scholarly journals Full genome characterization of Laem Singh virus (LSNV) in shrimp Penaeus monodon

2020 ◽  
Author(s):  
Suparat Taengchaiyaphum ◽  
Jiraporn Srisala ◽  
Piyachat Sanguanrut ◽  
Chalermporn Ongvarrasopone ◽  
Timothy W. Flegel ◽  
...  
Keyword(s):  
Penaeus Monodon ◽  
Plant Viruses ◽  
Virus Species ◽  
Full Genome ◽  
Cloning And Sequencing ◽  
Genome Characterization ◽  
Sequence Identity ◽  
The Family ◽  
Shrimp Virus

ABSTRACTLaem Singh virus (LSNV) was discovered in 2006 and proposed as a necessary but insufficient cause of retarded growth in the giant tiger shrimp Penaeus monodon. Its closest relatives were plant viruses including an unassigned Sobemovirus and viruses in the family Luteoviridae. During succeeding years, attempts to obtain the full LSNV genome sequence by genome walking failed. However, recent publication of the full sequence of Wenzhou shrimp virus 9 (WZSV 9) at GenBank revealed that LSNV sequences in our database shared 99% sequence identity with it. Thus, we hypothesized that LSNV and WZSV 9 were different isolates of the same virus species. Here we confirm that hypothesis by cloning and sequencing of the full genome of LSNV from P. monodon and by showing that it consists of two fragments each with 99% identity to the matching fragments of WZSV.

scholarly journals Full genome characterization of Laem Singh virus (LSNV) in shrimp Penaeus monodon

Aquaculture ◽  
2021 ◽  
pp. 736533
Author(s):  
Suparat Taengchaiyaphum ◽  
Jiraporn Srisala ◽  
Piyachat Sanguanrut ◽  
Chalermporn Ongvarrasopone ◽  
Timothy W. Flegel ◽  
...  
Keyword(s):  
Penaeus Monodon ◽  
Full Genome ◽  
Genome Characterization

scholarly journals First Whole-Genome Characterization of Avian Nephritis Virus 2 of Broiler Chicken from Pará, Brazil

2018 ◽  
Vol 6 (25) ◽  
Author(s):  
Ceyla Maria Oeiras Castro ◽  
Elaine Hellen Nunes Chagas ◽  
Delana Andreza Melo Bezerra ◽  
Sandro Patroca da Silva ◽  
Ana Cecília Ribeiro Cruz ◽  
...  
Keyword(s):  
Broiler Chickens ◽  
Broiler Chicken ◽  
Whole Genome ◽  
Full Genome ◽  
Genome Sequences ◽  
Content Type ◽  
Genome Characterization ◽  
Avian Nephritis Virus ◽  
The Family

ABSTRACT Our results show the first full-genome characterization of avian nephritis virus 2 recovered from stools of broiler chickens at a commercial farm located in Benevides, Pará, Brazil. Nucleotide analyses of whole-genome sequences showed the isolate to be a strain of Avastrovirus 2 in the family Astroviridae.

Full genome characterization of human Rotavirus A strains isolated in Cameroon, 2010–2011: Diverse combinations of the G and P genes and lack of reassortment of the backbone genes

2014 ◽  
Vol 28 ◽  
pp. 537-560 ◽  
Author(s):  
Valentine Ngum Ndze ◽  
Mathew Dioh Esona ◽  
Eric Akum Achidi ◽  
Kamga Hortense Gonsu ◽  
Renáta Dóró ◽  
...  
Keyword(s):  
Full Genome ◽  
Genome Characterization ◽  
Rotavirus A ◽  
Human Rotavirus

scholarly journals Characterization of a new picornavirus isolated from the freshwater fish Lepomis macrochirus

2014 ◽  
Vol 95 (3) ◽  
pp. 601-613 ◽  
Author(s):  
Marisa Barbknecht ◽  
Sol Sepsenwol ◽  
Eric Leis ◽  
Maren Tuttle-Lau ◽  
Mark Gaikowski ◽  
...  
Keyword(s):  
Freshwater Fish ◽  
New Genus ◽  
Lepomis Macrochirus ◽  
Leader Peptide ◽  
Fish Kill ◽  
Sequence Identity ◽  
Phylogenetic Cluster ◽  
The Family ◽  
Sport Fish

The freshwater fish Lepomis macrochirus (bluegill) is common to North American waters, and important both ecologically and as a sport fish. In 2001 an unknown virus was isolated from bluegills following a bluegill fish kill. This virus was identified as a picornavirus [termed bluegill picornavirus (BGPV)] and a diagnostic reverse transcriptase PCR was developed. A survey of bluegills in Wisconsin waters showed the presence of BGPV in 5 of 17 waters sampled, suggesting the virus is widespread in bluegill populations. Experimental infections of bluegills confirmed that BGPV can cause morbidity and mortality in bluegills. Molecular characterization of BGPV revealed several distinct genome characteristics, the most unusual of which is the presence of a short poly(C) tract in the 3′ UTR. Additionally, the genome encodes a polyprotein lacking a leader peptide and a VP0 maturation cleavage site, and is predicted to encode two distinct 2A proteins. Sequence comparison showed that the virus is most closely related to a phylogenetic cluster of picornaviruses that includes the genera Aquamavirus, Avihepatovirus and Parechovirus. However, it is distinct enough, for example sharing only about 38 % sequence identity to the parechoviruses in the 3D region, that it may represent a new genus in the family Picornaviridae.

