scholarly journals SARS-CoV2 Envelope Protein: Non-Synonymous Mutations and Its Consequences

2020 ◽  
Author(s):  
Sk Sarif Hassan ◽  
Pabitra Pal Choudhury ◽  
Bidyut Roy
Keyword(s):  
Envelope Protein ◽  
Complete Genome ◽  
Transmembrane Domain ◽  
Host Protein ◽  
Genome Sequences ◽  
Synonymous Mutations ◽  
C Terminus ◽  
The World

In the NCBI database, as on June 6, 2020, total number of available complete genome sequences of SARS-CoV2 across the world is 3617. The envelope protein of SARS-CoV2 possesses several non-synonymous mutations over the transmembrane domain and (C)-terminus in 0.414\% of these 3617 genomes. The C-terminus motif DLLV has been changed to DFLV and YLLV in the proteins QJR88103 (Australia: Victoria) and QKI36831 (China: Guangzhou) respectively, which might affect the binding of this motif with the host protein PALS1.

scholarly journals SARS-CoV2 envelope protein: non-synonymous mutations and its consequences

2020 ◽  
Author(s):  
Sk Sarif Hassan ◽  
Pabitra Pal Choudhury ◽  
Bidyut Roy
Keyword(s):  
Envelope Protein ◽  
Complete Genome ◽  
Transmembrane Domain ◽  
Host Protein ◽  
Genome Sequences ◽  
Synonymous Mutations ◽  
C Terminus ◽  
The World

In the NCBI database, as on June 6, 2020, total number of available complete genome sequences of SARS-CoV2 across the world is 3617. The envelope protein of SARS-CoV2 possesses several non-synonymous mutations over the transmembrane domain and (C)-terminus in 0.414\% of these 3617 genomes. The C-terminus motif DLLV has been changed to DFLV and YLLV in the proteins QJR88103 (Australia: Victoria) and QKI36831 (China: Guangzhou) respectively, which might affect the binding of this motif with the host protein PALS1.

scholarly journals Rare mutations in the accessory proteins ORF6, ORF7b and ORF10 of the SARS-CoV2 genomes

2020 ◽  
Author(s):  
Sk Sarif Hassan ◽  
Pabitra Pal Choudhury ◽  
Bidyut Roy
Keyword(s):  
Missense Mutation ◽  
Complete Genome ◽  
Accessory Proteins ◽  
Genome Sequences ◽  
Synonymous Mutations ◽  
Rare Mutations ◽  
The World

In the NCBI database, as on May 29, 2020, total number of available complete genome sequences of SARS- CoV2 across the world is 3080. Every accessory proteins viz. ORF6, ORF7b and ORF10 possess a single missense mutation in less than of 1.5\% of the 3080 genomes. Different non-synonymous mutations may affect the functions of the accessory proteins.

scholarly journals Nearly Complete Genome Sequences of Two Bluetongue Viruses Isolated during the 2020 Outbreak in the Grand Duchy of Luxembourg

2021 ◽  
Vol 10 (14) ◽  
Author(s):  
Frank Vandenbussche ◽  
Manon Bourg ◽  
Elisabeth Mathijs ◽  
David J. Lefebvre ◽  
Ilse De Leeuw ◽  
...  
Keyword(s):  
Complete Genome ◽  
Bluetongue Virus ◽  
Animal Health ◽  
Genome Sequences ◽  
Virus Serotype ◽  
The World ◽  
World Organisation ◽  
Grand Duchy

ABSTRACT Bluetongue is one of the major diseases of ruminants listed by the World Organisation for Animal Health. Bluetongue virus serotype 8 (BTV-8) has been considered enzootic in France since 2018. Here, we report the nearly complete genome sequences of two BTV-8 isolates from the 2020 outbreak in the Grand Duchy of Luxembourg.

scholarly journals Complete Genome Sequences of Five Salmonella enterica Phages, NBSal001, NBSal002, NBSal003, NBSal004, and NBSal005

2020 ◽  
Vol 9 (22) ◽  
Author(s):  
Carlos D. Llanos ◽  
Jaime Ortega ◽  
Jorge A. Bardales
Keyword(s):  
Foodborne Pathogens ◽  
Salmonella Enterica ◽  
Complete Genome ◽  
Negative Bacterium ◽  
Genome Sequences ◽  
Promising Alternative ◽  
Gram Negative ◽  
Content Type ◽  
The World ◽  
Genomic Characterization

ABSTRACT Salmonella enterica is a Gram-negative bacterium, recognized as one of the most important foodborne pathogens in the world. Bacteriophages represent a promising alternative to the biocontrol of Salmonella. Here, we report the isolation of five Salmonella bacteriophages, the sequencing of their full genomes, and initial genomic characterization.

scholarly journals Complete Genome Sequences of 28 Lactococcal Bacteriophages Isolated from Failed Dairy Fermentation Processes

