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.     

Ornithological importance of artificial ponds: a case study at Kabaklı Pond,south-eastern Anatolia,Turkey

The birds of Kabakl? Pond and its near surrounding were surveyed between October 2014 and December 2015 periods. During the study period, 105 bird species that belong to 12 orders and 34 families were detected and represented. Among these species determined, 17 of them certainly, 19 probably and 11 possibly breed in the area, while 58 of them are wintering or transitory migrating birds for the area. Among the recorded species, seven are globally threatened, while 20 are threatened for Turkey without least concern species. Obtained information suggests that this small artificial area has a great importance for many bird species related to habitat that have. Habitat preferences of species were analysed, and it was determined that the most preferred habitats are pond (water surface), wooded and agricultural zones, respectively. Also, the maximum bird number obtained during April and December, while maximum bird species richness observed during April. Results suggest that artificial ponds can be important for birds as feeding, resting and breeding area due to rapidly decline in natural wetland areas. Effective protection of the area requires the prevention of illegal hunting, fishing, human disturbance and pasturing. Also, in order to extend the existing reed and meadow areas, convenient plantation of natural plants at around of pond has a critic role for waterfowl.     

Comparative energy and economic analyses of conventional and System of Rice Intensification (SRI) methods of rice production in Thai Nguyen Province,Vietnam

The consumption of energy inputs in agricultural production has been increasing rapidly during the past decades. However, given the limitations and costs of non-renewable energy, increasing production while using the least energy possible has become a major concern of most nations. Prompted by this concern, we conducted a face-to-face survey of 90 farming households in Thai Nguyen Province, Vietnam, to find out how energy is being used in agriculture and, specifically, in their rice production. Through analysis of energy input–output balances, combined with economic efficiency analysis, a comparison was made of conventional and SRI methods of rice production. The study found that applying the SRI method can save around 23% of energy inputs, while increasing energy outputs by 11%. Economic benefits per hectare also rise by more than 8 million dong (USD 364) compared to those under the conventional cultivation system. The study also showed conflicts between the energy and economic balances for manual compared with machine ploughing operations. This study contributes to providing an overview of energy consumption in rice cultivation at the household level. Its findings can help stakeholders to assess current policies and make better decisions on the uses of energy in agricultural production. In addition, the comprehensive approach taken here to analysing energy use and efficiency could expand the analysis and comparison of energy uses at sectoral or activity level—still a new field in Vietnam and many other countries.     

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.

     

Tall fescue forage mass in a grass-legume mixture: predicted efficiency of indirect selection

High fertilizer prices and improved environmental stewardship have increased interest in grass-legume mixed pastures. It has been hypothesized, but not validated, that the ecological combining ability between grasses and legumes can be improved by breeding specifically for mixture performance. This experiment examined the predicted efficiency of selection in a grass monoculture environment to indirectly improve tall fescue (Lolium arundinaceum (Schreb.) Darbysh.) forage mass in a grass-legume mixture. Heritability, genetic and rank correlations, and selection efficiencies were estimated for forage mass in a tall fescue half-sib population grown as spaced-plants overseeded with either turf-type tall fescue (monoculture) or alfalfa (mixture). Heritability for tall fescue forage mass in monoculture ranged from 0.32 to 0.70 and were always similar or greater than those in mixture (range 0.27–0.55) for four successive harvests and annual total. Genetic correlations between monoculture and mixture tall fescue forage mass varied with values of 0.48, 0.92, ?0.31, 0.70, and 0.25 in June, July, August, October, and annual total, respectively. Indirect selection efficiencies exceeded or approached direct selection for mixtures only in July and October (1.29, and 0.73, respectively). Whereas, indirect selection efficiencies were low in June, August, and annual forage mass (0.58, ?0.31, and 0.28, respectively). Moreover, low Spearman’s rank correlations (?0.03 to 0.35) indicated differing half-sib family performance between the monoculture and mixture environments. Results indicate that direct selection should be used to improve tall fescue forage mass in a grass-legume mixture, and support the hypothesis of increasing ecological combining ability by breeding for mixtures per se.     

