scholarly journals Genome organization and molecular characterization of the three Formica exsecta viruses—FeV1, FeV2 and FeV4

PeerJ ◽  
2019 ◽  
Vol 6 ◽  
pp. e6216 ◽  
Author(s):  
Kishor Dhaygude ◽  
Helena Johansson ◽  
Jonna Kulmuni ◽  
Liselotte Sundström
Keyword(s):  
Molecular Characterization ◽  
Genome Organization ◽  
Rna Virus ◽  
Open Reading Frames ◽  
Link Type ◽  
Infection Pathways ◽  
Comparative Genomics Analysis ◽  
First Time ◽  
Negative Sense

We present the genome organization and molecular characterization of the three Formica exsecta viruses, along with ORF predictions, and functional annotation of genes. The Formica exsecta virus-4 (FeV4; GenBank ID: MF287670) is a newly discovered negative-sense single-stranded RNA virus representing the first identified member of order Mononegavirales in ants, whereas the Formica exsecta virus-1 (FeV1; GenBank ID: KF500001), and the Formica exsecta virus-2 (FeV2; GenBank ID: KF500002) are positive single-stranded RNA viruses initially identified (but not characterized) in our earlier study. The new virus FeV4 was found by re-analyzing data from a study published earlier. The Formica exsecta virus-4 genome is 9,866 bp in size, with an overall G + C content of 44.92%, and containing five predicted open reading frames (ORFs). Our bioinformatics analysis indicates that gaps are absent and the ORFs are complete, which based on our comparative genomics analysis suggests that the genomes are complete. Following the characterization, we validate virus infection for FeV1, FeV2 and FeV4 for the first time in field-collected worker ants. Some colonies were infected by multiple viruses, and the viruses were observed to infect all castes, and multiple life stages of workers and queens. Finally, highly similar viruses were expressed in adult workers and queens of six other Formica species: F. fusca, F. pressilabris, F. pratensis, F. aquilonia, F. truncorum and F. cinerea. This research indicates that viruses can be shared between ant species, but further studies on viral transmission are needed to understand viral infection pathways.

scholarly journals Molecular Characterization of the Gene Encoding a New AmpC β-Lactamase in a Clinical Strain of Acinetobacter Genomic Species 3

2004 ◽  
Vol 48 (4) ◽  
pp. 1374-1378 ◽  
Author(s):  
Alejandro Beceiro ◽  
Lourdes Dominguez ◽  
Anna Ribera ◽  
Jordi Vila ◽  
Francisca Molina ◽  
...  
Keyword(s):  
Nucleotide Sequence ◽  
Molecular Characterization ◽  
Biochemical Properties ◽  
Clinical Strain ◽  
The Novel ◽  
Gene Encoding ◽  
Genomic Species ◽  
First Time

ABSTRACT A presumptive chromosomal cephalosporinase (pI, 9.0) from a clinical strain of Acinetobacter genomic species 3 (AG3) is reported. The nucleotide sequence of this β-lactamase shows for the first time the gene encoding an AmpC enzyme in AG3. In addition, the biochemical properties of the novel AG3 AmpC β-lactamase are reported

Molecular characterization of a novel mycovirus isolated from Rhizoctonia solani AG-1 IA 9-11

2021 ◽  
Author(s):  
Yang Sun ◽  
Yan qiong Li ◽  
Wen han Dong ◽  
Ai li Sun ◽  
Ning wei Chen ◽  
...  
Keyword(s):  
Rhizoctonia Solani ◽  
Rna Virus ◽  
Dsrna Virus ◽  
Open Reading Frames ◽  
The Family ◽  
Significant Amino Acid Sequence ◽  
Overlapping Open Reading Frames ◽  
Significant Amino Acid ◽  
Reading Frames

Abstract The complete genome of the dsRNA virus isolated from Rhizoctonia solani AG-1 IA 9–11 (designated as Rhizoctonia solani dsRNA virus 11, RsRV11 ) were determined. The RsRV11 genome was 9,555 bp in length, contained three conserved domains, SMC, PRK and RT-like super family, and encoded two non-overlapping open reading frames (ORFs). ORF1 potentially coded for a 204.12 kDa predicted protein, which shared low but significant amino acid sequence identities with the putative protein encoded by Rhizoctonia solani RNA virus HN008 (RsRV-HN008) ORF1. ORF2 potentially coded for a 132.41 kDa protein which contained the conserved motifs of the RNA-dependent RNA polymerase (RdRp). Phylogenetic analysis indicated that RsRV11 was clustered with RsRV-HN008 in a separate clade independent of other virus families. It implies that RsRV11, along with RsRV-HN008 possibly a new fungal virus taxa closed to the family Megabirnaviridae, and RsRV11 is a new member of mycoviruses.

