The twenty-first century,the century of plant breeding

To achieve global food security by 2050 primary production must almost be doubled, at least to 80 % by increasing production per unit land. The challenge to plant breeding is tremendous. It is necessary to convince the public of this challenge, who are already dealing with concerns about climate change, a scarcity of good arable land, the demands placed on land with regard to biomass production, scarcity of water and phosphorous as well as increasing consumption of meat. In terms of breeding, concerns are the very small number of major crops and low rates of breeding progress in self-pollinating cereals. Society and politicians can be easily distracted from the dire need to invest in basic breeding research and breeding applications when so many environmental concerns are being emphasized. A holistic approach to these problems is essential. The focus here is on both the obstacles to be overcome and the opportunities to ensure global food security by producing excellent germplasm by 2050. This can be achieved by new technologies and genomics as well as the continuing development of more traditional breeding methodologies.     

Detecting epistatic effects associated with cotton traits by a modified MDR approach

Genetic expression of a trait is complicated and it is usually associated with many genes including their interactions (epistasis) and genotype-by-environment interactions. Genetic mapping currently focuses primarily on additive models or marginal genetic effects due to the complexity of epistatic effects. Thus, there exists a need to appropriately identify favorable epistatic effects for important biological traits. Several multifactor dimensionality reduction (MDR) based methods are important resources to identify high-order gene–gene interactions. These methods are mainly focused on human genetic studies. Many traits in plant systems are not only quantitatively inherited but also are often measured in repeated field plots under multiple environments. In this study, we proposed a mixed model based MDR approach, which is suitable for inclusion of various fixed and random effects. This approach was used to analyze a cotton data set that included eight agronomic and fiber traits and 20 DNA markers. The results revealed high order epistatic effects were detected for most of these traits using this modified MDR approach.     

Mapping and marker-assisted breeding of a gene allelic to the major Asian rice gall midge resistance gene <Emphasis Type="Italic">Gm8</Emphasis>

Host plant resistance is the preferred management strategy for Asian rice gall midge (Orseolia oryzae), a serious pest in many rice-growing countries. Identification of simple sequence repeat (SSR) markers that are tightly linked to pest resistance genes can accelerate development of gene pyramids for durable/multiple resistance. Based on conventional and molecular allelism tests, we report herein that rice genotype Aganni possesses Gm8 gene, conferring hypersensitive independent (HR– type) resistance to gall midge biotypes GMB1, GMB2, GMB3, GMB4, and GMB4M. The gene Gm8 was mapped to chromosome 8 within a 400-kbp region, and the SSR markers RM22685 and RM22709 flank the gene closely. Using these closely linked flanking markers, nine other gall midge-resistant genotypes were identified as carrying the same gene Gm8. Through marker-assisted selection, Gm8 has been introgressed into an elite bacterial blight-resistant cultivar, Improved Samba-Mahsuri (IS).     

Heterotic orientation of tropical maize inbred lines towards populations ZM523 and Suwan-1 under downy mildew infestation

Development of top cross varieties with downy mildew (DM) resistance is one approach to enhance maize productivity in tropical lowland environments. The objective of this study was to determine heterotic orientation of 18 advanced maize inbred lines towards popular open pollinated synthetic populations ZM523 and Suwan-1 under the prevalence of DM. The 36 top crosses, four hybrid check varieties and two testers, ZM523 (Z) and Suwan-1 (S) were evaluated in a 6 × 7 α-lattice design with two replications across three environments. General combining ability effects were significant (P ≤ 0.05) for DM resistance and grain yield, suggesting that genes with additive effects were important in controlling the traits. Specific combining ability (SCA) effects were not significant for DM suggesting small influence of DM resistance by the genes with non-additive effects; but SCA effects were significant for grain yield, indicating that non-additive gene effects played a significant role in governing the grain yield. Based on the SCA data, ten lines were grouped with Suwan-1 and eight lines with ZM523. Using the heterosis data, the lines were fitted into three groups that were designated as S, Z and SZ orientation. The lines ML2, ML30 and ML42, which displayed positive heterosis with both testers for grain yield, were allocated to the SZ-group. The lines ML8, ML10, ML25, ML45, and ML48 exhibited positive heterosis with Suwan-1 and were therefore, classified in the Z-group, and line ML19 that showed positive heterosis with ZM523 was fitted in the S-group. The remaining eight lines did not show any significant and positive heterosis with both testers hence they could not be classified based on heterosis data, suggesting that hybrid breeding efficiency could be improved by expanding the number of testers. Line ML42 displayed the highest level of heterosis with both Suwan-1 (32 %) and ZM523 (29 %) and outperformed all the standard check varieties qualifying it as a potential candidate for further testing. Generally, there was consistency of heterotic grouping of the lines using SCA and heterosis data.     

