scholarly journals A New Enterobacter cloacae Bacteriophage EC151 Encodes the Deazaguanine DNA Modification Pathway and Represents a New Genus within the Siphoviridae Family

Viruses ◽  
2021 ◽  
Vol 13 (7) ◽  
pp. 1372
Author(s):  
Vera Morozova ◽  
Ghadeer Jdeed ◽  
Yuliya Kozlova ◽  
Igor Babkin ◽  
Artem Tikunov ◽  
...  
Keyword(s):  
New Genus ◽  
Enterobacter Cloacae ◽  
Genetic Distances ◽  
Dna Modification ◽  
Hypothetical Proteins ◽  
Gene Synteny ◽  
Encoding Gene ◽  
Distinct Branch ◽  
Predicted Function ◽  
Siphoviridae Family

A novel Enterobacter cloacae phage, EC151, was isolated and characterized. Electron microscopy revealed that EC151 has a siphovirus-like virion morphology. The EC151 nucleotide sequence shows limited similarity to other phage genomes deposited in the NCBI GenBank database. The size of the EC151 genome is 60,753 bp and contains 58 putative genes. Thirty-nine of them encode proteins of predicted function, 18 are defined as hypothetical proteins, and one ORF identifies as the tRNA-Ser-GCT-encoding gene. Six ORFs were predicted to be members of the deazaguanine DNA modification pathway, including the preQ0 transporter. Comparative proteomic phylogenetic analysis revealed that phage EC151 represents a distinct branch within a group of sequences containing clades formed by members of the Seuratvirus, Nonagvirus, and Vidquintavirus genera. In addition, the EC151 genome showed gene synteny typical of the Seuratvirus, Nonagvirus, and Nipunavirus phages. The average genetic distances of EC151/Seuratvirus, EC151/Nonagvirus, and EC151/Vidquintavirus are approximately equal to those between the Seuratvirus, Nonagvirus, and Vidquintavirus genera (~0.7 substitutions per site). Therefore, EC151 may represent a novel genus within the Siphoviridae family. The origin of the deazaguanine DNA modification pathway in the EC151 genome can be traced to Escherichia phages from the Seuratvirus genus.

A new genus of neobatrachian frog from southern Patagonian forests, Argentina and Chile NÉSTOR G. BASSO, CARMEN A. ÚBEDA, MARÍA M. BUNGE & LIZA B. MARTINAZZO (Argentina)

Zootaxa ◽  
2011 ◽  
Vol 3002 (1) ◽  
pp. 31 ◽  
Author(s):  
NÉSTOR G. BASSO ◽  
CARMEN A. ÚBEDA ◽  
MARÍA M. BUNGE ◽  
LIZA B. MARTINAZZO
Keyword(s):  
Type Species ◽  
New Genus ◽  
Diploid Number ◽  
Genetic Distances ◽  
Molecular Evidence ◽  
Monotypic Genus ◽  
Southern Chile ◽  
Oral Disc ◽  
Bright Green ◽  
A New Species

In 1975 Lynch named a new species of frog based on two specimens from Puerto Eden, Wellington Island, southern Chile, tentatively allocated to the genus Telmatobius. Telmatobius grandisonae Lynch was later included by the same author in his genus Atelognathus. Based on a reappraisal of the type material and the description of the internal and external morphology, karyotype, tadpole morphology and molecular evidence from recently discovered specimens collected at Lago del Desierto, southern Argentina, we describe the monotypic genus Chaltenobatrachus, with Telmatobius grandisonae (Lynch) serving as the type species. Chaltenobatrachus differs from Atelognathus mainly in having a uniform bright green dorsal coloration, with brown to reddish warts; orange iris with gold spots; fingers with interdigital membrane; frontoparietals well developed; small nasals;well ossified sphenethmoid; anteriorly expanded homosternum; skin of tadpole transparent; oral disc with protruding anterior and lateral papillae; diploid number 2n = 32 chromosomes. The genetic distances between Chaltenobatrachus and Atelognathus meet or exceed most other intergeneric comparisons.

