Identification of mcr-1 and a novel chloramphenicol resistance gene catT on an integrative and conjugative element in an Actinobacillus strain of swine origin.

The aim of this study was to characterize a mcr-1-carrying integrative and conjugative element (ICE) in a novel Pasteurellaceae-like bacteria of swine origin. The mcr-1-positive GY-402 strain, recovered from a pig fecal sample, was subjected to whole genome sequencing with the combination of Illumina Hiseq and MinION platforms. Genome-based taxonomy revealed that strain GY-402 exhibited highest ANI value (84.89 %) to Actinobacillus succinogenes, which suggested that it represented a novel Actinobacillus species. Sequence analysis revealed that mcr-1 was clustered with eight other resistance genes in the MDR region of a novel ICE element, named ICEAsp1. Inverse PCR and mating assays showed that ICEAsp1 is active and transferrable. In addition, six circular forms mediated by four ISApl1 elements were detected with different inverse PCR sets, indicating that flexible composite transposons could be formed by pairwise combinations of multiple IS copies. Cloning experiment and phylogenetic analysis revealed that the novel Cat protein, designated CatT, belongs to type-A family and confers resistance to chloramphenicol. In conclusion, this is, to the best of our knowledge, the first report of mcr-1 gene on ICE structure and also in Pasteurellaceae bacteria. The diverse composite transposons mediated by multicopy IS elements may facilitate the dissemination of different resistance genes.

Actinobacillosis outbreak in cattle with clinical manifestation of hippopotamus-like face / Actinobacilose em bovinos com manifestação clínica de cara de hipopótamo

Actinobacillosis outbreak with clinical manifestation of hippopotamus-like face observed in a property located in the municipality of Capão do Leão, Southern Brazil, in September 2016, is described. The cattle herd remained for most of the year in rice stubble. When these areas were occupied with new crops, they were transferred to areas where there were small native forests. Three cattle were affected. They presented a volume increase in the nasolabial and maxillary region, and there was also regional lymph node swelling. The evolution of the disease occurred in approximately six months. In tissue fragments collected for culture, Actinobacillus lignieresii was isolated. The diagnosis was based on clinical findings, histopathological evaluation characterized by the presence of piogranulomas with Splendore Hoepli reaction in its center, bacterial isolation, and identification of A. lignieresii by polymerase chain reaction (PRC) and genetic sequencing.(AU)

Descreve-se um surto de actinobacilose com manifestação clínica de cara de hipopótamo diagnosticado em uma propriedade localizada no município do Capão do Leão, Rio Grande do Sul em setembro de 2016. Os bovinos permaneciam durante a maior parte do ano em restevas de arroz e quando as áreas eram ocupadas com novas lavouras eram transferidos para áreas onde havia pequenas matas nativas. Foram afetados três bovinos adultos que apresentavam aumento de volume na região nasolabial e maxilar e havia, também, tumefação dos linfonodos regionais. A evolução da enfermidade era de aproximadamente seis meses. Nos fragmentos coletados para cultura houve isolamento de Actinobacillus lignieresii. O diagnóstico foi baseado nos achados clínicos, na avaliação histopatológica caracterizada pela presença de piogranulomas com reação de Splendori Hoepli no centro, no isolamento bacteriano, identificação de Actinobacillus lignieresii por reação em cadeia da polimerase (PRC) e sequenciamento genético.(AU)

Tracheal microbial populations in horses with moderate asthma.