scholarly journals IND-6, a Highly Divergent IND-Type Metallo-β-Lactamase from Chryseobacterium indologenes Strain 597 Isolated in Burkina Faso

2009 ◽  
Vol 53 (10) ◽  
pp. 4320-4326 ◽  
Author(s):  
Boukaré Zeba ◽  
Filomena De Luca ◽  
Alain Dubus ◽  
Michael Delmarcelle ◽  
Jacques Simporé ◽  
...  
Keyword(s):  
Burkina Faso ◽  
Posttranslational Modification ◽  
Human Pathogens ◽  
Turnover Rates ◽  
Chryseobacterium Indologenes ◽  
Sequence Identity ◽  
New Variant ◽  
The Family ◽  
Identification And Characterization

ABSTRACT The genus Chryseobacterium and other genera belonging to the family Flavobacteriaceae include organisms that can behave as human pathogens and are known to cause different kinds of infections. Several species of Flavobacteriaceae, including Chryseobacterium indologenes, are naturally resistant to β-lactam antibiotics (including carbapenems), due to the production of a resident metallo-β-lactamase. Although C. indologenes presently constitutes a limited clinical threat, the incidence of infections caused by this organism is increasing in some settings, where isolates that exhibit multidrug resistance phenotypes (including resistance to aminoglycosides and quinolones) have been detected. Here, we report the identification and characterization of a new IND-type variant from a C. indologenes isolate from Burkina Faso that is resistant to β-lactams and aminoglycosides. The levels of sequence identity of the new variant to other IND-type metallo-β-lactamases range between 72 and 90% (for IND-4 and IND-5, respectively). The purified enzyme exhibited N-terminal heterogeneity and a posttranslational modification consisting of the presence of a pyroglutamate residue at the N terminus. IND-6 shows a broad substrate profile, with overall higher turnover rates than IND-5 and higher activities than IND-2 and IND-5 against ceftazidime and cefepime.

scholarly journals Characterization of Ti Ringspot-Associated Virus, a Novel Emaravirus Associated with an Emerging Ringspot Disease of Cordyline fruticosa

Plant Disease ◽  
2019 ◽  
Vol 103 (9) ◽  
pp. 2345-2352 ◽  
Author(s):  
Alejandro Olmedo-Velarde ◽  
Adam C. Park ◽  
Jari Sugano ◽  
Janice Y. Uchida ◽  
Michael Kawate ◽  
...  
Keyword(s):  
High Throughput Sequencing ◽  
High Plains ◽  
Virus Species ◽  
Sequence Analyses ◽  
Sequence Identity ◽  
Reverse Transcription Pcr ◽  
Eriophyid Mites ◽  
Cordyline Fruticosa ◽  
Novel Virus

Ti ringspot is an emerging foliar disease of the ti plant (Cordyline fruticosa) in Hawaii that is quickly spreading throughout the islands. Symptoms include small chlorotic ringspots on leaves that often coalesce to form larger lesions. Although several virus species have been discovered in symptomatic plants, none have been associated with these symptoms. Here, we report and characterize a novel virus closely associated with ti ringspot symptoms in Hawaii. The presence of double membrane bodies approximately 85 nm in diameter in symptomatic cells and sequence analyses of five genomic RNA segments obtained by high-throughput sequencing indicate that this virus is most closely related to members of the plant virus genus Emaravirus. Phylogenetic and sequence homology analyses place this virus on a distinct clade within the Emaravirus genus along with High Plains wheat mosaic emaravirus, blue palo verde broom virus, and Raspberry leaf blotch emaravirus. Sequence identity values with taxonomically relevant proteins indicate that this represents a new virus species, which we are tentatively naming ti ringspot-associated virus (TiRSaV). TiRSaV-specific reverse transcription PCR assays detected the virus in several experimental herbaceous host species following mechanical inoculation. TiRSaV was also detected in eriophyid mites collected from symptomatic ti plants, which may represent a putative arthropod vector of the virus.

The first full genome characterization of an Iranian foot and mouth disease virus

2020 ◽  
Vol 279 ◽  
pp. 197888
Author(s):  
Hamideh Najafi ◽  
Mohammad Hossein FallahMehrabadi ◽  
Hossein Hosseini ◽  
Zahra Ziafati Kafi ◽  
Amir Modiri Hamdan ◽  
...  
Keyword(s):  
Disease Virus ◽  
Foot And Mouth Disease ◽  
Mouth Disease ◽  
Full Genome ◽  
Genome Characterization ◽  
Mouth Disease Virus ◽  
Foot And Mouth
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