Predicting adoption of double cropping in paddy fields of northern Iran: a comparison of statistical methods

Factors affecting the adoption of double cropping were explored in rice farms of Fouman County of Guilan Province in northern Iran using artificial neural networks (ANNs), linear discriminant analysis (LDA), and logistic regression (LGR). Eleven factors (age, education, occupation, family size, type of farm ownership, distance to the agricultural service center, attending agricultural extension courses, use of financial resources and bank loans, number of domestic animals, area under cultivation, and social participation) were examined. An additional objective was to compare the ability of the three models in predicting the adoption of double cropping. ANNs showed an overall predictive power of 89.8%. LDA showed an overall predictive power of 83.2%, with seven of the eleven independent variables being effective on the adoption of double cropping. LGR indicated an overall predictive power of 87.6%, with eight of the eleven independent variables being effective on the adoption of double-rice cropping. ANNs showed higher power than LGR and LDA in predicting the adoption of double cropping. Based on all three methods used for analysis, the most important independent variables were social participation and area under cultivation (positive factors) as well as distance to the agricultural service center and family members (negative factors). Establishment of cooperatives or other kinds of farmers’ associations to foster social participation could motivate adoption of double cropping, particularly among small-scale farmers. To increase agricultural services, more local centers should be created in rural areas. The government should promote double cropping through effective incentives and technology transfer to small-scale farmers.     

A GIS-aided two-phase grey fuzzy optimization model for nonpoint source pollution control in a small watershed

A method for allocating allowable ranges of total nitrogen (TN) load to nonpoint (diffuse pollution) sources in a watershed has been developed by adopting the two-phase grey fuzzy optimization approach. Competing goals of water quality management authorities and TN load dischargers at nonpoint sources such as paddy field, upland crop field, and residential area are described with linear imprecise membership functions including interval numbers. TN load discharged from each cell of the nonpoint sources is assumed to be transported along with surface, subsurface, and river flow under the conventional first-order kinetic removal with respect to distance. The travel length of the load is estimated with a digital elevation model in a geographic information system (GIS). Uncertainty of river discharge and self-purification coefficients appearing in the TN transport model is also expressed with interval numbers. The GIS-aided grey fuzzy optimization model developed here is applied to the Seimei River watershed, Japan. By solving the optimization model, the allowable load represented by an interval number at each cell is procured, which would be a scientific base for effluent control regarding nonpoint sources in the area.     

Investigating the reduction of sodium adsorption ratio from agricultural waste by rice husk in batch scale and physical model of drain envelop

Sodium adsorption ratio (SAR) is one of the water quality indexes that whose is important due to reuse or depletion to environment. Solutes in drain water can be controlled by adsorption, chemical or biological reaction, organic envelope of drainage. Rice husk is the common option of drainage envelops in paddy fields. In this study, the ability of reduction of SAR by rice husk was evaluated in batch scale and physical model of drain envelops. In the batch experiments, the adsorption of SAR parameters was investigated by adding 2 g of rice husk into a 100 ml of sodium chloride solution. The results indicated that rice husk absorbed calcium, magnesium and sodium, respectively. By increasing the temperature, contact time and pH, adsorption of calcium, magnesium and sodium was increased; however, the higher concentration of sodium in soil solution reduced the percentage of adsorption. In a more realistic state, physical models of subsurface drainage in the paddy fields were made. Drainage envelope treatments included of rice husk (H), combination of 20 and 60 % of husk with gravel (H₂₀G₈₀ and H₆₀G₄₀) and a pipe without envelope (NE). Due to higher drain discharge and more sodium removal (lower SAR in drain water), treatment H with the discharge of 16.2 ml/min and SAR of 1.27 (meq/l)^0.5 was better in comparison with other treatments.     

Mechanical insights into the effect of fluctuation in soil moisture on nitrous oxide emissions from paddy soil

Paddy fields are subjected to fluctuating water regimes as a result of the alternate drying and wetting water management, which often incurs a sensitive change in N₂O emissions from paddy soils. However, how the soil moisture regulates the emission of N₂O from paddy soil remains uncertain. In this study, three incubation experiments were designed to study the effects of constant and fluctuating soil moisture on N₂O emission and the sources of N₂O emission from paddy soil. Results showed that the N₂O emission from paddy soil at 100 % WHC (water-holding capacity) was higher than that at 40, 65, 80, 120, and 160 % WHC, indicating that 100 % WHC was the optimum soil moisture content for N₂O emission under the incubation experiment. Small peak of N₂O flux appeared when the soil moisture content from 250 % WHC decreased near to 100 % WHC, lower than that triggered by nitrogen (N) fertilization, which was mainly owing to the low NH₄ ⁺ concentration at this period. Nitrification dominated the emissions of N₂O from paddy soil at 250 % WHC (54.96 %), higher than that of nitrification-coupled denitrification (6.74 %) and denitrification (38.3 %). The contribution of denitrification to N₂O emissions (44.10 %) was equivalent to that of nitrification (44.45 %) in soil at 100 % WHC, which was higher than that of 250 % WHC treatment. In conclusion, the finding suggested that the peak of N₂O in paddy soils during midseason aeration could be attributed to the occurrence of optimum soil moisture under sufficient N availability, favorable for the production and accumulation of N₂O.     

