Global and local governance of shrimp farming in the Mekong Delta, Vietnam

The Mekong Delta is one of seven ecological regions in Vietnam where aquaculture and shrimp products are internationally traded and the shrimp farmers are firmly embedded in a global system of production and trade. The growth of shrimp aquaculture, in addition to population growth and higher levels of investment, has left coastal resources in the Mekong Delta increasingly vulnerable to rapid changes in land and resource use. The shrimp industry, made up of multiple stakeholders and fragmented market chains, is also now subject to a range of attempts to govern sustainable and/or responsible shrimp aquaculture. While striving for improved environmental performance to reduce bio-physical variability in production these governance systems have also brought stringent requirements for producers that determine their ability to access international markets. The general objective of the research is to investigate the interactions between existing state and non-state actors and institutions to develop a more informed understanding of how state, market and community-based governance arrangements at different levels influence decision-making in shrimp aquaculture in coastal areas of the Mekong Delta of Vietnam. The general research question explores how different material conditions and social relations affect the effectiveness and responsiveness of governance arrangements aimed at achieving multiple goals of maintaining rural livelihoods, environmental sustainability and improved food quality. The first empirical chapter highlights two key transformations of Vietnamese shrimp aquaculture policy in Ca Mau province. The first transformation is an internal policy shift from quantitative to qualitative state-led production goals. The secondtransformation is in response to market demands, but is directed to the emergent ‘quality’ concerns about the environmental and social impacts of tropical shrimp farming. Together these two transformations present a complex balancing act between externally-led global market demands and consumer concerns for the improved environmental and social performance of tropical shrimp production, and the government’s interests in maintaining sovereign control over the shrimp industry. The results also show that the Vietnamese government should continue to position itself as a facilitator of global private governance arrangements, especially as farmers and global market actors are engaged in transnational regulatory networks operationalised at local scales. Moreover, the state needs to give far more attention to market incentives for fostering the participation and compliance of farmers in these transnational regulatory networks. The second chapter analyses the case of Naturland organic certification and its implementation in meeting the government’s plan to create an organic coast scaling up the organic farming along southern part of Ca Mau by 2015. Our results support the claim that organic certification can provide a means of linking farm-level management to the sustainability of landscapes dominated by the shrimp-forest integrated farming system in Ca Mau. But this is only achievable if certain challenges are overcome. The first challenge is the tension between farmer practices and externally defined and regulated quality standards.The secondchallenge is to ensure that economic benefit are shared between actors in the organic certified value chain. Finally, the level of legitimacy given to private sector led auditing systems needs to be addressed. The thesis then explores the development of shrimp farmer cooperatives and clusters by the government based on a policy to explicitly to increase the competitiveness of the sector in the international market and to improve economic condition for small producers. The results shows that vertical contractualisation under the form of contract farming between farmer cluster with up and downstream chain actors demonstrate economic benefits to small-holder producers engaged in intensive production.The improved extensive system, however, gives further impetus to determining how cooperative forms of production might assist small holders to complying with production-oriented quality standards, which in turn may also improving market performance. The cases therefore supports the claim that the development of shrimp farmer clusters should not solely focus on increasing production efficiency but also successful integration into the value chain; producing high-quality and safe products, and engaging in sustainable on-farm management practices. The final case study looks at shrimp farming in the broader context of promoting ecological function in forested shrimp-mangrove farming systems. Attention is given to how incentives are generated for shrimp farmers to plant and protect mangroves by analysing farmer’s decision-making and their perspective on mangroves in relation with state-based governance arrangements, the forest allocation and benefit sharing policies. The results show that farmer’s perception on the role and value of mangroves are positive and they are willing to plant and to protect mangroves both for economic and environmental reasons. Moreover, they want to have control over mangroves although forests are still under the state regulation. However, farmer’s decision-making is very much influenced by the way in which the forest benefit sharing policy is implemented by the state-led forest management boards and forestry companies. The results show that the perception of shrimp farming as the main cause of deforestation and degradation should be reevaluated in the context of integrated shrimp mangrove model because farmers income is improved if mangroves are a part of the production system. Instead the evidence shows that shrimp farmers are potentially the best stakeholders to plant, protect and manage mangroves if they have full rights and responsibilities over forests. Seen as such, shrimp farming is a mangrove-friendly source of revenue which also promotes the planting and protection of mangroves. </p

Redondoviridae: High Prevalence and Possibly Chronic Shedding in Human Respiratory Tract, But No Zoonotic Transmission

