated Bacteria with Plant-Growth-Promoting Potential

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