Results 51 to 60 of about 516 (109)

Additional file 1: Figure S1. of Comparative paleovirological analysis of crustaceans identifies multiple widespread viral groups

, 2015
Phylogenetic relationships of the species studied in this project. The species targeted are in red. Divergence times are from www.timetree.org , except for Daphnia [70]. (PDF 122 kb)
Metegnier, Gabriel, Becking, Thomas, Chebbi, Mohamed, Giraud, Isabelle, Bouziane Moumen, Schaack, Sarah, Cordaux, Richard, ClĂŠment Gilbert   +7 more
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Additional file 7: Figure S4. of Comparative paleovirological analysis of crustaceans identifies multiple widespread viral groups

, 2015
Phylogeny of the Totiviridae family, based on a multiple amino acid alignment and ML analysis of the nucleocapsid protein. In addition to the EVEs discovered in this study, we added sequences of exogenous viruses from the Totiviridae family. ML nonparametric bootstrap values (100 replicates) are indicated when > 70. (PDF 74 kb)
Metegnier, Gabriel, Becking, Thomas, Chebbi, Mohamed, Giraud, Isabelle, Bouziane Moumen, Schaack, Sarah, Cordaux, Richard, ClĂŠment Gilbert   +7 more
openaire   +1 more source

Additional file 6: Figure S3. of Comparative paleovirological analysis of crustaceans identifies multiple widespread viral groups

, 2015
Phylogeny of the Mononegavirales group, based on a multiple amino acid alignment and ML analysis of the Mononegavirales-like nucleocapsid protein. In addition to the EVEs discovered in this study, we added sequences of exogenous viruses from the Mononegavirales group. ML nonparametric bootstrap values (100 replicates) are indicated when > 70.
Metegnier, Gabriel, Becking, Thomas, Chebbi, Mohamed, Giraud, Isabelle, Bouziane Moumen, Schaack, Sarah, Cordaux, Richard, ClĂŠment Gilbert   +7 more
openaire   +1 more source

Additional file 4: Table S1. of Comparative paleovirological analysis of crustaceans identifies multiple widespread viral groups

, 2015
Quality assessments of the 6 crustacean genomes used in this study. (DOCX 17 kb)
Metegnier, Gabriel, Becking, Thomas, Chebbi, Mohamed, Giraud, Isabelle, Bouziane Moumen, Schaack, Sarah, Cordaux, Richard, ClĂŠment Gilbert   +7 more
openaire   +1 more source

Additional file 5: Figure S2. of Comparative paleovirological analysis of crustaceans identifies multiple widespread viral groups

, 2015
Phylogeny of the Bunyaviridae family, based on a multiple amino acid alignment and ML analysis of the nucleocapsid protein. In addition to the EVEs discovered in this study, we added sequences of exogenous viruses from the Bunyaviridae family. ML nonparametric bootstrap values (100 replicates) are indicated when > 70. (PDF 89 kb)
Metegnier, Gabriel, Becking, Thomas, Chebbi, Mohamed, Giraud, Isabelle, Bouziane Moumen, Schaack, Sarah, Cordaux, Richard, ClĂŠment Gilbert   +7 more
openaire   +1 more source

Additional file 8: Figure S5. of Comparative paleovirological analysis of crustaceans identifies multiple widespread viral groups

, 2015
Schematic representation of the three EVE loci that are orthologous between the various Armadillidium species. The plain green portion of the loci are similar to a virus. a) A. nasatum Bunyavirus-like EVE 12 is most similar to the Wuhan insect virus 1 RdRp (AJG39261).
Metegnier, Gabriel, Becking, Thomas, Chebbi, Mohamed, Giraud, Isabelle, Bouziane Moumen, Schaack, Sarah, Cordaux, Richard, Gilbert, Clément   +7 more
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Powerful sequence similarity search methods and in-depth manual analyses can identify remote homologs in many apparently "orphan" viral proteins [PDF]

, 2014
The genome sequences of new viruses often contain many "orphan" or "taxon-specific" proteins apparently lacking homologs. However, because viral proteins evolve very fast, commonly used sequence similarity detection methods such as ...
Chung, Betty, Cook, Shelley, Eisenhaber, Birgit, Karlin, David, Kuchibhatla, Durga, Schneider, Georg, Sherman, Westley   +6 more
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Additional file 9: Table S3. of Comparative paleovirological analysis of crustaceans identifies multiple widespread viral groups

, 2015
PCR primers used to confirm the presence of EVEs uncovered by the bio-informatic analysis and to screen for orthologous insertions in 3 Armadillidae species : Armadillidium vulgare, A. tunisiense and A. depressum. (DOCX 17 kb)
Metegnier, Gabriel, Becking, Thomas, Chebbi, Mohamed, Giraud, Isabelle, Bouziane Moumen, Schaack, Sarah, Cordaux, Richard, ClĂŠment Gilbert   +7 more
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Activation of the innate immune response by endogenous retroviruses. [PDF]

, 2015
The human genome comprises 8 % endogenous retroviruses (ERVs), the majority of which are defective due to deleterious mutations. Nonetheless, transcripts of ERVs are found in most tissues, and these transcripts could either be reverse transcribed to ...
Hurst, Tara, Magiorkinis, Gkikas
core   +2 more sources

Endogenous viral elements:Insights into data availability and accessibility [PDF]

Endogenous viral elements (EVEs) are remnants of viral genetic material endogenized into the host genome. They have, in the last decades, attracted attention for their role as potential contributors to pathogenesis, drivers of selective advantage for the
Brait, Nadja, Harvey, Erin, Lequime, Sebastian, Marz, Manja, Ritsch, Muriel   +4 more
core   +1 more source