Assessment of genetic diversity and population structure of Vietnamese indigenous cattle populations by microsatellites

Cattle play a very important role in agriculture and food security in Vietnam. A high level of cattle diversity exists and serves different needs of Vietnamese cattle keepers but has not yet been molecularly characterized. This study evaluates the genetic diversity and structure of Vietnamese indigenous cattle populations, using microsatellite markers. A total of 410 individuals from six indigenous cattle populations and an exotic breed was characterized using 27 microsatellite markers A total of 362 alleles was detected and the number of alleles per locus ranged from 8 (INRA005 and ILSTS005) to 17 (ETH185). The level of gene diversity was high indicated by a mean expected heterozygosity (He) across populations and loci of 0.73. Level of inbreeding (mean F_IS=0.05) and genetic differentiation (mean F_ST=0.04) was moderate. The phylogenetic tree based on Reynolds genetic distance reflected geographic distances. Structure analysis indicated five homogeneous clusters. The Brahman, Lang Son, Ha Giang and U Dau Riu cattle were assigned to independent clusters while Nghe An, Thanh Hoa and Phu Yen cattle were grouped in a single cluster. We conclude that Vietnamese indigenous cattle have high levels of genetic diversity and distinct genetic structures. Based on these results, we recommend that for conservation homogenous populations (Nghe An, Thanh Hoa and Phu Yen) can be grouped to reduce costs and U Dau Riu, Lang Son and Ha Giang populations should be conserved separately to avoid loss of genetic diversity.     

Identification and development of molecular markers linked to Phytophthora root rot resistance in pepper (Capsicum annuum L.)

Phytopthora root rot in pepper (C. annuum) is caused by Phytophthora capsici L., which exhibits a high level of pathogenic diversity. Resistance to this disease is conditioned by a number of quantitative trait loci. Pyramiding resistance alleles is desirable and could be simplified by the use of molecular markers tightly linked to the resistance genes. The purpose of this study was development of molecular markers linked to Phytophthora root rot resistance. An F₈ recombinant inbred line (RIL) population derived from a cross between YCM334 and a susceptible cultivar ‘Tean’ was used in combination with bulk segregant analysis utilizing RAPD and conversion of AFLP markers linked to Phytophtora root rot resistance into sequence-characterized amplified region (SCAR) markers. In conversion: one marker was successfully converted into a co-dominant SCAR marker SA133_4 linked to the trait. In bulked segregant analysis (BSA): three RAPD primers (UBC484, 504, and 553) produced polymorphisms between DNA pools among 400 primers screened. Genetic linkage analysis showed that the SCAR and RAPD markers were located on chromosome 5 of pepper. Quantitative trait locus (QTL) analysis showed that the SA133_4 and UBC553 were linked to Phytophtora root rot resistance. These markers were correctly identified as resistant or susceptible in nine promising commercial pepper varieties. These markers will be beneficial for marker-assisted selection in pepper breeding.     

MODELING THE IMPACT OF GOVERNMENT REGULATIONS ON THE PERFORMANCE OF RESERVOIR AQUACULTURE IN VIETNAM 1

This study was motivated by the need to estimate the quantitative impacts of current regulatory constraints on the economic performance of reservoir aquaculture in Vietnam. Using survey data and a specially adapted bioeconomic model, we show that performance of reservoir aquaculture varies widely. The three performance criteria were fish yields, net production revenue and income generated for the local population. Results suggest that current policies regarding extension effort on fingerling survival rates and on feeding strategies, as well as regulations involving taxation of cooperatives and authorities collecting leasing fees, do constrain the economic potential of reservoir aquaculture. The forgone production revenues limit the potential for aquaculture to alleviate local poverty. This study is a first step in identifying those government regulations that have a critical role in the development of reservoir aquaculture in Vietnam.     

