Dataset of CarboEastAsia and uncertainties in the CO2 budget evaluation caused by different data processing

The datasets of net ecosystem CO₂ exchange (NEE) were acquired from 21 forests, 3 grasslands, and 3 croplands in the eastern part of Asia based on the eddy covariance measurements of the international joint program, CarboEastAsia. The program was conducted by three networks in Asia, ChinaFLUX, JapanFlux, and KoFlux, to quantify, synthesize, and understand the carbon budget of the eastern part of Asia. An intercomparison was conducted for NEE estimated by three gap-filling procedures adopted by ChinaFLUX, JapanFlux, and KoFlux to test the range of uncertainty in the estimation of NEE. The overall comparison indicated good agreement among the procedures in the seasonal patterns of NEE, although a bias was observed in dormant seasons depending on the different criteria of data screening. Based on the gap-filled datasets, the magnitude and seasonality of the carbon budget were compared among various biome types, phenology, and stress conditions throughout Asia. The annual values of gross primary production and ecosystem respiration were almost proportional to the annual air temperature. Forest management, including clear-cutting, plantation, and artificial drainage, was significant and obviously affected the annual carbon uptake within the forests. Agricultural management resulted in notable seasonal patterns in the crop sites. The dataset obtained from a variety of biome types would be an essential source of knowledge for ecosystem science as well as a valuable validation dataset for modeling and remote sensing to upscale the carbon budget estimations in Asia.     

Population genetic structure and diversity of the East Balkan Swine (Sus scrofa) in Bulgaria,revealed by mitochondrial DNA and microsatellite analyses

The East Balkan Swine (EBS) is the only indigenous pig breed in Bulgaria. We analyzed the mitochondrial DNA (mtDNA) control region and 21 microsatellite loci for 198 individuals from 11 farms in Bulgaria. Obtained 11 mtDNA haplotypes including three novel ones were grouped to two major clades, European clade E1 (146/198 individuals, 73.7%) and Asian clade A (52/198, 26.3%). The mixture of the two clades may have resulted from historical crossbreeding between the European and Asian pig breeds. Clade A was frequent in southeastern Bulgaria (Burgas Province), but less frequent or absent in northeastern Bulgaria (Varna and Shumen Provinces). The distribution of Europe- and Asia-specific haplotypes relative to EBS farm locations could be attributed to regional differences of breeding systems (e.g., crossbreeding with imported commercial pigs). A microsatellite analysis showed high heterozygosities for all the EBS farms, and negative inbreeding coefficients presumably due to crossing with commercial pigs or wild boars and/or efforts to reduce inbreeding by farmers. Bayesian clustering analyses showed that all farm populations are genetically well distinguishable from one another. Although diversity has been maintained by the efforts of farmers and a breeding association, the effective population size remains small, and conservation efforts should be continued.     

Breeding of a practical rice line ‘TJTT8’ for phytoextraction of cadmium contamination in paddy fields

ABSTRACT

Previously, we showed that qCdp7, an allele identified in the high-Cd-accumulating indica rice variety ‘Jarjan,’ is associated with effective phytoextraction of Cd from paddy soils. However, ‘Jarjan’ may not be practical for phytoextraction because it is susceptible to seed shattering and culm lodging, which are unfavorable traits for mechanical rice harvesting. In this study, to develop a practical rice line for phytoextraction, we introduced the qCdp7 allele into ‘Tachisugata,’ a rice variety with a nonshattering habit and lodging resistance, to produce a new high-Cd-accumulating rice line designated ‘TJTT8.’ This line inherited high-Cd accumulation and brown pericarps from ‘Jarjan’ and a nonshattering habit and lodging resistance from ‘Tachisugata;’ all of these traits are necessary for rice intended for Cd phytoextraction in Japan. Backcross inbred lines (BILs) were produced by two backcrosses to ‘Tachisugata’ after a cross between ‘Jarjan’ and ‘Tachisugata.’ ‘TJTT8’ was selected from the BILs by means of marker-assisted selection and phenotypic evaluation. When ‘TJTT8,’ the parents, and ‘Cho-ko-koku’ which is a high-Cd-accumulating indica variety were cultivated in Cd-contaminated paddy fields in four locations in Japan, ‘TJTT8’ exhibited lodging resistance and shattering resistance that were higher than those of ‘Jarjan’ and ‘Cho-ko-koku’ and equivalent to those of ‘Tachisugata.’ ‘TJTT8’ accumulated Cd in the aerial parts of the plants at concentrations ranging from 6.5 to 22.7 mg m^?2: it showed significantly higher Cd accumulation than ‘Tachisugata’ and was equivalent to ‘Jarjan’ and slightly superior to ‘Cho-ko-koku.’ Soil Cd concentration was estimated to have been reduced by 8.7–33.6% based on the amount of Cd accumulation in the aerial parts of the plants. Thus, we succeeded in using the qCdp7 allele to produce a practical rice line for Cd phytoextraction by improving several agronomic traits for compatibility with Japanese cultivation systems.     