BACKGROUND: There are limited data on potential dysbiosis of the airway microbiota in horses with asthma. HYPOTHESIS/OBJECTIVES: We hypothesized that the respiratory microbiota of horses with moderate asthma is altered. Our objectives were (a) to quantify tracheal bacterial populations using culture and qPCR, (2) to compare aerobic culture and qPCR, and (c) to correlate bacterial populations with bronchoalveolar lavage fluid (BALF) cytology. ANIMALS: Eighteen horses with moderate asthma from a hospital population and 10 controls. METHODS: Prospective case-control study. Aerobic culture was performed on tracheal aspirates, and streptococci, Pasteurella multocida, Chlamydophila spp., Mycoplasma spp., as well as 16S (bacterial) and 18S (fungal) rRNA subunits were quantified by qPCR. RESULTS: Potential pathogens such as Streptococcus spp., Actinobacillus spp., and Pasteurellaceae were isolated from 8, 5, and 6 horses with asthma and 3, 0, and 2 controls, respectively. There was a positive correlation between Streptococcus spp. DNA and 16S rRNA gene (r ≥ 0.7, P ≤ 0.02 in both groups), but the overall bacterial load (16S) was lower in asthma (1.5 ± 1.3 versus 2.5 ± 0.8 × 104 copy/µL, P < 0.05). There was no association between microbial populations and clinical signs, tracheal mucus or BALF inflammation. CONCLUSIONS AND CLINICAL IMPORTANCE: This study does not support that bacterial overgrowth is a common feature of chronic moderate asthma in horses. Lower bacterial load could suggest dysbiosis of the lower airways, either as a consequence of chronic inflammation or previous treatments, or as a perpetuating factor of inflammation.

Diverse strains of Actinobacillus lignieresii isolated from clinically affected cattle in a geographically restricted area.

OBJECTIVE: To investigate whether an outbreak of Actinobacillus lignieresii was caused by one or multiple strains. METHODS: Nine isolates of A. lignieresii were obtained from the lymph nodes of 15 affected cattle from two farms to determine whether a single strain was involved. An enterobacterial repetitive insertion consensus sequence (ERIC) PCR was used for genotyping, and the repeats-in-toxin genes were analysed by PCR and sequencing. RESULTS: Isolates from the two farms belonged to two and three genotypes, with a total of four genotypes detected. Genes of the apxICABD operons of some strains had deletions in the apxIA (~697 bp) and in the apxID (~187 bp) genes. The toxin gene deletions and the ERIC PCR patterns suggested the involvement of different A. lignieresii genotypes. CONCLUSION: There was no evidence that a unique genotype was associated with actinobacillosis on the two farms, confirming that this disease was associated with other contributing factors.

Actinobacillus vicugnae sp. nov., isolated from alpaca (Vicugna pacos).

Ten strains of an Actinobacillus-like organism were isolated from alpaca (Vicugna pacos) in the UK over a period of 5 years, with no known epidemiological linkages. The isolates are distinct, based on both phenotype and genotype, from any previously described Actinobacillus species. Molecular analysis, based on 16S rRNA, rpoB and infB gene sequences, placed the isolates as a novel, early branching, lineage within the currently recognised Actinobacillus sensu stricto. In agreement with the results of the single-gene analysis, average nucleotide identity values, based on whole genome sequences, showed very similar identities to a number of members of the Actinobacillus sensu stricto notably Actinobacillus equuli, Actinobacillus suis and Actinobacillus ureae. At least two phenotypic characteristics differentiate the alpaca isolates from other Actinobacillus sensu stricto species, and from taxa likely falling within this group but awaiting formal species description, with Actinobacillus anseriformium and A. equulisubsp. haemolyticus being the most closely related phenotypically. The alpaca isolates can be differentiated from A. anseriformium by production of ß-galactosidase (ONPG) and acid from raffinose, and from A. equulisubsp. haemolyticus by production of acid from d-sorbitol and failure to produce acid from d-xylose. Isolates were obtained from multiple sites in alpaca including respiratory tract, alimentary tract and internal organs although further evidence is required to understand any pathogenic significance. Based on the results of characterization described here, it is proposed that the isolates constitute a novel species, Actinobacillus vicugnae sp. nov. The type strain is W1618T (LMG30745T NCTC14090T) isolated in the UK in 2012 from oesophageal ulceration in an alpaca (Vicugna pacos).

Actinobacillus species isolated from Japanese Thoroughbred racehorses in the last two decades.