2020 ◽  
Vol 9 (12) ◽  
Author(s):  
Barbara Marcelli ◽  
Anne de Jong ◽  
Thomas Janzen ◽  
Mariela Serrano ◽  
Jan Kok ◽  
...  
Keyword(s):  
Lactic Acid ◽  
Lactic Acid Bacterium ◽  
Lactococcus Lactis ◽  
Complete Genome ◽  
Fermented Foods ◽  
Genome Sequences ◽  
Content Type ◽  
Fermentation Processes ◽  
The World ◽  
Dairy Fermentation

Lactococcus lactis is a Gram-positive lactic acid bacterium commonly used in the dairy industry for the production of fermented foods such as buttermilk and a wide variety of cheeses. Here, we report the complete genome sequences of 28 bacteriophages infecting different L. lactis industrial starter strains isolated from dairy plants throughout the world.

scholarly journals Near-Complete Genome Sequences of 12 Peruvian Strains of Infectious Hypodermal and Hematopoietic Necrosis Virus Infecting the Shrimp Penaeus vannamei

2021 ◽  
Vol 10 (20) ◽  
Author(s):  
Luis A. Salcedo-Mejía ◽  
Yerson Durán-Ramirez ◽  
Rodolfo Z. Velazco-Peña ◽  
Joseph A. Pinto ◽  
Alfredo Rebaza-Caballero
Keyword(s):  
Complete Genome ◽  
Animal Health ◽  
Genomic Sequences ◽  
Penaeus Vannamei ◽  
Genome Sequences ◽  
Necrosis Virus ◽  
The World ◽  
Shrimp Virus ◽  
World Organisation

ABSTRACT Infectious hypodermal and hematopoietic necrosis virus (IHHNV) is a shrimp virus listed by the World Organisation for Animal Health (OIE). In this study, we report the genomic sequences of 12 IHHNV strains obtained from shrimp samples from aquaculture cultures from the Tumbes region of Peru.

scholarly journals Whole-Genome Sequences of Two Human Norovirus GII.4 Variants Isolated in the United States

2018 ◽  
Vol 7 (1) ◽  
Author(s):  
Yuan Hu ◽  
Haifeng Chen
Keyword(s):  
United States ◽  
Complete Genome ◽  
The United States ◽  
Whole Genome ◽  
Genome Sequences ◽  
Human Norovirus ◽  
Genotype 4 ◽  
The World ◽  
Stool Specimens ◽  
Norovirus Gii

Variants of human noroviruses belonging to the genogroup II genotype 4 (GII.4) lineage have accounted for most norovirus outbreaks in the world since the mid-1990s. We report here the complete genome sequences of two historical human norovirus GII.4 variants isolated from norovirus-positive patient stool specimens in the United States.

scholarly journals Complete genome analysis of African swine fever virus responsible for outbreaks in domestic pigs in 2018 in Burundi and 2019 in Malawi

2021 ◽  
Vol 53 (4) ◽  
Author(s):  
Jean N. Hakizimana ◽  
Jean B. Ntirandekura ◽  
Clara Yona ◽  
Lionel Nyabongo ◽  
Gladson Kamwendo ◽  
...  
Keyword(s):  
Complete Genome ◽  
African Swine Fever Virus ◽  
Gc Content ◽  
Genomic Analysis ◽  
African Swine Fever ◽  
Eastern Africa ◽  
Nucleotide Identity ◽  
Comparative Genomic ◽  
Genome Sequences ◽  
Domestic Pigs

AbstractSeveral African swine fever (ASF) outbreaks in domestic pigs have been reported in Burundi and Malawi and whole-genome sequences of circulating outbreak viruses in these countries are limited. In the present study, complete genome sequences of ASF viruses (ASFV) that caused the 2018 outbreak in Burundi (BUR/18/Rutana) and the 2019 outbreak in Malawi (MAL/19/Karonga) were produced using Illumina next-generation sequencing (NGS) platform and compared with other previously described ASFV complete genomes. The complete nucleotide sequences of BUR/18/Rutana and MAL/19/Karonga were 176,564 and 183,325 base pairs long with GC content of 38.62 and 38.48%, respectively. The MAL/19/Karonga virus had a total of 186 open reading frames (ORFs) while the BUR/18/Rutana strain had 151 ORFs. After comparative genomic analysis, the MAL/19/Karonga virus showed greater than 99% nucleotide identity with other complete nucleotides sequences of p72 genotype II viruses previously described in Tanzania, Europe and Asia including the Georgia 2007/1 isolate. The Burundian ASFV BUR/18/Rutana exhibited 98.95 to 99.34% nucleotide identity with genotype X ASFV previously described in Kenya and in Democratic Republic of the Congo (DRC). The serotyping results classified the BUR/18/Rutana and MAL/19/Karonga ASFV strains in serogroups 7 and 8, respectively. The results of this study provide insight into the genetic structure and antigenic diversity of ASFV strains circulating in Burundi and Malawi. This is important in order to understand the transmission dynamics and genetic evolution of ASFV in eastern Africa, with an ultimate goal of designing an efficient risk management strategy against ASF transboundary spread.

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