Bacterial biofilms remain a persistent threat to human healthcare
due to their role in the development of antimicrobial
resistance. To combat multi-drug resistant pathogens, it is
crucial to enhance our understanding of not only the regulation
of biofilm formation, but also its contribution to bacterial
virulence. Iron acquisition lies at the crux of these two
subjects. In this review, we discuss the role of iron acquisition
in biofilm formation and how hosts impede this mechanism
to defend against pathogens. We also discuss recent findings
that suggest that biofilm formation can also have the reciprocal
effect, influencing siderophore production and iron
sequestration.
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The taxonomic position of a Gram-stain-negative, rod-shaped
bacterial strain, designated PI11T
, isolated from the rhizospheric
sediment of Phragmites karka was characterized using
a polyphasic approach. Strain PI11T could grow optimally at
1.0% NaCl concentration with pH 7.0 at 30°C and was positive
for oxidase and catalase but negative for hydrolysis of
starch, casein, and esculin ferric citrate. Phylogenetic analysis
of 16S rRNA gene sequences indicated that the strain
PI11T belonged to the genus Pseudomonas sharing the highest
sequence similarities with Pseudomonas indoloxydans JCM
14246T (99.72%), followed by, Pseudomonas oleovorans subsp.
oleovorans DSM 1045T (99.29%), Pseudomonas toyotomiensis
JCM 15604T (99.15%), Pseudomonas chengduensis DSM
26382T (99.08%), Pseudomonas oleovorans subsp. lubricantis
DSM 21016T (99.08%), and Pseudomonas alcaliphila JCM
10630T (99.01%). Experimental DNA-DNA relatedness between
strain PI11T and P. indoloxydans JCM 14246T was 49.4%.
The draft genome of strain PI11T consisted of 4,884,839 bp.
Average nucleotide identity between the genome of strain
PI11T and other closely related type strains ranged between
77.25–90.74%. The polar lipid pattern comprised of phosphatidylglycerol,
diphosphatidylglycerol, and phosphatidylcholine.
The major (> 10%) cellular fatty acids were C18:1
ω6c/ω7c, C16:1 ω6c/ω7c, and C16:0. The DNA G + C content
of strain PI11T was 62.4 mol%. Based on the results of polyphasic
analysis, strain PI11T was delineated from other closely
related type strains. It is proposed that strain PI11T represents a novel species of the genus Pseudomonas, for which
the name Pseudomonas sediminis sp. nov. is proposed. The
type strain is PI11T (= KCTC 42576T = DSMZ 100245T).
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A Gram-stain-positive, aerobic, non-motile, non-spore-forming,
and rod-shaped bacterium, designated strain CHu64-
6-1T, was isolated from a 67-cm-long sediment core collected
from the Daechung Reservoir at a water depth of 17-m in
Daejeon, Republic of Korea. Comparative 16S rRNA gene
sequence studies placed the new isolate in the class Sphingobacteriia,
and the isolate is notably most closely related to
Flavihumibacter sediminis CJ663T (98.1% similarity), Flavihumibacter
solisilvae 3-3T (97.8%), Flavihumibacter petaseus
T41T (97.5%), Flavihumibacter cheonanensis WS16T (97.4%),
and Flavihumibacter stibioxidans YS-17T (97.2%). The cells of
strain CHu64-6-1T formed yellow colonies on R2A agar and
contained MK-7 as the only menaquinone, phosphatidylethanolamine,
an unidentified phospholipid, and two unidentified
aminolipids as the major polar lipids, and C15:0
iso, C17:0 iso 3-OH, C15:1 iso G, and C16:1 ω5c as the major
fatty acids (> 5%). The DNA G + C content of the genome
was determined to be 46.5 mol%. The DNA-DNA hybridization
values of strain CHu64-6-1T with F. sediminis CJ663T,
F. solisilvae 3-3T, F. petaseus T41T, F. cheonanensis WS16T,
and F. stibioxidans YS-17T were 12.4–33.2%. Based on the
combined genotypic and phenotypic data, we propose that
strain CHu64-6-1T represents a novel species of the genus
Flavihumibacter, for which the name Flavihumibacter profundi
sp. nov. is proposed. The type strain is CHu64-6-1T
(= KCTC 62290T = CCTCC AB 2018060T).