Actinobacillus species are known to be pathogenic to horses. To clarify etiological agents of actinobacillosis in Japanese adult horses, 27 isolates from Japanese Thoroughbred racehorses putatively identified by matrix-assisted laser desorption ionization time-of-flight mass spectrometry as Actinobacillus were further identified by PCR of the A. equuli toxin gene, by CAMP test, and by 16S rRNA sequencing analysis. Actinobacillus equuli subsp. haemolyticus was isolated most frequently (16/27) and was related to respiratory infections. Actinobacillus equuli subsp. equuli (4/27) was isolated from chronic cases or concomitant with other bacterial infections. The remainder were A. pleuropneumoniae, unclassified Actinobacillus species and Pasteurella caballi. Actinobacillus equuli including subsp. haemolyticus and subsp. equuli were the species most frequently isolated from equine actinobacillosis in Japan.

Use of next generation sequencing to investigate the microbiota of experimentally induced wounds and the effect of bandaging in horses.

OBJECTIVES: To use next generation sequencing to characterize the microbiota of horses during healing of skin wounds in two anatomical locations (body and limb) known to present different healing patterns; and to investigate the impact of bandaging on bacterial communities of skin wounds located on the limbs of horses. METHODS: Full-thickness skin wounds were created on the distal extremity of both thoracic limbs and on one lateral mid-thoracic wall of four healthy horses. Limb wounds were randomly assigned to bandaging or not. A full-thickness sample was collected with a biopsy punch from intact thorax and limb skin (T0) and from the margin of one wound per site (thorax, unbandaged limb, bandaged limb) 1 week (T1) and 2 weeks (T2) postoperatively, and at full healing (T3). Thoracic skin samples obtained from three healthy horses were included in the analysis as controls. RESULTS: Anatomic location (thorax vs. limb) significantly influenced bacterial composition of equine skin and healing wounds. Fusobacterium and Actinobacillus were strongly associated with limb wounds during the initial phases of healing. Bandaging had a significant impact on the microbiota during the healing process. The skin microbiota after healing was more similar to samples from controls, demonstrating the resilience and stability of the environment. CONCLUSIONS: Equine skin microbiota is a rich and stable environment that is disturbed by wounding, but returns to its previous stage after full healing. Anatomic location significantly influences bacterial composition of the equine skin during wound healing. Bandaging has a significant impact on the skin microbiota of horses during the healing process. Results of this study provide new insight for a better understanding of the contribution of bacteria to wound healing in horses and may facilitate the future development of therapeutic strategies using commensal bacteria.

Natural lymphatic ("atypical") actinobacillosis in cattle caused by Actinobacillus lignieresii.

Bovine actinobacillosis is typically characterized by pyogranulomatous glossitis (wooden tongue). The involvement of other tissues, generally the skin or lymph nodes, has been regarded as atypical or cutaneous. We describe herein 2 outbreaks of actinobacillosis affecting primarily the lymph nodes of the head and neck. The disease affected 40 of 540 lactating cows in a dairy herd, and 5 of 335 two-y-old steers in a beef herd. Multiple or single, occasionally ulcerated nodules were observed in the region of the mandible, neck, and shoulder, including the parotid, submandibular, retropharyngeal, and prescapular lymph nodes. The histologic lesions were multifocal pyogranulomatous lymphadenitis, dermatitis, and cellulitis with Splendore-Hoeppli material. One steer had an exophytic pyogranuloma in the gingiva and another died because of ruminal tympany secondary to oropharyngeal and esophageal obstruction by a pyogranulomatous mass. Actinobacillus lignieresii was isolated from the lesions and identified by amplification, sequencing, and analysis of the 16S ribosomal (r)DNA gene. Seven of 8 cows recovered after treatment with sodium iodide. Lymphatic actinobacillosis is a frequent disease in Uruguay, southern Brazil, and Argentina. Morbidity is 1-50%; mortality is <1%. A. lignieresii apparently penetrates the intact oral and pharyngeal mucosa, infecting primarily the regional lymph nodes. Later, lesions may extend to the subcutaneous tissue and the skin, causing ulceration. Affected cattle with draining pyogranulomas contaminate the environment, favoring disease transmission, and should be treated with sodium iodide or antibiotics and isolated from the herd in order to control the disease.