scholarly journals Molecular characterization of an unusual new plant RNA virus reveals an evolutionary link between two different virus families

PLoS ONE ◽  
2018 ◽  
Vol 13 (10) ◽  
pp. e0206382 ◽  
Author(s):  
Sun-Jung Kwon ◽  
Gug-Seoun Choi ◽  
Boram Choi ◽  
Jang-Kyun Seo
Keyword(s):  
Molecular Characterization ◽  
Rna Virus

scholarly journals Molecular characterization of Prunus necrotic ringspot virus isolated from rose in Brazil

2015 ◽  
Vol 45 (12) ◽  
pp. 2197-2200 ◽  
Author(s):  
Thor Vinícius Martins Fajardo ◽  
Monique Bezerra Nascimento ◽  
Marcelo Eiras ◽  
Osmar Nickel ◽  
Gilvan Pio-Ribeiro
Keyword(s):  
Amino Acid ◽  
Molecular Characterization ◽  
Molecular Analysis ◽  
Nucleotide Sequences ◽  
Amino Acid Sequences ◽  
Causal Agent ◽  
Ringspot Virus ◽  
Prunus Necrotic Ringspot Virus ◽  
First Time

ABSTRACT: There is no molecular characterization of Brazilian isolates of Prunus necrotic ringspot virus (PNRSV), except for those infecting peach. In this research, the causal agent of rose mosaic was determined and the movement (MP) and coat (CP) protein genes of a PNRSV isolate from rose were molecularly characterized for the first time in Brazil. The nucleotide and deduced amino acid sequences of MP and CP complete genes were aligned and compared with other isolates. Molecular analysis of the MP and CP nucleotide sequences of a Brazilian PNRSV isolate from rose and others from this same host showed highest identities of 96.7% and 98.6%, respectively, and Rose-Br isolate was classified in PV32 group.

scholarly journals Molecular characterization of hookworm spp. isolated from food handlers, Khartoum, Sudan: A cross-sectional study

F1000Research ◽  
2018 ◽  
Vol 7 ◽  
pp. 662
Author(s):  
Tarig A. Gamar ◽  
Hassan H. Musa ◽  
Hisham N. Altayb ◽  
Mohamed H. Mohamed ◽  
Adam D. Abakar
Keyword(s):  
Public Health ◽  
Molecular Characterization ◽  
Molecular Probe ◽  
Hookworm Infection ◽  
Food Handlers ◽  
The Public ◽  
Necator Americanus ◽  
Link Type ◽  
Stool Samples

Background: Hookworms infect the intestines, cause an itchy rash, respiratory and gastrointestinal problems, and eventually iron deficiency (anaemia) due to the ongoing loss of blood. The objectives of this study were to assess the prevalence and molecular characterization of hookworms isolated from food handlers attending the Public Health Laboratories in Khartoum state, Sudan, for annual check-ups, and to assess the efficiency of PCR as molecular probe for hookworm infection. Methods: A total of 350 foods handlers’ participant's stool samples who were not suspected to be infected with hookworms were studied. Conventional methods were applied to make an early diagnosis. Stool samples were collected from public health laboratories (the public health lab in the Medical Commission) of Khartoum State; Omdurman locality, Khartoum North locality and Khartoum locality between October 2016 and April 2017. Specific identification was made by PCR on specimens identified as positive by Baermann’s technique, which were then sequence and genotyped Results: The prevalence of hookworms in the stool samples of food-handlers was 1.43%. One larval specimen recovered by Baermann’s technique was confirmed to be Necator americanus by PCR. PCR also confirmed that Necator americanus was the common species isolated from four further specimens. The results of DNA sequencing for Necator americanus were deposited in NCBI GenBank under the following accession numbers: sample 91, MH035824; sample 92, MH035825; sample 294, MH035826; and sample 319 MH035827. Conclusion: PCR was found to be effective for confirmation of the diagnosis of hookworm infection and can aid the clinician in initiating prompt and appropriate antiparasite therapy.

