scholarly journals Pectobacterium atrosepticum Phage vB_PatP_CB5: A Member of the Proposed Genus ‘Phimunavirus’

Viruses ◽  
2018 ◽  
Vol 10 (8) ◽  
pp. 394 ◽  
Author(s):  
Colin Buttimer ◽  
Alan Lucid ◽  
Horst Neve ◽  
Charles Franz ◽  
Jim O’Mahony ◽  
...  
Keyword(s):  
New Genus ◽  
Soft Rot ◽  
Amino Acid Sequences ◽  
Nucleotide Identity ◽  
Genome Comparison ◽  
Sequential Order ◽  
Pectobacterium Atrosepticum ◽  
Whole Genome Comparison ◽  
Type Phage ◽  
Lysis Cassette

Pectobacterium atrosepticum is a phytopathogen of economic importance as it is the causative agent of potato blackleg and soft rot. Here we describe the Pectobacterium phage vB_PatP_CB5 (abbreviated as CB5), which specifically infects the bacterium. The bacteriophage is characterized in detail and TEM micrographs indicate that it belongs to the Podoviridae family. CB5 shares significant pairwise nucleotide identity (≥80%) with P. atrosepticum phages φM1, Peat1, and PP90 and also shares common genome organization. Phylograms constructed using conserved proteins and whole-genome comparison-based amino acid sequences show that these phages form a distinct clade within the Autographivirinae. They also possess conserved RNA polymerase recognition and specificity loop sequences. Their lysis cassette resembles that of KP34virus, containing in sequential order a U-spanin, a holin, and a signal–arrest–release (SAR) endolysin. However, they share low pairwise nucleotide identity with the type phage of the KP34virus genus, Klebsiella phage KP34. In addition, phage KP34 does not possess several conserved proteins associated with these P. atrosepticum phages. As such, we propose the allocation of phages CB5, Peat1, φM1, and PP90 to a separate new genus designated Phimunavirus.

scholarly journals Whole genome comparison of donor and cloned dogs

2013 ◽  
Vol 3 (1) ◽  
Author(s):  
Hak-Min Kim ◽  
Yun Sung Cho ◽  
Hyunmin Kim ◽  
Sungwoong Jho ◽  
Bongjun Son ◽  
...  
Keyword(s):  
Genome Comparison ◽  
Whole Genome ◽  
Whole Genome Comparison

scholarly journals Co-occurrence of latent Dickeya and Pectobacterium species in potato seed tuber samples from northern Finland

2021 ◽  
Vol 30 (1) ◽  
Author(s):  
Yeshitila Degefu
Keyword(s):  
Seed Tuber ◽  
Single Species ◽  
Soft Rot ◽  
Potato Seed ◽  
Pcr Assay ◽  
Diagnostic Pcr ◽  
Pectobacterium Atrosepticum ◽  
Dickeya Solani ◽  
Different Strains ◽  
Potato Seed Tuber

Recent methodological developments have uncovered the etiological diversity of the potato blackleg and soft rot Pectobacteriaceae. At least five species in the genera Dickeya and Pectobacterium have been confirmed to cause blackleg on potatoes in Finland. The bacteria are seed borne and remain latent in the tuber until conditions favourable for growth, multiplication and infection prevail. Tubers could be infected by one or more of these species. This short communication is based on the results of molecular detection data collected for more than 14 years from potato seed lots produced in Finland. Diagnostic PCR assay specific to Dickeya solani, Pectobacterium atrosepticum, Pectobacterium carotovorum, P. brasiliense and P. parmentieri revealed that potatoes are infected by one or more of these species; it also revealed that single species infection is more common than multiple colonization. An event of simultaneous occurrences of different strains from the Pectobacterium species appears to be more frequent than that observed between Dickeya and Pectobacterium species. The absence of co-occurrence of Dickeya solani and Pectobacterium atrosepticum is intriguing.

scholarly journals Autographivirinae Bacteriophage Arno 160 Infects Pectobacterium carotovorum via Depolymerization of the Bacterial O-Polysaccharide

2020 ◽  
Vol 21 (9) ◽  
pp. 3170
Author(s):  
Mikhail M. Shneider ◽  
Anna A. Lukianova ◽  
Peter V. Evseev ◽  
Anna M. Shpirt ◽  
Marsel R. Kabilov ◽  
...  
Keyword(s):  
Type Strain ◽  
New Genus ◽  
Negative Impact ◽  
Soft Rot ◽  
Pectobacterium Carotovorum ◽  
Narrow Host Range ◽  
Isolation And Characterization ◽  
Control Application ◽  
Hydrolytic Mechanism