Isolation of [Actinobacillus] rossii from an aborted piglet.

CASE REPORT: This report describes an investigation into the cause of abortions on a commercial pig farm in Victoria in October 2015 in which six sows aborted over a 2-month period. Four of the abortions occurred in the 3 weeks prior to the sows' anticipated farrowing dates and the other two occurred in the second trimester of pregnancy. An analysis of farm data showed that the abortion rate in the previous 12 months (2014-15) was more than twice that of the previous 2 years (1.2% vs 0.5%). Parity appeared not to be a risk factor for abortions. There were no other indicators of reproductive failure on the farm and there were no obvious clinical signs of disease in affected sows. Placenta and aborted fetuses for postmortem analysis were collected while one of the sows was aborting. The only gross abnormality detected in piglets was reddening over the skin. On gross examination the surfaces of the placentas appeared diffusely thickened and 'furry'. Histological examination of fixed placenta from one of two piglets showed a severe, acute, multifocal, necrosuppurative placentitis. Gram staining of a histological section of the placenta revealed abundant Gram-negative short bacilli, consistent with Pasteurella-Actinobacillus spp. A sample of stomach contents from one piglet yielded a profuse predominant growth of bacteria described as Pseudomonas-like. This organism was subsequently identified using 16sRNA sequencing to have 98% homology with [Actinobacillus] rossii. CONCLUSION: This is the first reported case of [A.] rossii isolated from an aborted pig's stomach in Australia.

The Potential Effect of Oral Microbiota in the Prediction of Mucositis During Radiotherapy for Nasopharyngeal Carcinoma.

BACKGROUND: Oral mucositis is probably the most debilitating complication that can arise in treating a patient with head and neck cancer. Little is known about the impacts of oral microbiota on the initiation and progression of mucositis. METHODS: Based on 16S rRNA gene sequencing, dynamic changes in oral bacterial profile as well as correlations between the severity of mucositis and bacterial shifts during radiotherapy were investigated. FINDINGS: Our results revealed that bacterial community structure altered progressively during radiation therapy, in parallel with a marked increase in the relative abundance of some Gram-negative bacteria. Patients who eventually developed severe mucositis harbored a significantly lower bacterial alpha diversity and higher abundance of Actinobacillus during the phase of erythema - patchy mucositis. Accordingly, a random forest model for predicting exacerbation of mucositis was generated, which achieved a high predictive accuracy (AUC) of 0.89. INTERPRETATION: Oral microbiota changes correlate with the progression and aggravation of radiotherapy-induced mucositis in patients with nasopharyngeal carcinoma. Microbiota-based strategies can be used for the early prediction and prevention of the incidence of severe mucositis during radiotherapy.

Multifocal suppurative granuloma caused by Actinobacillus lignieresii in the peritoneum of a beef steer.

An imported crossbred Angus beef steer aged eight to twelve months died suddenly on the eighth day of a quarantine period in Japan. Gross examination showed the peritoneum and mesentery consisted of numerous nodules of various sizes. Histological examination revealed chronic suppurative granulomatous peritonitis with eosinophilic rosettes surrounding colonies of Gram-negative bacilli. The bacteria isolated from the nodules were confirmed to be Actinobacillus lignieresii based on the results of 16S rRNA gene sequencing and immunohistochemistry. Antibiotic sensitivity testing showed that the isolate was resistant to penicillin. Thus, a diagnosis of atypical actinobacillosis caused by A. lignieresii was made.

First isolation of Actinobacillus genomospecies 2 in Japan.

We describe here the first isolation of Actinobacillus genomospecies 2 in Japan. The isolate was found in a septicemic foal and characterized by phenotypic and genetic analyses, with the latter consisting of 16S rDNA nucleotide sequence analysis plus multilocus sequence analysis using three housekeeping genes, recN, rpoA and thdF, that have been proposed for use as a genomic tool in place of DNA-DNA hybridization.

Specific detection and identification of [Actinobacillus] muris by PCR using primers targeting the 16S-23S rRNA internal transcribed spacer regions.