Impacts of climate change on snakehead fish value chains in the Lower Mekong Basin of Cambodia and Vietnam

ABSTRACT

The productive fisheries of the Lower Mekong Basin of Cambodia and Vietnam are essential to the food security and nutrition of 60 million people. Yet these fisheries, both culture and capture, are susceptible to the impacts of climate change. This article reports on a study undertaken to examine the vulnerability, as perceived by snakehead (Channa striata) fish farmers in Vietnam and fishers in Cambodia, to the impacts from climate change. Perceived impacts on various actors in the value chain are identified, as well as adaptation strategies currently being utilized and planned for the future. Recommendations are suggested to contribute to assisting snakehead farmers and fishers in adapting and preparing for the impacts of climate change.     

Spatial prediction of saline and sodic soils in rice‒shrimp farming land by using integrated artificial neural network/regression model and kriging

In the context of widespread saline and sodic soil, mapping and monitoring spatial distribution of soil salinity and sodicity are important for utilization and management in agriculture lands. In this study, two-stage assessment was proposed to predict spatial distribution of saline and sodic soils. First, artificial neural network (ANN) and multiple linear regressions (MLR) model were used to predict sodium adsorption ratio (SAR) and exchangeable sodium percentage (ESP) based on soil electrical conductivity (EC) and pH. Then, the Kriging interpolation method combined with overlay mapping technique was used to perform saline spatial predictions in the study area. The model accuracy level is evaluated based on coefficient of determination (R²) and root mean square error (RMSE). In the first stage, the values of R² and RMSE of SAR and ESP were 0.94, 0.17 and 0.94, 0.24 for ANN, and 0.35, 0.52 and 0.34, 0.76 for MLR, respectively. Similarly, in the second stage, the RMSE of ANN-Kriging were much closer to 0 and relatively lower than MLR-Kriging and Kriging. The results show that ANN-Kriging can be used to improve the accuracy of mapping and monitoring spatial distribution of saline and sodic soil in areas that develop the rice-shrimp cultivation model.     

Doing what with whom? Stakeholder analysis in a large transdisciplinary research project in South-East Asia

The transdisciplinary research project LEGATO analysed the combined generation of provisioning, regulating and cultural ecosystem services in wet rice agriculture in South-East Asia and applied ecological engineering to future-proof it against global change and environmental pollution challenges. Due to its transdisciplinary character and the sheer size, a systematic stakeholder involvement was inevitable. Starting with stakeholder identification by snowballing from a limited number of contacts, we derived a multi-level stakeholder analysis and tried to involve those identified as relevant. Applying different means and aiming at different depth of involvement, the effort can be judged successful. The paper describes the methods used to identify and classify stakeholders, and key elements of the stakeholder management, guided by the BiodivERsA Stakeholder Activation Handbook. While on the local level, farmers and extension workers turned out to be influential and interested stakeholders in both countries, as well as local (PH) or provincial authorities (VN), differences were manifest on higher levels due to the divergent institutional setting. National-level agents were hard to get interested in both countries, and influential agents along the production chain, including middle men, were not really interested in collaboration.     

Effects of soil type and water saturation on growth,nutrient and mineral content of the perennial forage shrub S<Emphasis Type="Italic">esbania sesban</Emphasis>

Sesbania sesban (L.) Merr is a perennial N₂-fixing tree with high potential for use in agricultural production systems as a green manure and livestock forage. We studied the interactive effects of soil type and water level on the growth, biomass allocation, nutrient and mineral content of S. sesban. Four-week old seedlings of S. sesban were grown for 49 days (n = 5) in a factorial mesocosm set-up with six soil types (sediment, sand, alluvial, acid-sulfate, saline and clay) and three water levels (drained, water-saturated and flooded). The soils tested represent the predominant alluvial soil types of the Mekong delta, Vietnam. Sesbania sesban grew well with relative growth rates (RGR) around 0.08 g g^?1 d^?1 in all studied soil types, except the saline soil where plants died. In the low-pH (3.9) acid sulfate soil, that constitute more than 40 % of the Mekong delta, the RGR of the plants was slightly lower (0.07 g g^?1 d^?1), foliar concentration of calcium was 3–6 times lower, and concentrations of iron and sodium up to five times higher, than in other soils. The nutrient and mineral contents of the plant tissues differed between the soils and were also affected by the flooding levels. Foliar concentrations of nitrogen (50–74 mg N g^?1 dry mass) and phosphorus (5–9 mg P g^?1 dry mass) were, however, generally high and only slightly affected by water level. The results show that S. sesban can grow well and with high growth rates on most wet soils in the Mekong delta, except saline soils where the high salt content prevents establishment and growth. The nutrient and mineral contents of the plants, and hence the nutritional value of the plants as e.g. fodder or compost crops, is high. However, soil type and water level interactively affect growth and tissue composition. Hence, optimal growth conditions for S. sesban differ in the different regions of the Mekong delta.     