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An endospore-forming bacterium, designated YT-3T, was
isolated from a paddy soil in Yingtan, Jiangxi, China. Cells of
strain YT-3T were Gram-positive, rod-shaped, facultative
anaerobic, catalase, and oxidase positive. The optimum growth
temperature and pH were 30°C (ranged from 15 to 50°C)
and 6.5–7.0 (ranged from 3 to 11), respectively. Analysis of
the 16S rRNA gene sequence showed that strain YT-3T was
affiliated to the genus Bacillus and displayed the highest similarity
to that of Bacillus drentensis JCM 21707T (98.3%),
followed by B. ginsengisoli JCM 17335T (97.8%) and B. fumarioli
JCM 21708T (97.0%). The similarity of rpoB gene
sequence between strain YT-3T and B. drentensis JCM 21707T,
B. ginsengisoli JCM 17335T and B. fumarioli JCM 21708T was
80.4%, 81.5%, and 82.1%, respectively. The genomic DNA
G + C content was 44.9 mol%. The predominant respiratory
quinone was Menaquinone-7, and meso-diaminopimelic acid
was present in the peptidoglycan layer of cell wall. The major
fatty acids were C15:0 anteiso (36.2%), C14:0 iso (19.6%),
C15:0 iso (17.4%), and C16:0 iso (9.8%). The polar lipid profile
consisted of diphosphatidylglycerol, phosphatidylethanolamine,
phosphatidylglycerol, phospholipids, and ammoniac
phospholipids. The DNA-DNA hybridization values
between isolate YT-3T and B. drentensis (JCM 21707T), B.
ginsengisoli (JCM 17335T), and B. fumarioli (JCM 21708T)
were 36.3%, 30.3%, and 25.3%, respectively. On the basis of
physiological, genetic and biochemical data, strain YT-3T
represented a novel species of the genus Bacillus, for which
the name Bacillus ferrooxidans sp. nov was proposed. The type
strain is YT-3T (= KCTC 33875T = CCTCC AB 2017049T).
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showed that the strain IMCC25679T formed a lineage within
the genus Pedobacter. The strain IMCC25679T was closely
related to Pedobacter daechungensis Dae 13T (96.4% sequence
similarity), Pedobacter rivuli HME8457T (95.3%) and Pedobacter
lentus DS-40T (94.3%). The major fatty acids of IMCC-
25679T were iso-C15:0, iso-C16:0 and summed feature 3 (comprising
C16:1 ω6c and/or C16:1 ω7c). The major respiratory quinone
was MK-7. The major polar lipids were phosphatidylethanolamine
(PE), an unidentified sphingolipid (SL), an
unidentified aminolipid (AL) and three unidentified polar
lipids (PL). The DNA G + C content of IMCC25679T was 32.2
mol%. Based on the evidence presented in this study, the
strain IMCC25679T represents a novel species within the genus
Pedobacter, with the proposed name Pedobacter aquicola,
sp. nov. The type strain is IMCC25679T (= KACC 19486T
= NBRC113131T).
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UCM-G35T) were obtained while isolating soil bacteria for
the development of antibiotics. Cells of these strains were
Gram-negative, non-spore forming, motile by means of a
single flagellum, and rod shaped. In all strains, the predominant
isoprenoid quinone was ubiquinone-8 (Q-8). Cells
contained C16:0, summed feature 3 (C16:1 ω7c and/or C16:1 ω6c),
summed feature 8 (C18:1 ω7c and/or C18:1 ω6c), and C17:0 cyclo
as the major fatty acids, and C10:0 3-OH as the major hydroxy
fatty acid. The polar lipid profiles of the three novel strains
were dominated by diphosphatidylglycerol, phosphatidylethanolamine,
and phosphatidylglycerol. The genomic DNA
G + C contents of strains UCM-2T, UCM-G28T, and UCMG35T
were 67.5, 65.9, and 66.4 mol%, respectively. Phylogenetic
analyses based on 16S rRNA sequences showed that
strain UCM-2T was most closely related to Variovorax soli
NBRC 106424T, whereas strains UCM-G28T and UCM-G35T
were most similar to Variovorax ginsengisoli Gsoil 3165T.