Redondoviridae is a recently discovered DNA virus family consisting of two species, vientovirus and brisavirus. Here we used PCR amplification and sequencing to characterize redondoviruses in nasal/throat swabs collected longitudinally from a cohort of 58 individuals working with animals in Vietnam. We additionally analyzed samples from animals to which redondovirus DNA-positive participants were exposed. Redondoviruses were detected in approximately 60% of study participants, including 33% (30/91) of samples collected during episodes of acute respiratory disease and in 50% (29/58) of baseline samples (with no respiratory symptoms). Vientovirus (73%; 24/33) was detected more frequently in samples than brisaviruses (27%; 9/33). In the 23 participants with at least 2 redondovirus-positive samples among their longitudinal samples, 10 (43.5%) had identical redondovirus replication-gene sequences detected (sampling duration: 35–132 days). We found no identical redondovirus replication genes in samples from different participants, and no redondoviruses were detected in 53 pooled nasal/throat swabs collected from domestic animals. Phylogenetic analysis described no large-scale geographical clustering between viruses from Vietnam, the US, Spain, and China, indicating that redondoviruses are highly genetically diverse and have a wide geographical distribution. Collectively, our study provides novel insights into the Redondoviridae family in humans, describing a high prevalence, potentially associated with chronic shedding in the respiratory tract with lack of evidence of zoonotic transmission from close animal contacts. The tropism and potential pathogenicity of this viral family remain to be determined

Redondoviridae: High Prevalence and Possibly Chronic Shedding in Human Respiratory Tract, But No Zoonotic Transmission

Redondoviridae is a recently discovered DNA virus family consisting of two species, vientovirus and brisavirus. Here we used PCR amplification and sequencing to characterize redondoviruses in nasal/throat swabs collected longitudinally from a cohort of 58 individuals working with animals in Vietnam. We additionally analyzed samples from animals to which redondovirus DNA-positive participants were exposed. Redondoviruses were detected in approximately 60% of study participants, including 33% (30/91) of samples collected during episodes of acute respiratory disease and in 50% (29/58) of baseline samples (with no respiratory symptoms). Vientovirus (73%; 24/33) was detected more frequently in samples than brisaviruses (27%; 9/33). In the 23 participants with at least 2 redondovirus-positive samples among their longitudinal samples, 10 (43.5%) had identical redondovirus replication-gene sequences detected (sampling duration: 35–132 days). We found no identical redondovirus replication genes in samples from different participants, and no redondoviruses were detected in 53 pooled nasal/throat swabs collected from domestic animals. Phylogenetic analysis described no large-scale geographical clustering between viruses from Vietnam, the US, Spain, and China, indicating that redondoviruses are highly genetically diverse and have a wide geographical distribution. Collectively, our study provides novel insights into the Redondoviridae family in humans, describing a high prevalence, potentially associated with chronic shedding in the respiratory tract with lack of evidence of zoonotic transmission from close animal contacts. The tropism and potential pathogenicity of this viral family remain to be determined

The Virome of Acute Respiratory Diseases in Individuals at Risk of Zoonotic Infections

The ongoing coronavirus disease 2019 (COVID-19) pandemic emphasizes the need to actively study the virome of unexplained respiratory diseases. We performed viral metagenomic next-generation sequencing (mNGS) analysis of 91 nasal-throat swabs from individuals working with animals and with acute respiratory diseases. Fifteen virus RT-PCR-positive samples were included as controls, while the other 76 samples were RT-PCR negative for a wide panel of respiratory pathogens. Eukaryotic viruses detected by mNGS were then screened by PCR (using primers based on mNGS-derived contigs) in all samples to compare viral detection by mNGS versus PCR and assess the utility of mNGS in routine diagnostics. mNGS identified expected human rhinoviruses, enteroviruses, influenza A virus, coronavirus OC43, and respiratory syncytial virus (RSV) A in 13 of 15 (86.7%) positive control samples. Additionally, rotavirus, torque teno virus, human papillomavirus, human betaherpesvirus 7, cyclovirus, vientovirus, gemycircularvirus, and statovirus were identified through mNGS. Notably, complete genomes of novel cyclovirus, gemycircularvirus, and statovirus were genetically characterized. Using PCR screening, the novel cyclovirus was additionally detected in 5 and the novel gemycircularvirus in 12 of the remaining samples included for mNGS analysis. Our studies therefore provide pioneering data of the virome of acute-respiratory diseases from individuals at risk of zoonotic infections. The mNGS protocol/pipeline applied here is sensitive for the detection of a variety of viruses, including novel ones. More frequent detections of the novel viruses by PCR than by mNGS on the same samples suggests that PCR remains the most sensitive diagnostic test for viruses whose genomes are known. The detection of novel viruses expands our understanding of the respiratory virome of animal-exposed humans and warrant further studies

The Virome of Acute Respiratory Diseases in Individuals at Risk of Zoonotic Infections