Plant species identification using fecal DNAs from red-eared slider and Reeves’ pond turtle in agricultural canals for rural ecosystem conservation

Fecal DNA samples from the red-eared slider and Reeves’ pond turtle, suspected pests of lotus root paddies, were used to identify the plant species eaten by these turtles in order to develop a strategy for rural ecosystem conservation. The fecal samples were obtained from young and adult individuals (mostly female) of both species living in agricultural canals surrounding lotus root paddies in Tokushima Prefecture, Japan. The samples were screened for the presence or absence of DNA from nine plant species using PCR and plant species-specific primers for the rbcL gene of chloroplast DNA. In the red-eared slider, our analysis identified seven plant species in the fecal DNA samples of adults and three plant species in those of young individuals. In Reeves’ pond turtle, our analysis identified two plant species from adult fecal samples and one species from those of young individuals. Thus, adult red-eared sliders consume a greater range of plants than young red-eared sliders or Reeves’ pond turtles. Both turtle species, independently of age, consumed lotus plants and were likely to cause feeding damage to lotus roots. Considering the plant species detected in adult red-eared sliders and these plant habitats, we suggest that this adult turtle is likely to travel between the agricultural canals and the lotus root paddies. These findings will help the development of strategies for preventing damage to lotus roots by these turtles; furthermore, they indicate that fecal DNA analysis will be applicable to investigation of the feeding habits of other animal species.     

Integrated effect of population and weed management regimes on weed dynamics,performance, and productivity of basmati rice (<Emphasis Type="Italic">Oryza sativa</Emphasis> L.)

Weeds caused serious problem on yield reduction of basmati rice worldwide. Losses caused by weeds varied from one country to another, depending on the presence of dominant weeds and the control methods practiced by farmers; therefore, suitable plant population and weed management practices should be adopted. Keeping these in mind, a field experiment was carried out during kharif seasons of 2009 and 2010 at crop Research Centre of SVPUA&T, Meerut, India comprising 4 planting geometries, viz. 20, 30, 40, and 50 hills m^?2 as main plot factor, and 5 weed management practices (Butachlor @ 1.0 kg ha^?1, Butachlor @ 1.0 kg ha^?1 fb (followed by) one hand weeding, Butachlor @ 1.0 kg ha^?1 fb Almix @ 4 g ha^?1, two hand weedings and weedy check) in a split plot design with 3 replications. Experimental results revealed that plant population of 50 hills m^?2 proved superior over that of 20 hills m^?2 in respect of weed density, weed dry weight, number of tillers m^?2, yield attributes, grain, straw, and biological yields. The maximum grain yield (29.00 and 31.00 q ha^?1) and straw yield (51.30 and 52.50 q ha^?1) were recorded in 50 hills m^?2 followed by 40 hills m^?2 during 2009 and 2010, respectively. In respect of nitrogen, phosphorus, and potassium removal, a reverse trend was observed: the highest in 20 hills m^?2 followed by 30, 40, and 50 hills m^?2. As far as the weed management practices are concerned, both chemical and mechanical methods of weed control were found superior over weedy check. The lowest weed density, dry weight, and highest weed control efficiency, maximum length of panicle^?1, number of panicle (m²), and 1000-grain weight and grain yield of 30.40 and 32.60 q ha^?1 were recorded with two hand weedings which was at par with Butachlor @ 1.0 kg ha^?1 fb one hand weeding over rest of the weed management practices.     

Identification of resistant germplasm containing novel resistance genes at or tightly linked to the <Emphasis Type="Italic">Pi2/9</Emphasis> locus conferring broad-spectrum resistance against rice blast

Background

The rice Pi2/9 locus harbors multiple resistance (R) genes each controlling broad-spectrum resistance against diverse isolates of Magnaporthe oryzae, a fungal pathogen causing devastating blast disease to rice. Identification of more resistance germplasm containing novel R genes at or tightly linked to the Pi2/9 locus would promote breeding of resistance rice cultivars.

