Six years of habitat modification in a tropical rainforest margin of Indonesia do not affect bird diversity but endemic forest species

Studies on temporal changes of tropical bird communities in response to habitat modification are rare. We quantified changes in bird assemblages at the rainforest margin of Lore Lindu National Park, Central Sulawesi, over an interval of 6 years. Standardized bird counts were conducted in the years 2001/2002 and 2008 at 15 census points representing natural forest, secondary forest, agroforest and openland sites. Although overall species richness remained nearly identical, different species groups were affected unequally by habitat modification within the forest margin landscape. The mostly endemic forest species declined in abundance (72.0% of forest species) and were detected at fewer census points in 2008 (56.0%). In contrast, 81.8% of the solely widespread openland birds became more abundant and 63.6% of the species were recorded at a larger number of census points. Hence, recent human activities in the forest margin ecotone negatively affected species of high conservation value. Species richness turned out to be a poor indicator of habitat change, and our results underline the importance of considering species identities. Biotic homogenization as result of habitat conversion is a global phenomenon. In our study, the winners were widespread openland species, while the losers were endemic forest birds. In conclusion, our study shows that 6 years of land-use change had negative impacts on bird community structure and endangered species, but not on overall bird species richness.     

Hunting of flying foxes and perception of disease risk in Indonesian Borneo

Widespread hunting of flying foxes has generated concern regarding population declines and the spread of emerging infectious diseases. To investigate the potential impacts of this trade, we conducted questionnaires in 45 settlements across 12 population centres within Central Kalimantan, Indonesia, a region previously identified as a hunting hotspot. By combining results from 63 hunter and 88 vendor interviews, we highlight two population centres (Palangka Raya and Buntok/Tamiang Layang) with higher hunting rates than other areas, which act as flying fox trading hubs. Flying fox populations were perceived to be declining province-wide: declines in captures and sales were reported by 81% of hunters and 60% of market vendors, who also reported availability as the key factor underlying temporal variations in trade. There was substantial risk of zoonotic disease transmission between bats, hunters and traders: the vast majority of respondents were unaware that flying foxes carry potentially fatal viruses, and so few people protected themselves from physical contact. Moreover, both hunters and vendors were frequently bitten and the majority of bites drew blood. Most hunters (58%) also reported unintentional by-catches that included keystone bird species and slow lorises. The scale of hunting over Central Kalimantan represents a serious threat to the long-term viability of flying fox populations (and potentially those of other species), and could have serious public health implications. Reducing or eliminating hunting and trade would mitigate the risk of disease transmission, while maintaining the economic and ecosystem benefits that flying foxes provide, in terms of pollination and seed dispersal.     

Effect of intermittent irrigation following the system of rice intensification (SRI) on rice yield in a farmer’s paddy fields in Indonesia

System of rice intensification (SRI) has been disseminated in many countries because of its high yield, although the mechanism of yield increase has yet to be fully understood. The aims of this study were to clarify the actual water management of a skilled SRI farmer in irrigated paddy field of Indonesia and to examine the effect of intermittent water management on rice growth and yield. Yield and yield components were compared in the field experiments in the farmer’s fields under intermittent (SRI) or flooded (FL) irrigation for 4 years from 2013 to 2016. The daily mean water depth of SRI plots during 0–40 days after transplanting showed very shallow (ca. 2 cm) or little lower than soil surface and continued to be lower than soil surface during reproductive stage when panicles were formed. The yield of SRI significantly exceeded that of FL for 4 years by 13% (P?=?0.0004), so did the panicle numbers per area (P?=?0.036). The yield increase in SRI was associated with the increased number of panicles, which should have resulted from enhanced tiller development under shallow water level during the vegetative stage. The increased number of panicles was, however, counteracted by the reduced number of spikelets per panicle and resulted in nonsignificant increase in the spikelet density, defined as number of spikelets per unit area of crop. This dampening change in spikelet number per panicle could have been caused by limited supply of either nitrogen or carbohydrate during the panicle development stage under the intermittent water supply. A greater yield increase by SRI could be expected by improving nutrient or water management during the reproductive stage.     

Improved physical control of glyphosate‐resistant Italian ryegrass (Lolium multiflorum) on rice paddy levees in Japan

Italian ryegrass ( Lolium multiflorum Lam.) is a non‐native annual winter grass that has seriously infested rice paddy levees and wheat fields in Japan. Recently, glyphosate‐resistant Italian ryegrass was found on paddy levees in central Japan, thereby making control of the grass by using glyphosate less effective. In this study, physical control methods were tested that combined the timing and frequency of mowing in order to more effectively control glyphosate‐resistant Italian ryegrass on rice paddy levees. A 3 year field experiment was conducted from 2012 to 2014 in a western region of Shizuoka Prefecture, where glyphosate‐resistant Italian ryegrass has become dominant. Five treatments were tested: (i) mowing once before the flowering of the grass (i.e. conventional mowing measure); (ii) mowing once during flowering; (iii) mowing twice during flowering; (iv) glyphosate application before flowering (i.e. one of the conventional mowing measures); and (v) no treatment. The above‐ground biomass, seed production, soil seed bank and seedling occurrence of Italian ryegrass were measured to determine the effectiveness of these treatments. Mowing during the flowering period resulted in reduced above‐ground biomass, seed production and soil seed bank when compared with the other treatments. Additionally, mowing twice during the flowering period resulted in a lower seedling density than mowing once. The results suggest that, in this region, physical control by mowing during the flowering period would be more effective than conventional measures for controlling glyphosate‐resistant Italian ryegrass.     