[Actinobacillus] muris represents along with [Pasteurella] pneumotropica the most prevalent Pasteurellaceae species isolated from the laboratory mouse. Despite the biological and economic importance of Pasteurellaceae in relation to experimental animals, no molecular based methods for the identification of [A.] muris are available. The aim of the present investigation was to develop a PCR method allowing detection and identification of [A.] muris. In this assay, a Pasteurellaceae common forward primer based on a conserved region of the 16S rRNA gene was used in conjunction with two different reverse primers specific for [A.] muris, targeting the 16S-23S internal transcribed spacer sequences. The specificity of the assay was tested against 78 reference and clinical isolates of Pasteurellaceae, including 37 strains of [A.] muris. In addition, eight other mice associated bacterial species which could pose a diagnostic problem were included. The assay showed 100% sensitivity and 97.95% specificity. Identification of the clinical isolates was validated by ITS profiling and when necessary by 16S rRNA sequencing. This multiplex PCR represents the first molecular tool able to detect [A.] muris and may become a reliable alternative to the present diagnostic methods.

A novel taxon within the genus Actinobacillus isolated from alpaca (Vicugna pacos) in the United Kingdom.

Members of the genus Actinobacillus comprise a diverse group of bacteria associated with mammals and birds including both pathogens and commensals. Here we describe the isolation of a previously undescribed Actinobacillus-like organism from seven epidemiologically unrelated infections of alpaca. The isolates are phenotypically and genotypically distinct from any previously described Actinobacillus species but 16S rRNA analysis unequivocally places the isolates as a novel lineage within the Actinobacillus sensu stricto. The clinical relevance of the organism requires further study however isolation in pure culture from organs of some cases suggests it may be associated with septicaemia in juvenile alpaca.

Atypical actinobacillosis in bulls in Argentina: granulomatous dermatitis and lymphadenitis / Actinobacilose atípica em touros na Argentina: dermatite granulomatosa e linfadenite

Actinobacillosis is a common cause of sporadic infection in cattle. It was mostly characterized as a pyogranulomatous inflammation of the tongue, but also soft tissues as lymph nodes, other digestive tract localization and skin. The aim of this study was to describe an episode of granulomatous dermatitis and lymphadenitis affecting a bull herd in Argentina during 2010. Actinobacillus lignieresii was isolated from samples collected from one of the affected bulls, and characteristic lesions were observed. Lesions other than 'wooden tongue' are usually uncommon; however, actinobacillosis should be included as a differential diagnosis for cutaneous diseases.

A actinobacilose é causa comum de infecções esporádicas em bovinos. Esta afeção tem sido caracterizada como uma infecção piogranulomatosa não somente da língua como também de tecidos moles tais como linfonodos, ou outras localizações no trato digestivo e na pele. O objetivo do presente trabalho é descrever um episódio de dermatite piogranulomatosa e linfadenite que afetou um rebanho de touros na Argentina em 2010. As amostras recolhidas de um dos animais afetados permitiram o isolamento de Actinobacillus lignieresii. Observaram-se as lesões características da doença. Habitualmente não são comuns outras lesões para além das descritas como "língua de pau", no entanto, a actinobacilose deve ser incluída como um possível diagnóstico diferencial de doenças cutâneas.

Subgingival biodiversity in subjects with uncontrolled type-2 diabetes and chronic periodontitis.