scholarly journals Molecular characterization of porcine epidemic diarrhoea virus (PEDV) in Poland reveals the presence of swine enteric coronavirus (SeCoV) sequence in S gene

PLoS ONE ◽  
2021 ◽  
Vol 16 (10) ◽  
pp. e0258318
Author(s):  
Marta Antas ◽  
Monika Olech ◽  
Anna Szczotka-Bochniarz
Keyword(s):  
Phylogenetic Analysis ◽  
Molecular Characterization ◽  
Rna Virus ◽  
Economic Losses ◽  
High Morbidity ◽  
Antigenic Analysis ◽  
S Gene ◽  
Porcine Epidemic Diarrhoea Virus ◽  
Diarrhoea Virus

Porcine epidemic diarrhoea (PED) is a highly contagious enteric viral disease of pigs with a high morbidity and mortality rate, which ultimately results in huge economic losses in the pig production sector. The etiological agent of this disease is the porcine epidemic diarrhoea virus (PEDV) which is an enveloped, positive single-stranded RNA virus. The aim of this study was to perform molecular characterization of PEDV to identify the strains circulating in Poland. In this study, 662 faecal samples from 2015 to 2021 were tested with reverse transcription quantitative real-time PCR (RT-qPCR) and the results showed that 3.8% of the tested samples revealed a positive result for PEDV. A phylogenetic analysis of the complete genome and complete S gene sequences showed that Polish PEDV strains belonged to the G1b (S-INDEL) subgroup and were closely related to the European PEDV strains isolated from 2014 to 2019. Furthermore, RDP4 analysis revealed that the Polish PEDV strains harboured a recombinant fragment of ~400 nt in the 5’ end of S gene with PEDV and swine enteric coronavirus (SeCoV) being the major and minor parents, respectively. Antigenic analysis showed that the aa sequences of neutralizing epitopes were conserved among the Polish PEDV strains. Only one strain, #0100/5P, had a unique substitution in the COE epitope. However, Polish PEDV strains showed several substitutions, especially in the COE antigen, as compared to the classical strain CV777. To the best of our knowledge, this is the first report concerning the molecular characterization of porcine epidemic diarrhoea virus strains, as well as the first phylogenetic analysis for PEDV in Poland.

scholarly journals A discovery 70 years in the making: characterization of the Rose rosette virus

2011 ◽  
Vol 92 (7) ◽  
pp. 1727-1732 ◽  
Author(s):  
Alma G. Laney ◽  
Karen E. Keller ◽  
Robert R. Martin ◽  
Ioannis E. Tzanetakis
Keyword(s):  
Rna Virus ◽  
Causal Agent ◽  
Low Diversity ◽  
The Usa ◽  
Rose Rosette ◽  
Diversity Studies ◽  
The Rose ◽  
Negative Sense ◽  
Eastern Half

Rose rosette was first described in the early 1940s and it has emerged as one of the most devastating diseases of roses. Although it has been 70 years since the disease description, the rosette agent is yet to be characterized. In this communication, we identify and characterize the putative causal agent of the disease, a negative-sense RNA virus and new member of the genus Emaravirus. The virus was detected in 84/84 rose rosette-affected plants collected from the eastern half of the USA, but not in any of 30 symptomless plants tested. The strong correlation between virus and disease is a good indication that the virus, provisionally named Rose rosette virus, is the causal agent of the disease. Diversity studies using two virus proteins, p3 and p4, demonstrated that the virus has low diversity between isolates as they share nucleotide identities ranging from 97 to 99%.