Genotype × environment interactions in populations possessing <Emphasis Type="Italic">Ga1</Emphasis>-<Emphasis Type="Italic">s</Emphasis> and <Emphasis Type="Italic">ga1</Emphasis> alleles for cross incompatibility in maize

Use of cross incompatibility in corn (Zea mays L.) by the Ga1-s allele may reduce cross-fertilization in specialty and conventional organic corn with pollen from genetically-modified (GM) corn. For effective use, information about environment, and genotype × environment effects on cross-fertilization by ga1 as well as heritability of cross incompatibility in maize is necessary. Our objective was to obtain this information. Four population pairs differing in their genotype at ga1 were evaluated for cross incompatibility with ga1 pollen in different environments. Populations were derived by crossing the recurrent parents B116, PHG35, ARZM16035:S19, and (CHZM05015:Mo17)Mo17 to Ga1-s donor parent Mo508W/Mo506W. Two replicates of each treatment were grown in the center of 952 m² fields planted with purple corn as an adventitious source of ga1/ga1 pollen. Open pollination was allowed and the amount of cross-fertilization estimated by averaging the percentage of purple seeds. Environment and genotype × environment effects were not significant. Contrasts to evaluate differences in cross-fertilization between Ga1-s and ga1 populations revealed that mean percentages of cross-fertilization in Ga1-s populations of B116, ARZM16035:S19, and (CHZM05015:Mo17)Mo17 were significantly lower than in ga1 populations. The estimated broad-sense heritability on an entry-mean basis for cross incompatibility was 0.81. Results suggest differences in genotype at ga1 played a major role in cross-fertilization of populations differing in their genotype at the ga1 locus. Incompatibility may be selected effectively over different environments and the Ga1-s system may be of value to reduce cross-fertilization with GM corn pollen.     

Hybrids of <Emphasis Type="Italic">Passiflora</Emphasis>: <Emphasis Type="Italic">P. gardneri</Emphasis> versus <Emphasis Type="Italic">P. gibertii,</Emphasis> confirmation of paternity,morphological and cytogenetic characterization

Two new varieties of interspecific hybrids of Passiflora have been developed from the cross between P. gardneri versus P. gibertii, both registered under the Passiflora Society International. Twelve putative hybrids were analyzed. Hybridization was confirmed using RAPD and SSR markers. Primer UBC11 (5′-CCGGCCTTAC-3′) generated informative bands. Primer SSR Pe75 has amplified species-specific fragments and a heterozygote status was observed with two parent bands 300 and 350 bp. The molecular markers generated have been analyzed for the presence or absence of specific informative bands. Based on the morphological characterization, we have identified two hybrid varieties: P. ‘Gabriela’ and P. ‘Bella’. P. ‘Gabriela’ produced flowers in bluish tones, bluish petals on the adaxial and abaxial faces, light blue sepals on the adaxial and light green on the abaxial faces, corona with the base of filaments in intense lilac color and white apex. P. ‘Bella’ produced flowers in lilac tones, intense lilac petals on the adaxial and abaxial faces, dark lilac sepals with whitish edges on the adaxial and light green on the abaxial faces, corona with the base of filaments in intense lilac color and white apex. The cytogenetic analysis verified that the hybrids have the same chromosomal number as the parents (2n = 18); the formation of bivalents between the homeologous chromosomes (n = 9) was observad, leading to regular meiosis, which allows the sexual reproduction and use of these hybrids in breeding programs.     

Identification of drought responsive QTLs during vegetative growth stage of rice using a saturated GBS-based SNP linkage map

Drought is a major abiotic constraint for rice production worldwide. The quantitative trait loci (QTLs) for drought tolerance traits identified in earlier studies have large confidence intervals due to low density linkage maps. Further, these studies largely focused on the above ground traits. Therefore, this study aims to identify QTLs for root and shoot traits at the vegetative growth stage using a genotyping by sequencing (GBS) based saturated SNP linkage map. A recombinant inbred line (RIL) population from a cross between Cocodrie and N-22 was evaluated for eight morphological traits under drought stress. Drought was imposed to plants grown in 75 cm long plastic pots at the vegetative growth stage. Using a saturated SNP linkage map, 14 additive QTLs were identified for root length, shoot length, fresh root mass, fresh shoot mass, number of tillers, dry root mass, dry shoot mass, and root-shoot ratio. Majority of the drought responsive QTLs were located on chromosome 1. The expression of QTLs varied under stress and irrigated condition. Shoot length QTLs qSL1.38 and qSL1.11 were congruent to dry shoot mass QTL qDSM1.38 and dry root mass QTL qDRM1.11, respectively. Analysis of genes present within QTL confidence intervals revealed many potential candidate genes such as laccase, Calvin cycle protein, serine threonine protein kinase, heat shock protein, and WRKY protein. Another important gene, Brevis radix, present in the root length QTL region, was known to modulate root growth through cell proliferation and elongation. The candidate genes and the QTL information will be helpful for marker-assisted pyramiding to improve drought tolerance in rice.     