Local and landscape factors determine functional bird diversity in Indonesian cacao agroforestry

Large-scale intensification of smallholder cacao management is currently affecting the agroforestry landscapes of Sulawesi (Indonesia), the world’s third largest cacao producer. Little is known about how this shift from diverse plantations to full-sun cacao will affect functionally important biodiversity within the agroecosystem, and how this is related to landscape-wide patterns in land-use and natural ecosystems. We recorded birds in 43 cacao plots differing in woody and herbaceous vegetation as well as distance to forest in two valleys around the Lore Lindu National Park in Central Sulawesi. Species richness of frugivores and nectarivores decreased with increasing distance to forest, whereas granivorous birds increased in richness. Forest specialists, but not habitat generalists, responded positively to forest edge proximity. Species richness of all functional groups except seed eaters increased at higher density of tall shade trees. Greater species richness of shade trees was associated with higher species richness of frugivores and nectarivores, while herbaceous vegetation did not have a strong impact on the avifauna. The positive effect of shade trees was independent of distance to forest. In conclusion, our study shows the relative importance of local and landscape effects on bird diversity with shade trees being critical for bird conservation in cacao agroforestry landscapes.     

Expression of calbindin-D28K in sporadic nephroblastomas of the chicken

Calbindin-D28K (Ca-D28K) is a calcium-binding protein. In the kidney, Ca-D28K is present in the distal nephron, but not in the proximal nephron. This site-specific distribution in the kidney indicates that Ca-D28K is a potential marker for the differentiation of the distal nephron. In this study, we have examined the expression of Ca-D28K in 25 sporadic cases of chicken nephroblastomas. All cases of nephroblastomas were composed of atypical tubular structures, blastemal cells, and fibrous stroma in varying degrees of differentiation. Immunohistochemically in all nephroblastoma specimens, Ca-D28K was expressed in the epithelial cells of the subsets of tubular structures, but not in the blastema or the stroma. These results suggested that the tubuli in the nephroblastomas are able to differentiate into the phenotype of distal nephrons. Furthermore, Ca-D28K might develop as a novel diagnostic marker for nephroblastomas because this molecule is reported to be completely negative in other renal tumors, including renal cell carcinoma, chromophobe carcinomas, and oncocytoma.     

Radial variations in the anatomical characteristics and density of the wood of Acacia mangium of five different provenances in Indonesia

The anatomical characteristics and density of wood were examined in 23-year-old Acacia mangium trees that had been planted in Yogyakarta, Indonesia. The seeds had been collected from trees of five different provenances. The distance from the pith of the boundary between juvenile and mature wood was also examined to clarify the maturity of the wood. Lengths of wood fibers near the pith and the distance from the pith of the boundary between juvenile and mature wood differed significantly among provenances. By contrast, other anatomical characteristics of the wood such as fiber wall area, fiber wall thickness, fiber diameter, vessel lumen area, vessel diameter, vessel frequency and wood density did not differ significantly among provenances. Wood density was strongly correlated with the area of fiber walls. Our observations suggest that Sidei and Daintree might be more appropriate provenances among those examined for the Acacia mangium tree-breeding programs in Indonesia that are aimed at improving wood quality, because these provenances are associated with longer initial wood fibers and narrower juvenile areas than the other provenances studied.     

Update on Non-Alcoholic Fatty Liver Disease-Associated Single Nucleotide Polymorphisms and Their Involvement in Liver Steatosis,Inflammation, and Fibrosis: A Narrative Review

Genetic factors are involved in the development, progression, and severity of NAFLD. Polymorphisms in genes regulating liver functions may increase liver susceptibility to NAFLD. Therefore, we conducted this literature study to present recent findings on NAFLD-associated polymorphisms from published articles in PubMed from 2016 to 2021. From 69 selected research articles, 20 genes and 34 SNPs were reported to be associated with NAFLD. These mutated genes affect NAFLD by promoting liver steatosis (PNPLA3, MBOAT7, TM2SF6, PTPRD, FNDC5, IL-1B, PPARGC1A, UCP2, TCF7L2, SAMM50, IL-6, AGTR1, and NNMT), inflammation (PNPLA3, TNF-α, AGTR1, IL-17A, IL-1B, PTPRD, and GATAD2A), and fibrosis (IL-1B, PNPLA3, MBOAT7, TCF7L2, GATAD2A, IL-6, NNMT, UCP, AGTR1, and TM2SF6). The identification of these genetic factors helps to better understand the pathogenesis pathways of NAFLDKey Words: Fibrosis, Inflammation, Non-alcoholic fatty liver disease, Polymorphism     

Improving siRNA design targeting nucleoprotein gene as antiviral against the Indonesian H5N1 virus

BackgroundSmall interfering RNA technology has been considered a prospective alternative antiviral treatment using gene silencing against influenza viruses with high mutations rates. On the other hand, there are no reports on its effectiveness against the highly pathogenic avian influenza H5N1 virus isolated from Indonesia.ObjectivesThe main objective of this study was to improve the siRNA design based on the nucleoprotein gene (siRNA-NP) for the Indonesian H5N1 virus.MethodsThe effectiveness of these siRNA-NPs (NP672, NP1433, and NP1469) was analyzed in vitro in Marbin-Darby canine kidney cells.ResultsThe siRNA-NP672 caused the largest decrease in viral production and gene expression at 24, 48, and 72 h post-infection compared to the other siRNA-NPs. Moreover, three serial passages of the H5N1 virus in the presence of siRNA-NP672 did not induce any mutations within the nucleoprotein gene.ConclusionsThese findings suggest that siRNA-NP672 can provide better protection against the Indonesian strain of the H5N1 virus.