Relationship of Fe-tolerance to morphological changes in roots in upland NERICA lines under Fe-treated hydroponic conditions

Twenty-six upland lines of New Rice for Africa (NERICA) were tested with four Oryza sativa varieties in relation to Fe toxicity tolerance under hydroponic culture containing 1.44 mM Fe (+Fe) and 0 mM Fe (-Fe as a control). Three NERICAs, WAB450-IBP-24-HB (P24), WAB450-IBP-82-1-1 (P82), and WAB450-IBP-163-3-1 (P163) among the 30 lines/varieties tested possessed relatively strong tolerance judging from reduction of root length and dry weight and shoot dry weight in +Fe compared to -Fe and from iron toxicity score (ITS) in +Fe. Only P24, P82, and P163 showed emerged lateral roots from pericycle at the root elongation zone, whereas in the other 23 NERICAs and four O. sativa varieties lateral root was not observed in the root elongation or differentiation zones. Less disruption of cortex on root tissues was observed in P24, P82, and P163 than in WAB450-16-2-BL2-DV2 (BL2-DV2), the most susceptible NERICA identified. P24, P82, and P163 showed significantly lower Fe content in the shoots than BL2-DV2, suggesting that the tolerant NERICAs could have some mechanism to inhibit the absorption of Fe. The emergence of lateral roots from the root elongation zone in the three tolerant NERICAs would be closely associated with reducing Fe absorption into the plants.     

Time‐coordinated prevalence of extracellular HGF,FGF2 and TGF‐β3 in crush‐injured skeletal muscle

Successful regeneration and remodeling of neuromuscular junctions are critical for restoring functional capacities and properties of skeletal muscle after damage, and axon‐guidance molecules may be involved in the signaling that regulates such restoration. Recently, we found that early‐differentiated satellite cells up‐regulate a secreted neural chemorepellent Sema3A upon in vivo muscle‐crush injury. The study also revealed that Sema3A expression is up‐regulated in primary satellite‐cell cultures in response to hepatocyte growth factor (HGF) and basic fibroblast growth factor (FGF2) and is prevented by transforming growth factor (TGF)‐β2, 3. In order to verify the physiological significance of this regulation in vitro, the present study was designed to estimate the time‐course of extracellular HGF, FGF2 and TGF‐β3 concentrations after crush‐injury of Gastrocnemius muscle in the rat lower hind‐limb, using a combination of a non‐homogenization/non‐spin extraction of extracellular wound fluids and enhanced chemiluminescence–Western blotting analyses. Results clearly demonstrated that active HGF and FGF2 are prevalent in 2–8 days post‐crush, whereas active TGF‐β3 increases after 12 days, providing a better understanding of the time‐coordinated levels of HGF, FGF2 and TGF‐β3 that drive regulation of Sema3A expression during regenerative intramuscular moto‐neuritogenesis.     

Fruits are more sensitive to salinity than leaves and stems in pepper plants (Capsicum annuum L.)

The effects of NaCl stress on plant growth, gas-exchange, activity of superoxide dismutase (SOD), rate of lipid peroxidation, and accumulation of Na⁺ ion and sugar were investigated in leaves and fruits of pepper plants (Capsicum annuum L.). Especially, the gene expression of l-galactono-1,4-lactone dehydrogenase (GalLDH), which is the last enzyme of ascorbic acid (AsA) biosynthesis, and the relationships between AsA level and Na⁺ concentration in plant tissue were investigated with increasing salinity. Plants were treated with three treatments: the control (0 mM NaCl) and two salinity levels (50 and 100 mM NaCl) for 21 days under greenhouse conditions. Plant growth was markedly restricted due to the reduction of photosynthetic rate and the increase of Na⁺ accumulation in leaves with the increasing intensity of NaCl stress. Salinity had more effect on fruit growth comparing to leaf growth, suggesting that fruits could be more sensitive to salinity than leaves. In comparison with the control, salt stress significantly increased lipid peroxidation (as measured as malondialdehyde content) but decreased SOD activity in both fruits and leaves although the effect was larger in fruits; and the rate of the decrease in SOD activity was greater than that of the increase in lipid peroxidation. The AsA concentration transiently increased first 7 days but it slightly decreased from the initial level in the end of treatment day 21. The change in GalLDH gene expression was similar to AsA concentration. The accumulation of Na⁺, the reduction of AsA level at severe salinity stress were greater in fruits than in leaves; and AsA level had a negative relationship with Na⁺ concentration in both leaves and fruits. These results suggest that the difference in salt sensitivity between fruits and leaves in pepper plants can be related to the difference in inhibition of AsA synthesis, which in turn is probably due to the toxicity of extreme accumulation of Na⁺.     

Polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) method for mtDNA typing in hokkaido brown bear (Ursus arctos yesoensis)

To develop an easy method of typing of mitochondrial DNA (mtDNA) in Hokkaido brown bears (Ursus arctos yesoensis), the PCR-RFLP technique was improved using four restriction enzymes: Mbo 1, Cfr 13 I, TspE 1, and Fok 1. This approach identified seven groups of mtDNA haplotypes, HB1/2/5-7, HB 3, HB4, HB8/9, HB10/11, HB12 and HB13 from 102 brown bears of northern, central and eastern Hokkaido.