The Ornithodoros capensis group (Acari: Argasidae): a morphological diagnosis and molecular characterization of O. capensis sensu stricto from Queimada Grande Island, Brazil 

2017 ◽  
Vol 22 (1) ◽  
pp. 28 ◽  
Author(s):  
Sebastián Muñoz-Leal ◽  
Ricardo A. Dias ◽  
Carlos R. Abrahão ◽  
Marcelo B. Labruna
Keyword(s):  
Molecular Characterization ◽  
Related Species ◽  
Morphological Analysis ◽  
Bacterial Pathogens ◽  
Sensu Stricto ◽  
Closely Related Species ◽  
Paulo State ◽  
Morphological Diagnosis ◽  
First Time

Ornithodoros capensis sensu lato (s. l.) is a worldwide-distributed group of soft ticks that parasitize birds in insular and continental lands. It is currently composed of 11 morphologically closely related species. Several viral and bacterial pathogens, and particularly Coxiella-like endosymbiont organisms have been described coexisting with ticks of this group. Since it last report in 1983, the presence of O. capensis s. l. in Brazil has remained undocumented. By a morphological analysis of larvae and a molecular characterization of ticks and Coxiella genes we describe for the first time O. capensis sensu stricto in Brazil from specimens collected on Queimada Grande Island, in São Paulo state.

scholarly journals Molecular Characterization of a Begomovirus and Betasatellite Causing Yellow Vein Net Disease of Ageratum houstonianum

Plant Disease ◽  
2015 ◽  
Vol 99 (5) ◽  
pp. 627-631 ◽  
Author(s):  
Ashish Srivastava ◽  
Susheel Kumar ◽  
Shri Krishna Raj
Keyword(s):  
Sequence Analysis ◽  
Sequence Homology ◽  
Phylogenetic Relationships ◽  
Disease Incidence ◽  
Open Reading Frames ◽  
Yellow Vein ◽  
Full Length Genome ◽  
First Time ◽  
Leaf Curl

Ageratum houstonianum was introduced in India as an annual ornamental plant and is grown in beds for blue head flowers. Yellow vein net disease was observed on A. houstonianum plants with about 9.0% disease incidence during a survey in February 2012 at gardens of NBRI, Lucknow, India. Association of a begomovirus and betasatellite with the disease was characterized based on sequence analyses of their cloned full length genome isolated from diseased A. houstonianum. Sequence analysis of the begomovirus showed presence of the six open reading frames in its genome, similar to the arrangement of Old World begomoviruses. The begomoviral genome shared 95 to 97% sequence identities with various strains of Ageratum enation virus (AEV); however, it showed distinct phylogenetic relationships with them, and hence was identified as a variant of AEV based on more than 94% sequence homology, the criteria defined by ICTV. The sequence analysis of associated betasatellite revealed highest 93% sequence identity and close phylogenetic relationships with Ageratum leaf curl betasatellite (ALCB) molecules; therefore, it was identified as an isolate of ALCB (based on 93% sequence homology). Agroinfiltration of partial dimers of the AEV variant and ALCB induced similar systemic yellow vein net and leaf curl symptoms on A. houstonianum when infiltrated in combination, fulfilling Koch’s postulates. Characterization of AEV and ALCB causing yellow vein net disease of A. houstonianum is being reported for the first time.

scholarly journals Aleurocanthus spiniferus (Hemiptera: Aleyrodidae) in Some European Countries: Diffusion, Hosts, Molecular Characterization, and Natural Enemies

Insects ◽  
2020 ◽  
Vol 11 (1) ◽  
pp. 42 ◽  
Author(s):  
Francesco Nugnes ◽  
Stefania Laudonia ◽  
Giovanni Jesu ◽  
Maurice Gerardus Maria Jansen ◽  
Umberto Bernardo ◽  
...  
Keyword(s):  
Molecular Characterization ◽  
Natural Enemies ◽  
Host Plants ◽  
Biocontrol Agent ◽  
First Record ◽  
New Host ◽  
Ladybird Beetle ◽  
Albanian Population ◽  
First Time

After the first record in 2008 in Southeast Italy, the alien invasive and quarantine pest Aleurocanthus spiniferus (orange spiny whitefly—OSW) has gradually spread throughout Europe, infesting several new host plants in addition to the known hosts. Molecular characterization of some Italian populations and a newly found Albanian population highlighted two different haplotypes invading Europe, belonging to one of the haplogroups previously recorded in China. A predator was recorded for the first time in several fields in Italy in association with OSW and other whitefly species. It was successively identified through a morpho-molecular characterization as a Nearctic member of the tribe Serangiini, the ladybird beetle, Delphastus catalinae. This predator represents a promising biocontrol agent to manage A. spiniferus outbreaks in Italy and other invaded countries.

Sign in / Sign up

Export Citation Format

Share Document