Resistance to Taiwanese race 1 strains of Ralstonia solanacearum in wild tomato germplasm

A total of 252 wild Solanum accessions and one population of 49 introgression lines of LA716 were screened for resistance to a race 1/biovar 4/phylotype I strain Pss186 of Ralstonia solanacearum. Most wild tomato accessions were highly susceptible. However, five accessions of S. pennellii, i.e. LA1943, LA716, LA1656, LA1732 and TL01845 were resistant to strain Pss186. These accessions were then challenged against two other race 1/phylotpye I strains Pss4 and Pss190, which were more aggressive. All the five S. pennellii accessions were susceptible to Pss4, but displayed high to moderate resistance to Pss190 with a percentage of wilted plants ranging from 0% to 60%. Pss190 is an aggressive strain that made a resistant tomato line Hawaii 7996 susceptible. Thus, the results found in this study provide evidence of the presence of strain-specific resistance. LA3501, which has an introgression segment on chromosome 6, was found to be resistant to Pss186 among the screened introgression lines. This confirms the importance of resistance trait loci on chromosome 6 that have been identified by other studies. This is the first report of S. pennellii being resistant to bacterial wilt. These new resistant sources will provide breeders with more resources to breed for stable resistance to bacterial wilt of tomato.     

Polarization of PAR proteins by advective triggering of a pattern-forming system

In the Caenorhabditis elegans zygote, a conserved network of partitioning-defective (PAR) polarity proteins segregates into an anterior and a posterior domain, facilitated by flows of the cortical actomyosin meshwork. The physical mechanisms by which stable asymmetric PAR distributions arise from transient cortical flows remain unclear. We present evidence that PAR polarity arises from coupling of advective transport by the flowing cell cortex to a multistable PAR reaction-diffusion system. By inducing transient PAR segregation, advection serves as a mechanical trigger for the formation of a PAR pattern within an otherwise stably unpolarized system. We suggest that passive advective transport in an active and flowing material may be a general mechanism for mechanochemical pattern formation in developmental systems.     

Comparative performance of hatchery-reared and wild Scylla paramamosain (Estampador, 1949) in pond culture

The performance of hatchery‐reared juveniles either in aquaculture grow‐out systems or stock enhancement is likely to be dependent on a range of factors during the hatchery phase of production. With recent progress in the development of hatchery systems for the mud crabs Scylla spp., there is growing interest in evaluation of the quality of hatchery‐reared juveniles relative to wild seed crabs as currently used in aquaculture. Hatchery‐reared and wild‐collected Scylla paramamosain juveniles were stocked either together in ponds or separately. All crabs were tagged with microwire‐coded tags, so that origin could be determined in the mixed groups. Preliminary validation demonstrated that tagging did not affect survival or growth, with a tag retention of 94%. After 106 days of culture, there was no significant difference in survival at harvest between the two sources of crabs. The wild juvenile crabs had a significantly higher initial weight:carapace width (CW) ratio compared with those from the hatchery, indicating a difference in condition. However, where crabs were stocked separately, the hatchery‐reared animals exhibited significantly faster growth than those collected from the wild, both in terms of specific growth rate and CW increase per month. However, in the mixed ponds, where there was competition with wild crabs, there was no significant difference in growth rate between crabs from the two sources. Overall, the results demonstrate that the growth performance of hatchery‐reared S. paramamosain can at least equal that of wild‐collected seed crabs in ponds culture.