BACKGROUND AND OBJECTIVE: There is a bidirectional relationship between periodontal disease and type-2 diabetes mellitus (DM). Inflammatory mediators may negatively affect glycemic control, and increased glucose levels and resultant glycation end-products may alter the host response against bacterial infection. However, no agreement has been reached regarding the effect of DM on periodontal subgingival microbiota. Therefore, the purpose of the present study was to compare the subgingival biodiversity in deep periodontal pockets of subjects with chronic periodontitis and either uncontrolled type-2 diabetes or no diabetes using 16S rRNA gene cloning and sequencing. MATERIAL AND METHODS: Twelve subjects with uncontrolled type-2 diabetes (glycated hemoglobin > 8%) and eleven nondiabetic subjects presenting severe and generalized chronic periodontitis were selected. Subgingival biofilm from periodontal pockets > 5 mm were assessed using the 16S rRNA gene cloning and sequencing technique. RESULTS: Significant differences were observed in subgingival microbiota between diabetic and nondiabetic subjects. Diabetic subjects presented higher percentages of total clones of TM7, Aggregatibacter, Neisseria, Gemella, Eikenella, Selenomonas, Actinomyces, Capnocytophaga, Fusobacterium, Veillonella and Streptococcus genera, and lower percentages of Porphyromonas, Filifactor, Eubacterium, Synergistetes, Tannerella and Treponema genera than nondiabetic individuals (p < 0.05). Moreover, some phylotypes, such as Fusobacterium nucleatum, Veillonella parvula, V. dispar and Eikenella corrodens were detected significantly more often in diabetic subjects than in nondiabetic subjects (p < 0.05). CONCLUSION: Subjects with uncontrolled type-2 diabetes and chronic periodontitis presented significant dissimilarities in subgingival biodiversity compared with nondiabetic subjects.

Classification of avian haemolytic Actinobacillus-like organisms (Bisgaard taxon 26) associated with anseriforme birds as Actinobacillus anseriformium sp. nov.

Avian haemolytic Actinobacillus-like organisms have tentatively been named Bisgaard taxon 26. Phenotypic information has been published on 65 strains of this taxon. In the current study, 31 isolates were selected for genotypic characterization. Thirty strains had the same rpoB sequence and only one strain diverged in 1 nt. The highest rpoB similarity to members of other taxa was 89.7 % to the type strain of Actinobacillus equuli subsp. haemolyticus and the similarity to the type strain of the type species, Actinobacillus lignieresii, was 88.2 %. The lowest 16S rRNA gene sequence similarity between strains of the group was determined in previous investigations to be 99.6 % and the highest similarities of 96.4 and 96.2 % outside the group were obtained to the reference strain of Actinobacillus genomospecies 2 and to the type strain of A. equuli subsp. equuli, respectively; 95.8-95.3 % similarity was obtained with the type strain of A. lignieresii. recN gene sequence similarities within the group were from 99.5 % (strains F66(T) and F64) to 99.8 % (strains F66(T) and F67) corresponding to genome similarities of 93.9-94.6 %, which are near the upper limit for species compared with other members of the Pasteurellaceae. The highest recN similarity outside the group (83.4 %) was observed to the type strain of Actinobacillus capsulatus, whereas the similarity to the type strain of A. lignieresii was 80.9 %, corresponding to genome similarities of 57.7 and 52.0 %, respectively. All isolates meet the phenotypic characters outlined for Actinobacillus (urease-, phosphatase- and porphyrin-positive, indole-negative, acid production from fructose, sucrose, maltose and dextrin). ß-Haemolysis of bovine blood is observed and isolates may demonstrate in vitro satellitic growth, referred to as V-factor or NAD requirement. Isolates have been obtained from the upper respiratory tract of web-footed birds in which they may cause sinusitis, conjunctivitis and septicaemia. Based on the characterization reported, it is proposed that the isolates belong to a novel species, Actinobacillus anseriformium sp. nov., which includes taxon 26 and a V-factor-dependent strain. The major fatty acids of the type strain are C(16 : 1)ω7c, C(14 : 0), C(16 : 0) and C(14 : 0) 3-OH and/or iso-C(16 : 1) I, corresponding to the profile observed for the type strain of A. lignieresii. Five to 12 characters separate A. anseriformium from other taxa of Actinobacillus, with Actinobacillus ureae being most closely related; A. anseriformium can be differentiated from A. ureae based on haemolysis, ß-glucosidase, and production of acid from (-)-D-sorbitol, trehalose and glycosides. The type strain of A. anseriformium is F66(T) ( = CCUG 60324(T) = CCM 7846(T)), which was isolated from conjunctivitis in a White Pekin duck.