A new small Arthroleptis (Amphibia: Anura: Arthroleptidae) from the Liberian part of Mount Nimba, West Africa

Zootaxa ◽  
2009 ◽  
Vol 2302 (1) ◽  
pp. 19-30 ◽  
Author(s):  
MARK-OLIVER RÖDEL ◽  
JOSEPH DOUMBIA ◽  
ALEX T. JOHNSON ◽  
ANNIKA HILLERS
Keyword(s):  
New Species ◽  
West Africa ◽  
New Genus ◽  
Color Pattern ◽  
Genetic Distances ◽  
West African ◽  
Future Research ◽  
Base Pairs ◽  
Unique Color ◽  
Smooth Skin

A new small West African Arthroleptis from the rainforest at the south-eastern tip of Mount Nimba, Liberia is described. The new species differs from all known congeners by the combination of a unique color pattern, a rounded canthal region and a completely smooth skin. The comparison of 592 base pairs of the mitochondrial 16S rRNA from the new species with Arthroleptis samples from all over West Africa, revealed genetic distances between 13.4–17.9%. From the morphologically similar A. aureoli the new species differed by 17.9%. Future research may reveal the necessity to establish a new genus for this peculiar new frog.

scholarly journals Genetic and Biochemical Characterization of FRI-1, a Carbapenem-Hydrolyzing Class A β-Lactamase from Enterobacter cloacae

2015 ◽  
Vol 59 (12) ◽  
pp. 7420-7425 ◽  
Author(s):  
Laurent Dortet ◽  
Laurent Poirel ◽  
Samia Abbas ◽  
Saoussen Oueslati ◽  
Patrice Nordmann
Keyword(s):  
Biochemical Characterization ◽  
Enterobacter Cloacae ◽  
Conjugative Plasmid ◽  
Lower Sensitivity ◽  
Gene Encoding ◽  
Content Type ◽  
Class A ◽  
Encoding Gene ◽  
Lactamase Gene

ABSTRACTAnEnterobacter cloacaeisolate was recovered from a rectal swab from a patient hospitalized in France with previous travel to Switzerland. It was resistant to penicillins, narrow- and broad-spectrum cephalosporins, aztreonam, and carbapenems but remained susceptible to expanded-spectrum cephalosporins. Whereas PCR-based identification of the most common carbapenemase genes failed, the biochemical Carba NP test II identified an Ambler class A carbapenemase. Cloning experiments followed by sequencing identified a gene encoding a totally novel class A carbapenemase, FRI-1, sharing 51 to 55% amino acid sequence identity with the closest carbapenemase sequences. However, it shared conserved residues as a source of carbapenemase activity. Purified β-lactamase FRI-1 hydrolyzed penicillins, aztreonam, and carbapenems but spared expanded-spectrum cephalosporins. The 50% inhibitory concentrations (IC50s) of clavulanic acid and tazobactam were 10-fold higher than those found forKlebsiella pneumoniaecarbapenemase (KPC), IMI, and SME, leading to lower sensitivity of FRI-1 activity to β-lactamase inhibitors. TheblaFRI-1gene was located on a ca. 110-kb untypeable, transferable, and non-self-conjugative plasmid. A putative LysR family regulator-encoding gene at the 5′ end of the β-lactamase gene was identified, leading to inducible expression of theblaFRI-1gene.

Feather mites of the family Ptyssalgidae (Acari: Analgoidea) associated with hummingbirds and suboscine passerines—A morphological review supplemented by CO1 barcode sequences

2019 ◽  
Vol 24 (8) ◽  
pp. 1406-1448
Author(s):  
Sergey Mironov ◽  
Pavel B. Klimov ◽  
Tila Maria Pérez ◽  
Barry M OConnor
Keyword(s):  
New Genus ◽  
Sequence Data ◽  
Single Species ◽  
Mite Species ◽  
Genetic Distances ◽  
New Genus And Species ◽  
Feather Mites ◽  
Type Host ◽  
The Family ◽  
Mite Family