Phytopathogenic bacteria belonging to the Pectobacterium and Dickeya genera (soft-rot Pectobacteriaceae) are in the focus of agriculture-related microbiology because of their diversity, their substantial negative impact on the production of potatoes and vegetables, and the prospects of bacteriophage applications for disease control. Because of numerous amendments in the taxonomy of P. carotovorum, there are still a few studied sequenced strains among this species. The present work reports on the isolation and characterization of the phage infectious to the type strain of P. carotovorum. The phage Arno 160 is a lytic Podovirus representing a potential new genus of the subfamily Autographivirinae. It recognizes O-polysaccahride of the host strain and depolymerizes it in the process of infection using a rhamnosidase hydrolytic mechanism. Despite the narrow host range of this phage, it is suitable for phage control application.

scholarly journals Isolation and identification of a novel human parechovirus

2004 ◽  
Vol 85 (2) ◽  
pp. 391-398 ◽  
Author(s):  
Miyabi Ito ◽  
Teruo Yamashita ◽  
Hideaki Tsuzuki ◽  
Naokazu Takeda ◽  
Kenji Sakae
Keyword(s):  
Vero Cells ◽  
Amino Acid Sequences ◽  
Human Enterovirus ◽  
Nucleotide Identity ◽  
Aichi Virus ◽  
Human Parechovirus ◽  
Isolation And Identification ◽  
Respiratory Illnesses ◽  
C Terminus ◽  
Arginine Glycine Aspartic Acid

A cytopathic agent (A308/99) was isolated using Vero cells from a stool specimen of a 1-year-old patient with transient paralysis. The agent was approximately 28 nm in diameter with a distinct ultrastructure resembling the virus particle of an enterovirus. It could not be neutralized by antisera against human picornaviruses such as human enterovirus, Aichi virus or human parechovirus. The virion contained three capsid proteins with molecular masses of 38, 30·3 and 30 kDa. Determination of the complete nucleotide sequence of A308/99 revealed that the nucleotide and deduced amino acid sequences were closely related to those of human parechoviruses. When 11 regions encoding the structural and non-structural proteins were compared, A308/99 had between 75 and 97 % and 73 and 97 % nucleotide identity with human parechovirus type 1 (HPeV-1) and type 2 (HPeV-2), respectively. The most distinctive divergence was seen in VP1, which had 74·5 % and 73·1 % nucleotide identity with HPeV-1 and HPeV-2, respectively. Viruses related to A308/99 were also isolated from three patients with gastroenteritis, exanthema or respiratory illnesses. A308/99 and these other three isolates had no arginine–glycine–aspartic acid (RGD) motif, which is located near the C terminus of VP1 in HPeV-1 and HPeV-2. A seroepidemiological study revealed that the prevalence of A308/99 antibodies was low (15 %) among infants but became higher with age, reaching more than 80 % by 30 years of age. These observations indicate that A308/99 is genetically close to, but serologically and genetically distinct from, HPeV-1 and HPeV-2 and accordingly can be classified as third serotype of human parechovirus.

scholarly journals Pectobacterium atrosepticum Biosensor for Monitoring Blackleg and Soft Rot Disease of Potato

Biosensors ◽  
2020 ◽  
Vol 10 (6) ◽  
pp. 64 ◽  
Author(s):  
Mahdis Hashemi Tameh ◽  
Elisabetta Primiceri ◽  
Maria Serena Chiriacò ◽  
Palmiro Poltronieri ◽  
Masoud Bahar ◽  
...  
Keyword(s):  
Electrochemical Impedance ◽  
Low Cost ◽  
Soft Rot ◽  
Ease Of Use ◽  
Economic Losses ◽  
Enzyme Linked Immunosorbent Assay ◽  
Lab On Chip ◽  
Pectobacterium Atrosepticum ◽  
Soft Rot Disease ◽  
Rot Disease

Pectobacterium atrosepticum (Pba) is a quarantine and threatening phytopathogen known as the causal agent of blackleg and soft rot disease of potatoes in many areas. Its early detection is then important to have healthy potato tubers and reduce economic losses. Today, conventional methods such as enzyme-linked immunosorbent-assay (ELISA) and polymerase chain reaction (PCR) are typically used for Pba detection, but they are expensive and time-consuming. Here we report on the optimization of an alternative approach based on an electrochemical impedance immunosensor combining a microfluidic module and a microelectrodes array, and having advantages in terms of low cost, ease of use and portability. For validation and for assessing its performance, the lab-on-chip platform has been compared with two standard methods (ELISA and PCR).

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