scholarly journals Mutation signatures inform the natural host of SARS-CoV-2

2021 ◽  
Author(s):  
Xionglei He
Keyword(s):  
Evolutionary History ◽  
Host Factors ◽  
Mutation Spectrum ◽  
Wild Animals ◽  
Host Environment ◽  
Viral Genomes ◽  
Viral Mutation ◽  
History Of ◽  
Horseshoe Bats ◽  
Genomic Similarity

The before-outbreak evolutionary history of SARS-CoV-2 is enigmatic because it shares only ~96% genomic similarity with RaTG13, the closest relative so far found in wild animals (horseshoe bats). Since mutations on single-stranded viral RNA are heavily shaped by host factors, the viral mutation signatures can in turn inform the host. By comparing publically available viral genomes we here inferred the mutations SARS-CoV-2 accumulated before the outbreak and after the split from RaTG13. We found the mutation spectrum of SARS-CoV-2, which measures the relative rates of 12 mutation types, is 99.9% identical to that of RaTG13. It is also similar to that of two other bat coronaviruses but distinct from that evolved in non-bat hosts. The viral mutation spectrum informed the activities of a variety of mutation-associated host factors, which were found almost identical between SARS-CoV-2 and RaTG13, a pattern difficult to create in laboratory. All the findings are robust after replacing RaTG13 with RshSTT182, another coronavirus found in horseshoe bats with ~93% similarity to SARS-CoV-2. Our analyses suggest SARS-CoV-2 shared almost the same host environment with RaTG13 and RshSTT182 before the outbreak.

scholarly journals SARS-Like Coronaviruses in Horseshoe Bats (Rhinolophus spp.) in Russia, 2020

Viruses ◽  
2022 ◽  
Vol 14 (1) ◽  
pp. 113
Author(s):  
Sergey Alkhovsky ◽  
Sergey Lenshin ◽  
Alexey Romashin ◽  
Tatyana Vishnevskaya ◽  
Oleg Vyshemirsky ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Evolutionary History ◽  
Structural Proteins ◽  
Rt Pcr ◽  
Phylogenetic Lineage ◽  
History Of ◽  
Horseshoe Bats ◽  
Regions Of Russia ◽  
Nonstructural Genes

We found and genetically described two novel SARS-like coronaviruses in feces and oral swabs of the greater (R. ferrumequinum) and the lesser (R. hipposideros) horseshoe bats in southern regions of Russia. The viruses, named Khosta-1 and Khosta-2, together with related viruses from Bulgaria and Kenya, form a separate phylogenetic lineage. We found evidence of recombination events in the evolutionary history of Khosta-1, which involved the acquisition of the structural proteins S, E, and M, as well as the nonstructural genes ORF3, ORF6, ORF7a, and ORF7b, from a virus that is related to the Kenyan isolate BtKY72. The examination of bats by RT-PCR revealed that 62.5% of the greater horseshoe bats in one of the caves were positive for Khosta-1 virus, while its overall prevalence was 14%. The prevalence of Khosta-2 was 1.75%. Our results show that SARS-like coronaviruses circulate in horseshoe bats in the region, and we provide new data on their genetic diversity.

scholarly journals Bat-borne polyomaviruses in Europe reveal an evolutionary history of intrahost divergence with horseshoe bats distributed across the African and Eurasian continents

2020 ◽  
Vol 101 (10) ◽  
pp. 1119-1130
Author(s):  
Márton Z. Vidovszky ◽  
Zhizhou Tan ◽  
Michael J. Carr ◽  
Sándor Boldogh ◽  
Balázs Harrach ◽  
...  
Keyword(s):  
Evolutionary History ◽  
Genetic Relatedness ◽  
Relationship Analysis ◽  
Geographical Distances ◽  
Pathogenic Viruses ◽  
History Of ◽  
Capsid Protein Vp1 ◽  
Horseshoe Bat ◽  
Dsdna Viruses ◽  
Horseshoe Bats