Molecular markers for improving control of soil-borne pathogen <Emphasis Type="Italic">Fusarium oxysporum</Emphasis> in sugar beet

Fusarium spp. cause severe damage in many agricultural crops, including sugar beet, with Fusarium oxysporum historically being considered as the most damaging of all species. Sugar beet needs to be protected from this class of soil-borne pathogens in order to ensure an optimal sugar yield in the field. Genetic control of the disease is crucial in managing these pathogens. Identification of single nucleotide polymorphism (SNP) markers linked to resistance can be a powerful tool for the introgression of valuable genes needed to develop Fusarium-resistant varieties. A candidate gene approach was carried out to identify SNP markers linked to putative Fusarium resistance sources in sugar beet. Five resistant analogue genes (RGAs) were screened by means of high resolution melting (HRM) analysis in a set of sugar beet lines, considered as resistant and susceptible to Fusarium oxysporum. HRM polymorphisms were observed in 80% of amplicons. Two HRM polymorphisms were significantly associated with Fusarium resistance (P < 0.05). The amplicons that showed association were sequenced and two SNPs were identified. The association was further validated on 96 susceptible and 96 resistant plants using competitive allele-specific PCR (KASPar) technology. The selected SNPs could be used for marker-assisted breeding of Fusarium resistance in sugar beet.     

Identification of quantitative trait locus and prediction of candidate genes for grain mineral concentration in maize across multiple environments

Trace metal elements are essential in daily diets for human health and normal growth. Maize is staple food for people in many countries. However, maize has low mineral concentration which makes it difficult to meet human requirements for micronutrients. The objective of this study was to identify quantitative trait locus (QTL) and predict candidate genes associated with mineral concentration in maize grain. Here, a recombinant inbred line population was used to test phenotype of zinc (Zn), iron (Fe), copper (Cu) and manganese (Mn) concentrations in six environments and then a QTL analysis was conducted using single environment analysis along with multiple environment trial (MET) analysis. These two strategies detected a total of 64 and 67 QTLs for target traits, respectively. Single environment analysis revealed 13 QTL bins distributed on seven chromosomes. We found that five candidate genes associated with mineral concentration were located in the same intervals identified by Comparative mapping of meta-QTLs in our previous study. The genetic and phenotypic correlation coefficients were depended on the nutrient traits and they were significant between Fe and Zn, Fe and Cu, Fe and Mn in all environments. The results of this study illustrated the genetic correlation between maize grain mineral concentrations, and identified some promising genomic regions and candidate genes for further studies on the biofortification of mineral concentration in maize grain.     

Conferring resistance to pre-harvest sprouting in durum wheat by a QTL identified in <Emphasis Type="Italic">Triticum spelta</Emphasis>

Pre-harvest sprouting (PHS) causes significant yield loss and degrade the end-use quality of wheat, especially in regions with prolonged wet weather during the harvesting season. Unfortunately, the gene pool of Triticum durum (tetraploid durum wheat) has narrow genetic base for PHS resistance. Therefore, finding out new genetic resources from other wheat species to develop PHS resistance in durum wheat is of importance. A major PHS resistance QTL, Qphs.sicau-3B.1, was mapped on chromosome 3BL in a recombinant inbred line population derived from ‘CSCR6’ (Triticum spelta), a PHS resistant hexaploid wheat and ‘Lang’, a PHS susceptible Australian hexaploid wheat cultivar. This QTL, Qphs.sicau-3B.1, is positioned between DArT marker wPt-3107 and wPt-6785. Two SCAR markers (Ph3B.1 and Ph3B.2) were developed to track this major QTL and were used to assay a BC₂F₈ tetraploid population derived from a cross between the durum wheat ‘Bellaroi’ (PHS susceptible) and ‘CSCR6’ (PHS resistant). Phenotypic assay and marker-assisted selection revealed five stable tetraploid lines were highly PHS resistant. This study has successfully established that PHS-resistance QTL from hexaploid wheat could be efficiently introgressed into tetraploid durum wheat. This tetraploid wheat germplasm could be useful in developing PHS resistant durum cultivars with higher yield and good end-use quality.