Values indicating DNA-DNA hybridization between the
novel isolates and closely related species in the genus Variovorax
were lower than the 70% cut-off point. These phenotypic,
chemotaxonomic, and phylogenetic data indicate
that the three isolates should be classified as new members
of the genus Variovorax, for which the names Variovorax
ureilyticus sp. nov., Variovorax rhizosphaerae sp. nov., and
Variovorax robiniae sp. nov. are proposed. The type strains
are UCM-2T (= KACC 18899T = NBRC 112306T), UCMG28T
(= KACC 18900T = NBRC 112307T), and UCM-G35T
(= KACC 18901T = NBRC 112308T), respectively.
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Strains pyc13T and ZGT13 were isolated from Lake Pengyan
and Lake Zigetang on Tibetan Plateau, respectively. Both
strains were Gram-negative, catalase- and oxidase-positive,
aerobic, rod-shaped, nonmotile, and nonflagellated bacteria.
Phylogenetic analysis based on 16S rRNA gene sequences
showed that strains pyc13T and ZGT13 belong to the genus
Halomonas, with Halomonas alkalicola 56-L4-10aEnT as
their closest neighbor, showing 97.4% 16S rRNA gene sequence
similarity. The predominant respiratory quinone of
both strains was Q-9, with Q-8 as a minor component. The
major fatty acids of both strains were C18:1 ω6c/C18:1 ω7c,
C16:1 ω6c/C16:1 ω7c, C16:0, and C12:0 3OH. The polar lipids of
both strains consisted of phosphatidylethanolamine, phosphatidylglycerol,
diphosphatidylglycerol, glycolipid, phospholipids
of unknown structure containing glucosamine,
and unidentified phospholipids. The DNA G + C content of
pyc13T and ZGT13 were 62.6 and 63.4 mol%, respectively.
The DNA-DNA hybridization values of strain pyc13T were
34, 41, 61, 35, and 35% with the reference strains H. alkalicola
56-L4-10aEnT, H. sediminicola CPS11T, H. mongoliensis
Z-7009T, H. ventosae Al12T, and H. fontilapidosi 5CRT, respectively.
Phenotypic, biochemical, genotypic, and DNA-DNA
hybridization data showed that strains pyc13T and ZGT13
represent a new species within the genus Halomonas, for
which the name H. tibetensis sp. nov. is proposed. The type
strain is pyc13T (= CGMCC 1.15949T = KCTC 52660T).
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A Gram-stain-negative, non-motile, rod-shaped, aerobic bacterial
strain, designated 1-3-3-8T, was isolated from soil and
characterized taxonomically using a polyphasic approach.
Comparative 16S rRNA gene sequence analysis showed that
strain 1-3-3-8T belongs to the family Cytophagaceae of phylum
Bacteroidetes and is most closely related to Hymenobacter
paludis KBP-30T (96.8% similarity), Hymenobacter ocellatus
Myx2105T (96.8%), Hymenobacter coalescens WW84T (95.6%),
and Hymenobacter deserti ZLB-3T (95.4%). The G + C content
of the genomic DNA of strain 1-3-3-8T was 63.6 mol%. The
isolate contained C15:0 iso (28.4%), summed feature 4 (C17:1
anteiso B/C17:1 iso I; 18.9%), and C15:0 anteiso (17.6%) as major
fatty acids, MK-7 as the predominant respiratory quinone,
and sym-homospermidine as the predominant polyamine.
The major polar lipids were phosphatidylethanolamine and
an unidentified lipid. The phenotypic and chemotaxonomic
data supported the affiliation of strain 1-3-3-8T with the genus
Hymenobacter. The DNA-DNA relatedness between strain
1-3-3-8T and H. paludis KCTC 32237T and H. ocellatus DSM
11117T were 24.5 and 27.4% respectively, clearly showing that
the isolate is not related to them at the species level. Overall,
the novel strain could be differentiated from its phylogenetic
neighbors on the basis of several phenotypic, genotypic, and
chemotaxonomic features. Therefore, strain 1-3-3-8T represents
a novel species of the genus Hymenobacter, for which
the name Hymenobacter jeollabukensis sp. nov. has been proposed.