Polyomaviruses (PyVs) are small, circular dsDNA viruses carried by diverse vertebrates, including bats. Although previous studies have reported several horseshoe bat PyVs collected in Zambia and China, it is still unclear how PyVs evolved in this group of widely dispersed mammals. Horseshoe bats (genus Rhinolophus) are distributed across the Old World and are natural reservoirs of numerous pathogenic viruses. Herein, non-invasive bat samples from European horseshoe bat species were collected in Hungary for PyV identification and novel PyVs with complete genomes were successfully recovered from two different European horseshoe bat species. Genomic and phylogenetic analysis of the Hungarian horseshoe bat PyVs supported their classification into the genera Alphapolyomavirus and Betapolyomavirus. Notably, despite the significant geographical distances between the corresponding sampling locations, Hungarian PyVs exhibited high genetic relatedness with previously described Zambian and Chinese horseshoe bat PyVs, and phylogenetically clustered with these viruses in each PyV genus. Correlation and virus–host relationship analysis suggested that these PyVs co-diverged with their European, African and Asian horseshoe bat hosts distributed on different continents during their evolutionary history. Additionally, assessment of selective pressures over the major capsid protein (VP1) of horseshoe bat PyVs showed sites under positive selection located in motifs exposed to the exterior of the capsid. In summary, our findings revealed a pattern of stable intrahost divergence of horseshoe bat PyVs with their mammalian hosts on the African and Eurasian continents over evolutionary time.

scholarly journals SARS-like coronaviruses in horseshoe bats (Rhinolophus spp.) in Russia, 2020.

2021 ◽  
Author(s):  
Sergey V Alkhovsky ◽  
Sergey V Lenshin ◽  
Alexey V Romashin ◽  
Tatyana V Vishnevskaya ◽  
Oleg I Vyshemirsky ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Evolutionary History ◽  
Southern Region ◽  
Structural Proteins ◽  
Rt Pcr ◽  
Phylogenetic Lineage ◽  
History Of ◽  
Horseshoe Bats ◽  
Nonstructural Genes

We found and genetically described two novel SARS-like coronaviruses in feces and oral swabs of the great (R. ferrumequinum) and the lesser (R. hipposideros) horseshoe bats in southern region of Russia. The viruses, named Khosta-1 and Khosta-2, together with related viruses from Bulgaria and Kenya, form a separate phylogenetic lineage. We found an evidence of recombination events in evolutionary history of Khosta-1, which involved the acquisition of structural proteins S, E, and M as well as nonstructural genes ORF3, ORF6, ORF7a, and ORF7b from a virus that is closely related to Kenyan isolate BtKY72. Examination of bats by RT-PCR revealed that 62,5% of great horseshoe bats in one of the caves were positive for Khosta-1 virus while its overall prevalence was 14%. The prevalence of Khosta-2 was 1,75%. Our results show that SARS-like coronaviruses circulate in horseshoe bats in the region and provide a new data on their genetic diversity.

scholarly journals Populations of X-ray Binaries and the Dynamical History of their Host Galaxies

2001 ◽  
Vol 18 (4) ◽  
pp. 443-450 ◽  
Author(s):  
Kinwah Wu
Keyword(s):  
Evolutionary History ◽  
Host Galaxies ◽  
Host Environment ◽  
X Ray ◽  
Different Types ◽  
History Of ◽  
Nearby Galaxies ◽  
X Ray Binaries ◽  
Birth Death

AbstractThe observed luminosity distributions of X-ray sources indicate the presence of several populations of X-ray binaries in the nearby galaxies. Each population has its formation and evolutionary history, depending on the host environment. The features seen in the log N(>S)–log S curves for different types of galaxies and for different galactic components can be reproduced by a birth–death model, in which the lifespans of the binaries are inversely proportional to their X-ray brightness. Conversely, the dynamical history of a galaxy can be inferred from the luminosity distributions of its X-ray binary populations.

Elaborating the role of reflection and individual differences in the study of folk-economic beliefs

2018 ◽  
Vol 41 ◽  
Author(s):  
Kevin Arceneaux
Keyword(s):  
Decision Making ◽  
Individual Differences ◽  
Cognitive Processes ◽  
Evolutionary History ◽  
Behavioral Responses ◽  
History Of ◽  
Economic Beliefs

AbstractIntuitions guide decision-making, and looking to the evolutionary history of humans illuminates why some behavioral responses are more intuitive than others. Yet a place remains for cognitive processes to second-guess intuitive responses – that is, to be reflective – and individual differences abound in automatic, intuitive processing as well.

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