The ongoing coronavirus disease 2019 (COVID-19) pandemic emphasizes the need to actively study the virome of unexplained respiratory diseases. We performed viral metagenomic next-generation sequencing (mNGS) analysis of 91 nasal-throat swabs from individuals working with animals and with acute respiratory diseases. Fifteen virus RT-PCR-positive samples were included as controls, while the other 76 samples were RT-PCR negative for a wide panel of respiratory pathogens. Eukaryotic viruses detected by mNGS were then screened by PCR (using primers based on mNGS-derived contigs) in all samples to compare viral detection by mNGS versus PCR and assess the utility of mNGS in routine diagnostics. mNGS identified expected human rhinoviruses, enteroviruses, influenza A virus, coronavirus OC43, and respiratory syncytial virus (RSV) A in 13 of 15 (86.7%) positive control samples. Additionally, rotavirus, torque teno virus, human papillomavirus, human betaherpesvirus 7, cyclovirus, vientovirus, gemycircularvirus, and statovirus were identified through mNGS. Notably, complete genomes of novel cyclovirus, gemycircularvirus, and statovirus were genetically characterized. Using PCR screening, the novel cyclovirus was additionally detected in 5 and the novel gemycircularvirus in 12 of the remaining samples included for mNGS analysis. Our studies therefore provide pioneering data of the virome of acute-respiratory diseases from individuals at risk of zoonotic infections. The mNGS protocol/pipeline applied here is sensitive for the detection of a variety of viruses, including novel ones. More frequent detections of the novel viruses by PCR than by mNGS on the same samples suggests that PCR remains the most sensitive diagnostic test for viruses whose genomes are known. The detection of novel viruses expands our understanding of the respiratory virome of animal-exposed humans and warrant further studies.Peer reviewe

Host Transcription Profile in Nasal Epithelium and Whole Blood of Hospitalized Children Under 2 Years of Age With Respiratory Syncytial Virus Infection.

BACKGROUND: Most insights into the cascade of immune events after acute respiratory syncytial virus (RSV) infection have been obtained from animal experiments or in vitro models. METHODS: In this study, we investigated host gene expression profiles in nasopharyngeal (NP) swabs and whole blood samples during natural RSV and rhinovirus (hRV) infection (acute versus early recovery phase) in 83 hospitalized patients <2 years old with lower respiratory tract infections. RESULTS: Respiratory syncytial virus infection induced strong and persistent innate immune responses including interferon signaling and pathways related to chemokine/cytokine signaling in both compartments. Interferon-α/β, NOTCH1 signaling pathways and potential biomarkers HIST1H4E, IL7R, ISG15 in NP samples, or BCL6, HIST2H2AC, CCNA1 in blood are leading pathways and hub genes that were associated with both RSV load and severity. The observed RSV-induced gene expression patterns did not differ significantly in NP swab and blood specimens. In contrast, hRV infection did not as strongly induce expression of innate immunity pathways, and significant differences were observed between NP swab and blood specimens. CONCLUSIONS: We conclude that RSV induced strong and persistent innate immune responses and that RSV severity may be related to development of T follicular helper cells and antiviral inflammatory sequelae derived from high activation of BCL6

Mycobacterial Blood Culture for Diagnosis of Tuberculosis in Vietnamese Children

Diagnosis of pediatric tuberculosis is notoriously difficult. We investigated the additional yield of blood culture in hospitalized children in Vietnam. Among 554 enrolled clinically suspected patients, an additional 6 cases were diagnosed, while the incremental cost per case was USD500. Addition of blood culture is therefore not recommended for our total patient population, but may be considered in specific groups

Feasibility of wearable monitors to detect heart rate variability in children with hand, foot and mouth disease

Hand foot and mouth disease (HFMD) is caused by a variety of enteroviruses, and occurs in large outbreaks in which a small proportion of children deteriorate rapidly with cardiopulmonary failure. Determining which children are likely to deteriorate is difficult and health systems may become overloaded during outbreaks as many children require hospitalization for monitoring. Heart rate variability (HRV) may help distinguish those with more severe diseases but requires simple scalable methods to collect ECG data.We carried out a prospective observational study to examine the feasibility of using wearable devices to measure HRV in 142 children admitted with HFMD at a children's hospital in Vietnam. ECG data were collected in all children. HRV indices calculated were lower in those with enterovirus A71 associated HFMD compared to those with other viral pathogens.HRV analysis collected from wearable devices is feasible in a low and middle income country (LMIC) and may help classify disease severity in HFMD

Spatiotemporal evolution of SARS-CoV-2 Alpha and Delta variants during large nationwide outbreak of COVID-19, Vietnam, 2021

We analyzed 1,303 SARS-CoV-2 whole-genome sequences from Vietnam, and found the Alpha and Delta variants were responsible for a large nationwide outbreak of COVID-19 in 2021. The Delta variant was confined to the AY.57 lineage and caused >1.7 million infections and >32,000 deaths. Viral transmission was strongly affected by nonpharmaceutical interventions