Results

In this study, we aim to identify resistant germplasm containing novel R genes at or tightly linked to the Pi2/9 locus using a molecular marker, designated as Pi2/9-RH (Pi2/9 resistant haplotype), developed from the 5′ portion of the Pi2 sequence which was conserved only in the rice lines containing functional Pi2/9 alleles. DNA analysis using Pi2/9-RH identified 24 positive lines in 55 shortlisted landraces which showed resistance to 4 rice blast isolates. Analysis of partial sequences of the full-length cDNAs of Pi2/9 homologues resulted in the clustering of these 24 lines into 5 haplotypes each containing different Pi2/9 homologues which were designated as Pi2/9-A5, ?A15, ?A42, ?A53, and -A54. Interestingly, Pi2/9-A5 and Pi2/9-A54 are identical to Piz-t and Pi2, respectively. To validate the association of other three novel Pi2/9 homologues with the blast resistance, monogenic lines at BC₃F₃ generation were generated by marker assisted backcrossing (MABC). Resistance assessment of the derived monogenic lines in both the greenhouse and the field hotspot indicated that they all controlled broad-spectrum resistance against rice blast. Moreover, genetic analysis revealed that the blast resistance of these three monogenic lines was co-segregated with Pi2/9-RH, suggesting that the Pi2/9 locus or tightly linked loci could be responsible for the resistance.

Conclusion

The newly developed marker Pi2/9-RH could be used as a potentially diagnostic marker for the quick identification of resistant donors containing functional Pi2/9 alleles or unknown linked R genes. The three new monogenic lines containing the Pi2/9 introgression segment could be used as valuable materials for disease assessment and resistance donors in breeding program.

     

Updating the elite rice variety Kongyu 131 by improving the <Emphasis Type="Italic">Gn1a</Emphasis> locus

Background

Kongyu 131 is an elite japonica rice variety of Heilongjiang Province, China. It has the characteristics of early maturity, superior quality, high yield, cold tolerance and wide adaptability. However, there is potential to improve the yield of Kongyu 131 because of the relatively few grains per panicle compared with other varieties. Hence, we rebuilt the genome of Kongyu 131 by replacing the GRAIN NUMBER1a (Gn1a) locus with a high-yielding allele from a big panicle indica rice variety, GKBR. High-resolution melting (HRM) analysis was used for single nucleotide polymorphism (SNP) genotyping.

Results

Quantitative trait locus (QTL) analysis of the BC₃F₂ population showed that the introgressed segment carrying the Gn1a allele of GKBR significantly increased the branch number and grain number per panicle. Using 5 SNP markers designed against the sequence within and around Gn1a, the introgressed chromosome segment was shortened to approximately 430 Kb to minimize the linkage drag by screening recombinants in the target region. Genomic components of the new Kongyu 131 were detected using 220 SNP markers evenly distributed across 12 chromosomes, suggesting that the recovery ratio of the recurrent parent genome (RRPG) was 99.89%. Compared with Kongyu 131, the yield per plant of the new Kongyu 131 increased by 8.3% and 11.9% at Changchun and Jiamusi, respectively.

Conclusions

To achieve the high yield potential of Kongyu 131, a minute chromosome fragment carrying the favorable Gn1a allele from the donor parent was introgressed into the genome of Kongyu 131, which resulted in a larger panicle and subsequent yield increase in the new Kongyu 131. These results indicate the feasibility of improving an undesirable trait of an elite variety by replacing only a small chromosome segment carrying a favorable allele.

     

<Emphasis Type="Italic">OsLAP6/OsPKS1</Emphasis>, an orthologue of <Emphasis Type="Italic">Arabidopsis PKSA/LAP6</Emphasis>, is critical for proper pollen exine formation

Background

Male fertility is crucial for rice yield, and the improvement of rice yield requires hybrid production that depends on male sterile lines. Although recent studies have revealed several important genes in male reproductive development, our understanding of the mechanisms of rice pollen development remains unclear.

Results

We identified a rice mutant oslap6 with complete male sterile phenotype caused by defects in pollen exine formation. By using the MutMap method, we found that a single nucleotide polymorphism (SNP) variation located in the second exon of OsLAP6/OsPKS1 was responsible for the mutant phenotype. OsLAP6/OsPKS1 is an orthologous gene of Arabidopsis PKSA/LAP6, which functions in sporopollenin metabolism. Several other loss-of-function mutants of OsLAP6/OsPKS1 generated by the CRISPR/Cas9 genomic editing tool also exhibited the same phenotype of male sterility. Our cellular analysis suggested that OsLAP6/OsPKS1 might regulate pollen exine formation by affecting bacula elongation. Expression examination indicated that OsLAP6/OsPKS1 is specifically expressed in tapetum, and its product is localized to the endoplasmic reticulum (ER). Protein sequence analysis indicated that OsLAP6/OsPKS1 is conserved in land plants.

Conclusions

OsLAP6/OsPKS1 is a critical molecular switch for rice male fertility by participating in a conserved sporopollenin precursor biosynthetic pathway in land plants. Manipulation of OsLAP6/OsPKS1 has potential for application in hybrid rice breeding.