To date, the feather mite family Ptyssalgidae (Acariformes: Analgoidea) has been known from a single species associated with hummingbirds (Apodiformes: Trochilidae). Here, based on our collecting in Mexico, we describe (i) a new genus and species, Tyrannoptyssalges striatus gen. n., sp. n., from a passerine host Tolmomyias sulphurescens (Passeriformes: Tyrannidae) and (ii) four new species of the genus Ptyssalges Atyeo and Gaud, 1979 from hummingbirds (Apodiformes: Trochilidae): Ptyssalges amaziliae sp. n. from Amazilia rutila (Delattre) (type host), A. candida (Bourcier & Mulsant) and A. yucatanensis (Cabot), P. anthracothoracis sp. n. from Anthracothorax prevostii (Lesson, R.), P. atyeoi sp. n. from Phaethornis longirostris (Delattre), and P. campylopteri sp. n. from Campylopterus curvipennis excellens (Wetmore). In addition, we redescribe Ptyssalges major (Trouessart, 1887), the type species of the genus, based on newly collected material from the type host, Eutoxeres aquila, from Panama. Standard morphological descriptions of all mite species are supplemented by CO1 barcoding sequence data. In the genus Ptyssalges, CO1 K2P interspecific genetic distances were 11.39–11.89%, while distances between the single species of Tyrannoptyssalges and species of the genus Ptyssalges were 16.34–17.87%. New, amended diagnoses for the family Ptyssalgidae and the genus Ptyssalges and a key to all known ptyssalgid species are provided. Preliminary hypotheses on the origin and ancestral host associations of ptyssalgids are briefly discussed.

A Novel Lytic Phage SZW_AS01 of Human Gut Bacteria Alistipes Shahii

2021 ◽  
Author(s):  
Yanchen Li ◽  
Juntao Shen ◽  
Junyu Chen ◽  
Luofei Mo ◽  
Jieqiong Zhang ◽  
...  
Keyword(s):  
Large Subunit ◽  
Gc Content ◽  
Amino Acid Sequences ◽  
Open Reading Frames ◽  
Lytic Phage ◽  
Transmission Electron ◽  
Wastewater Samples ◽  
Myoviridae Family ◽  
Distinct Branch ◽  
Siphoviridae Family

Abstract Alisitipes phage SZW_AS01, a novel lytic phage that specifically infects Alistipes shahii, was isolated from wastewater samples in Shenzhen, China. The phage's genome consists of 45,392 bp, with a GC content of 47%. The genome encodes 56 putative open reading frames (ORFs) and 1 tRNA gene. Direct terminal repeats with a length of 55 bp are present at both ends of the genome. Phylogenetic analysis of the amino acid sequences of terminase large subunit shows that phage SZW_AS01 forms a distinct branch from the Siphoviridae family phages, but is far from the Podoviridae and Myoviridae family phages. Transmission electron microscopy confirmed that SZW_AS01 belongs to the Siphoviridae family. To the best of our knowledge, this is the first report of a lytic phage infecting bacteria in the Alistipes genus.

scholarly journals Dominance of IMP-4-Producing Enterobacter cloacae among Carbapenemase-Producing Enterobacteriaceae in Australia

2015 ◽  
Vol 59 (7) ◽  
pp. 4059-4066 ◽  
Author(s):  
Hanna E. Sidjabat ◽  
Nicola Townell ◽  
Graeme R. Nimmo ◽  
Narelle M. George ◽  
Jennifer Robson ◽  
...  
Keyword(s):  
Enterobacter Cloacae ◽  
Resistance Mechanisms ◽  
Limited Data ◽  
Aminoglycoside Resistance ◽  
Content Type ◽  
The Past ◽  
Encoding Gene ◽  
Encoding Genes ◽  
16S Rrna Methylase