The type strain is 1-3-3-8T (= KCTC 52741T = JCM
32192T).
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Methane production by methanogens in wetland is recognized
as a significant contributor to global warming. Spartina alterniflora
(S. alterniflora), which is an invasion plant in China’s
wetland, was reported to have enormous effects on methane
production. But studies on shifts in the methanogen community
in response to S. alterniflora invasion at temporal and
spatial scales in the initial invasion years are rare. Sediments
derived from the invasive species S. alterniflora and the native
species Phragmites australis (P. australis) in pairwise sites
and an invasion chronosequence patch (4 years) were analyzed
to investigate the abundance and community structure
of methanogens using quantitative real-time PCR (qPCR)
and Denaturing gradient gel electrophoresis (DGGE) cloning
of the methyl-coenzyme M reductase A (mcrA) gene. For the
pairwise sites, the abundance of methanogens in S. alterniflora
soils was lower than that of P. australis soils. For the
chronosequence patch, the abundance and diversity of methanogens
was highest in the soil subjected to two years invasion,
in which we detected some rare groups including Methanocellales
and Methanococcales. These results indicated a priming
effect at the initial invasion stages of S. alterniflora for
microorganisms in the soil, which was also supported by the
diverse root exudates. The shifts of methanogen communities
after S. alterniflora invasion were due to changes in pH, salinity
and sulfate. The results indicate that root exudates from
S. alterniflora have a priming effect on methanogens in the
initial years after invasion, and the predominate methylotrophic
groups (Methanosarcinales) may adapt to the availability
of diverse substrates and reflects the potential for high
methane production after invasion by S. alterniflora.
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Spartina alterniflora raised soil sulfide content by regulating sulfur cycle-associated bacteria in the Jiuduansha Wetland of China Chiquan He, Liyu Cheng, Daoyuan Wang, Zhenzhen Zhao, Zhengyu Wang, Feifei Wang, Xiaoxi Wang, Pu Zhang, Xueping Chen, Xiaoyan Liu Plant and Soil.2021; 469(1-2): 107. CrossRef
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Actinomycetes are well-known for producing numerous bioactive
secondary metabolites. In this study, primary screening
by antifungal activity assay found one actinomycete strain
WA23-4-4 isolated from the intestinal tract of Periplaneta
americana that exhibited broad spectrum antifungal activity.
16S rDNA gene analysis of strain WA23-4-4 revealed close
similarity to Streptomyces nogalater (AB045886) with 86.6%
sequence similarity. Strain WA23-4-4 was considered as a
novel Streptomyces and the 16s rDNA sequence has been
submitted to GenBank (accession no. KX291006). The maximum
antifungal activity of WA23-4-4 was achieved when
culture conditions were optimized to pH 8.0, with 12% inoculum
concentration and 210 ml ISP2 medium, which remained
stable between the 5th and the 9th day. 3-Acetyl benzoyl
amide was isolated by ethyl acetate extraction of WA23-
4-4 fermentation broth, and its molecular formula was determined
as C9H9NO2 based on MS, IR, 1H, and 13C NMR
analyses. The compound showed significant antifungal activity
against Candida albicans ATCC 10231 (MIC: 31.25
μg/ml) and Aspergillus niger ATCC 16404 (MIC: 31.25 μg/ml).
However, the compound had higher MIC values against
Trichophyton rubrum ATCC 60836 (MIC: 500 μg/ml) and
Aspergillus fumigatus ATCC 96918 (MIC: 1,000 μg/ml). SEM
analysis showed damage to the cell membrane of Candida
albicans ATCC 10231 and to the mycelium of Aspergillus niger
ATCC 16404 after being treatment with 3-acetyl benzoyl
amide. In conclusion, this is the first time that 3-acetyl benzoyl
amide has been identified from an actinomycete and
this compound exhibited antifungal activity against Candida
albicans ATCC 10231 and Aspergillus niger ATCC 16404.
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