2019
DOI: 10.1101/528174
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Abstract: 20Models of host-microbe dynamics typically assume a single-host population infected by a single 21 pathogen. In reality, many hosts form multi-species aggregations and may be infected with an 22 assemblage of pathogens. We used a meta-transcriptomic approach to characterize the viromes of 23 nine avian species in the Anseriformes (ducks) and Charadriiformes (shorebirds). This revealed the 24 presence of 27 viral species, of which 24 were novel, including double-stranded RNA viruses 25 (Picobirnaviridae and Re… Show more

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Cited by 11 publications
(11 citation statements)
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“…The phylogenetic analysis of the Peptidase C3 and RdRp region of the megriviruses showed that our duck megriviruses form a cluster/lineages related to other duck and geese megriviruses (Figure S14-S15 of the Supplementary material 2 ). The Pacific black duck megrivirus was closely related to MK204391.1 Pacific black duck megrivirus from Australia in the year 2012 37 with 99.2% similarity over 799 amino acids in RdRp region and with 98.7% similarity over 1,051 amino acids in capsid region. The Wood duck megriviruses were 96.8–99.5% similar to each other in the RdRp region than to other megriviruses from the NCBI dataset.…”
Section: Resultsmentioning
confidence: 91%
“…The phylogenetic analysis of the Peptidase C3 and RdRp region of the megriviruses showed that our duck megriviruses form a cluster/lineages related to other duck and geese megriviruses (Figure S14-S15 of the Supplementary material 2 ). The Pacific black duck megrivirus was closely related to MK204391.1 Pacific black duck megrivirus from Australia in the year 2012 37 with 99.2% similarity over 799 amino acids in RdRp region and with 98.7% similarity over 1,051 amino acids in capsid region. The Wood duck megriviruses were 96.8–99.5% similar to each other in the RdRp region than to other megriviruses from the NCBI dataset.…”
Section: Resultsmentioning
confidence: 91%
“… 2018 ), although full genome sequences have also been generated in metatranscriptomic studies (Wille et al . 2018 , 2019 , 2020 ; Fig. 1 ).…”
Section: Technical Limitations In the Detection And Characterization mentioning
confidence: 99%
“…The GCLPV2 IRES shares more extensive homology, including all of domain III, with IRESs from several avian picornaviruses, although the level of nucleotide identity (52%–59%) is lower. They include the unclassified Pink-eared duck picornavirus (GenBank: MK204421) [ 148 ] ( Figure 4 C) and Avocet picornavirus (GenBank: MH453807) [ 153 ], anativirus A (GenBank: NC_006553) [ 115 ] and the sapelovirus-like phacovirus (GenBank: KT880670) [ 154 ]. The leader protein encoded immediately downstream of the GCLPV2 IRES is shorter and/or lacks homology to equivalents in the other avian picornaviruses, whereas there is strong homology in the downstream capsid protein region.…”
Section: Novel Picornavirus Type IV Iress With a Conserved Sapelovmentioning
confidence: 99%
“… Structurally diverse type IV IRESs in novel picornavirus genomes. ( A ) Model of the Tropivirus A (Guangdong Chinese water skink picornavirus) IRES (GenBank: MG600091) [ 141 ], ( B ) Model of the Guanxi changeable lizard picornavirus 2 IRES (GenBank: MG600105) [ 141 ] and ( C ) Model of the Pink-eared duck picornavirus IRES (GenBank: MK204421) [ 148 ], derived as described for related IRESs [ 114 , 130 ]. Nucleotides are numbered at intervals, the initiation codon for the viral polyprotein is boxed, and domains and helices are labeled using the accepted nomenclature [ 114 ].…”
Section: Figurementioning
confidence: 99%