ABSTRACTThe prevalence of carbapenemase-producingEnterobacteriaceae(CPE) has been increasing worldwide.blaIMPhas been reported to be the predominant carbapenemase-encoding gene withinEnterobacteriaceaein Australia. However, there are limited data currently available on CPE from Queensland, Australia. A total of 58 CPE isolates were isolated between July 2009 and March 2014 from Queensland hospitals. The clonality of isolates was determined by Diversilab repetitive sequence-based PCR. The isolates were investigated for the resistance mechanisms carbapenemase, extended-spectrum β-lactamase, and AmpC β-lactamase and for aminoglycoside resistance and plasmid-mediated quinolone resistance genes by PCR. The plasmid types associated with carbapenemase-encoding genes were characterized. The majority of the CPE wereEnterobacter cloacae(n= 29). The majority of Queensland CPE isolates were IMP producers and comprised 11 species (n= 48). Nine NDM-producingEnterobacteriaceaewere identified. One NDM-producingKlebsiella pneumoniaeisolate coproduced OXA-48. OneK. pneumoniaeisolate was an OXA-181 producer. The incidence of IMP producers increased significantly in 2013.blaIMP-4was found in all IMP-producing isolates.blaTEM,qnrB, andaacA4were common among IMP-4 producers. The HI2 (67%) and L/M (21%) replicons were associated withblaIMP-4. All HI2 plasmids were of sequence type 1 (ST1). All but one of the NDM producers possessedblaCTX-M-15. The 16S rRNA methylase genes found among NDM producers werearmA,rmtB,rmtC, andrmtF. The substantial increase in the prevalence of CPE in Queensland has been associated mainly with the emergenceE. cloacaestrains possessing HI2 plasmids carryingblaIMP-4over the past 2 years. The importation of NDM producers and/or OXA-48-like producers in patients also contributed to the increased emergence of CPE.

scholarly journals Philibaetis gen. nov., a new genus from the Philippines (Ephemeroptera, Baetidae)

2021 ◽  
Vol 68 (1) ◽  
pp. 1-20
Author(s):  
Thomas Kaltenbach ◽  
Jhoana M. Garces ◽  
Jean-Luc Gattolliat
Keyword(s):  
New Genus ◽  
Dorsal Surface ◽  
Genetic Distances ◽  
The Philippines ◽  
Left Mandible ◽  
Fore Femur ◽  
New Material ◽  
Lateral Margins ◽  
Coi Sequences ◽  
Simple Spine

Investigations of type material and new material from the Philippines (Luzon) revealed that Baetis luzonensis Müller-Liebenau, 1982 and B. realonae Müller-Liebenau, 1982 do not belong to Baetis Leach, 1815. A new genus, Philibaetisgen. nov., is described to accommodate both species and both are re-described based on larvae. The new genus is characterised by having a rectangular labrum with a submarginal row of long, simple setae on the dorsal surface and ventrally on lateral margins long, simple, spine-like setae, on anterolateral margins long, feathered setae and medially long, bifid setae and a partial, submarginal row of lanceolate setae. Both mandibles have blade-like incisors and dorsally, a mediolateral patch of long, spine-like setae; additionally, the left mandible has a tuft of long, partly branched setae at the base of the subtriangular process. Philibaetisgen. nov. is further characterised by a hypopharynx with a medial tuft of stout setae and anterolaterally, two smaller tufts of stout setae, a galea-lacinia with the distal denti-seta tooth-like and directed against canines, a fore femur apically with stout setae, both on anterior and posterior side and without a femoral patch and a claw with one row of denticles and two or three subapical setae. The protogonostyli under the cuticle of male last instar larvae are folded in the Labiobaetis type, excluding their affiliation to the genus Baetis. COI sequences were obtained from both species. The genetic distance (Kimura 2-parameter) between them is 17.5% on average. Very limited genetic distances of 0% to 3% (0.75% on average) were found between specimens of P. luzonensiscomb. nov.

Qarounispora grandiappendiculata gen. et sp. nov. (Halosphaeriaceae, Microascales) from Qaroun Lake, Egypt

Phytotaxa ◽  
2022 ◽  
Vol 530 (1) ◽  
pp. 86-94
Author(s):  
ALI A. H. NOUREL-DIN ◽  
FATEN A. ABDEL-AZIZ ◽  
MOHAMED A. ABDEL-WAHAB
Keyword(s):  
New Genus ◽  
Its Rdna ◽  
The Family ◽  
Yellow Orange ◽  
Thin Walled ◽  
Distinct Branch ◽  
Multigene Analyses

An ascomycete collected from wood submerged in Qaroun Lake, El-Faiyum governorate, Egypt, is described as a new genus in the family Halosphaeriaceae. Multigene analyses based on LSU, SSU and ITS rDNA placed the new fungus as a distinct branch within the family. The new genus is characterized by its yellow to orange-brown ascomata, thin-walled, semi-persistent asci, hyaline to yellow-orange, thick-walled, distoseptate ascospores with one polar appendage that is amorphous in structure, large in size and irregular in shape.

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