Ecological dynamics of influenza A viruses: cross-species transmission and global migration

Ren, Hongguang; Yuan, Jing; Hu, Mingda; Zhou, Jing; Song, Ting; Huang, Zhisong; Li, Beiping; Li, Kaiwu; Zhou, Wei; Dai, Hongmei; Shi, Weifeng; Yue, Junjie; Liang, Long

doi:10.1038/srep36839

Cited by 30 publications

(22 citation statements)

References 41 publications

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“…The distribution of migratory birds, density of swine in some major migration flyways, transcontinental pig movement, and global live-swine trade (Nelson et al, 2015b; Ren et al, 2016) make these rare events in swine important to detect and investigate before the novel virus can be widely disseminated or contribute internal genes to endemic swine strains. Fortunately, in this case, the virus quickly disappeared from the source herd and no other detections were found in any other swine herds submitting samples to the ISU Veterinary Diagnostic Lab or in herds participating in the USDA IAV swine surveillance program.…”

Section: Discussionmentioning

confidence: 99%

Detection and characterization of an H4N6 avian-lineage influenza A virus in pigs in the Midwestern United States

et al. 2017

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H4Nx viruses were reported in swine in Canada and China, but had not been recognized in swine in the USA. In late 2015, an avian-origin H4N6 influenza A virus was isolated from pigs in the United States during a routine diagnostic investigation of clinical respiratory disease in the herd. Serological analysis from additional pigs at the farm and other pigs within the swine production system indicated that the virus did not efficiently transmit from pig to pig and the mode of transmission to swine could not be determined. The isolate was characterized at the molecular level and the pathogenesis and transmission was experimentally evaluated in pigs. Although the virus replicated in the lungs of pigs and caused mild pulmonary lesions, there was no evidence of replication in the upper respiratory tract or transmission to indirect contacts, supporting the findings on the farm.

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Section: Discussionmentioning

confidence: 99%

Detection and characterization of an H4N6 avian-lineage influenza A virus in pigs in the Midwestern United States

et al. 2017

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“…For example, in Australia, taxonomically related dabbling Grey Teals (Anas gracilis) and Pacific Black Ducks (Anas superciliosa) may share the environment with the distantly related filter feeding Pink-eared Duck (Malacorhynchus membranaceus). These multi-host flocks form multi-host maintenance communities [6], with consequences for virus ecology, transmission, and virulence [1,16,17].…”

Section: Introductionmentioning

confidence: 99%

Virome heterogeneity and connectivity in waterfowl and shorebird communities

et al. 2019

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Models of host-microbe dynamics typically assume a single-host population infected by a single pathogen. In reality, many hosts form multi-species aggregations and may be infected with an assemblage of pathogens. We used a meta-transcriptomic approach to characterize the viromes of nine avian species in the Anseriformes (ducks) and Charadriiformes (shorebirds). This revealed the presence of 27 viral species, of which 24 were novel, including double-stranded RNA viruses (Picobirnaviridae and Reoviridae), single-stranded RNA viruses (Astroviridae, Caliciviridae, Picornaviridae), a retro-transcribing DNA virus (Hepadnaviridae), and a single-stranded DNA virus (Parvoviridae). These viruses comprise multi-host generalist viruses and those that are host-specific, indicative of both virome connectivity (host sharing) and heterogeneity (host specificity). Virome connectivity was apparent in two well described multi-host virus species -avian coronavirus and influenza A virus- and a novel Rotavirus species that were shared among some Anseriform species, while virome heterogeneity was reflected in the absence of viruses shared between Anseriformes and Charadriiformes, as well as differences in viral abundance and alpha diversity among species. Overall, we demonstrate complex virome structures across host species that co-exist in multi-species aggregations.

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“…; Ren et al. ). On the other hand, several studies have reported evidence for a strong phylogenetic distance effect.…”

Section: Discussionmentioning

confidence: 98%

“…Little is known about the relative importance of (phylo) genetic versus ecological factors for host shifts, but it appears that this varies widely across systems. On the one hand, several pathogens (e.g., influenza viruses and Mycobacterium tuberculosis) have shifted between humans and domesticated animals such as cattle or fowl-species that are only distantly related to humans but have close physical contact (Smith et al 2009;Ren et al 2016). On the other hand, several studies have reported evidence for a strong phylogenetic distance effect.…”

Section: Discussionmentioning

confidence: 99%

The dynamics of preferential host switching: Host phylogeny as a key predictor of parasite distribution*

Engelstädter

Fortuna

2019

Evolution

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Parasites often jump to and become established in a new host species. There is much evidence that the probability of such host shifts decreases with increasing phylogenetic distance between donor and recipient hosts, but the consequences of such preferential host switching remain little explored. We develop a computational model to investigate the dynamics of parasite host shifts in the presence of this phylogenetic distance effect. In this model, a clade of parasites evolves on an evolving clade of host species where parasites can cospeciate with their hosts, switch to new hosts, speciate within hosts or become extinct. Our model predicts that host phylogenies are major determinants of parasite distributions across trees. In particular, we predict that trees consisting of few large clades of host species and those with fast species turnover should harbor more parasites than trees with many small clades and those that diversify more slowly. Within trees, large clades are predicted to exhibit a higher fraction of infected species than small clades. We discuss our results in the light of recent cophylogenetic studies in a wide range of host–parasite systems.

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Ecological dynamics of influenza A viruses: cross-species transmission and global migration

Cited by 30 publications

References 41 publications

Detection and characterization of an H4N6 avian-lineage influenza A virus in pigs in the Midwestern United States

Detection and characterization of an H4N6 avian-lineage influenza A virus in pigs in the Midwestern United States

Virome heterogeneity and connectivity in waterfowl and shorebird communities

The dynamics of preferential host switching: Host phylogeny as a key predictor of parasite distribution*

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