Genetic studies for seed size and grain yield traits in kabuli chickpea

Seed size, determined by 100-seed weight, is an important yield component and trade value trait in kabuli chickpea. In the present investigation, the small seeded kabuli genotype ICC 16644 was crossed with four genotypes (JGK 2, KAK 2, KRIPA and ICC 17109) and F₁, F₂ and F₃ populations were developed to study the gene action involved in seed size and other yield attributing traits. Scaling test and joint scaling test revealed the presence of epistasis for days to first flower, days to maturity, plant height, number of pods per plant, number of seeds per plant, number of seeds per pod, biological yield per plant, grain yield per plant and 100-seed weight. Additive, additive?×?additive and dominance?×?dominance effects were found to govern days to first flower. Days to maturity and plant height were under the control of both the main as well as interaction effects. Number of seeds per pod was predominantly under the control of additive and additive?×?additive effects. For grain yield per plant, additive and dominance?×?dominance effects were significant in the cross ICC 16644?×?KAK 2, whereas, additive?×?additive effects were important in the cross ICC 16644?×?JGK 2. Additive, dominance and epistatic effects influenced seed size. The study emphasized the existence of duplicate epistasis for most of the traits. To explore both additive and non-additive gene actions for phenological traits and yield traits, selection in later generations would be more effective.     

Breeding value of selected blackcurrant (<Emphasis Type="Italic">Ribes nigrum</Emphasis> L.) genotypes for early-age fruit yield and its quality

The study was conducted in the years from 2011 to 2013 at the Research Institute of Horticulture in Skierniewice, Poland. The aim of the research was to assess the breeding value, based on the effects of general and specific combining abilities (GCA and SCA), of 15 parental genotypes of blackcurrant in terms of fruit yield and quality. The plant material consisted of F₁ generation seedlings obtained by crossing, in a factorial mating design of twelve maternal (‘Bona’, ‘Big Ben’, ‘Chereshnieva’, Kupoliniai’, ‘Gofert’, ‘Tines’, ‘Sofievskaia’, ‘Tihope’, ‘Ores’, ‘Ruben’, ‘Titania’ and D13B/11) and three paternal cultivars (‘Ceres’, ‘Foxendown’ and ‘Saniuta’). It was found that the cultivars ‘Ruben’, ‘Big Ben’, ‘Gofert’ and D13B/11 had significant positive effects of GCA on fruit yield at least in two consecutive years. ‘Ruben’, ‘Saniuta’ and D13B/11 had positive GCA effects on fruit weight. For ‘Chereshnieva’, ‘Gofert’, ‘Tines’, ‘Sofievskaia’, ‘Tihope’, ‘Titania’, ‘Ceres’ and Saniuta’ positive GCA effects were estimated for soluble solids content, whereas ‘Ruben’, ‘Ceres’, ‘Gofert’ and ‘Ores’ had positive GCA effects on the ascorbic acid content in fruit. This indicated a high breeding value of these parental genotypes in terms of the evaluated traits. The significantly positive values of SCA, estimated for the crossing combinations: ‘Big Ben’?×?‘Saniuta’, ‘Ruben’?×?‘Foxendown’, ‘Titania’?×?‘Ceres’, ‘Kupoliniai’?×?‘Saniuta’, ‘Gofert’?×?‘Foxendown’, ‘Gofert’?×?‘Saniuta’, ‘Tines’?×?‘Ceres’ and ‘Tihope’?×?‘Foxendown’ for at least two traits describing fruit yield and quality, were evidence of the interaction of both these parental genotypes in the creation of new dessert-type cultivars of blackcurrant.     

Mining of favorable marker alleles for flag leaf inclination in some rice (<Emphasis Type="Italic">Oryza sativa</Emphasis> L.) accessions by association mapping

Flag leaf angle (FLA) in rice (Oryza sativa L.) is one of the important traits affecting F₁ seed production by mechanization. To elucidate the genetic mechanism of FLA and mine favorable marker alleles for F₁ seed production in rice, we performed a genome-wide association study using phenotypic data over 2 years and genotypic data of 262 pairs of simple sequence repeat (SSR) markers collected from 441 rice accessions. We detected seven SSR marker loci associated with FLA and four loci were novel. The four newly found loci were RM6266 on chromosome 3, RM348 on chromosome 4, RM258 on chromosome 10 and RM7303 on chromosome 11. We found a total of 27 favorable alleles, of which four, i.e., RM348-130 bp, RM7303-90 bp, RM258-180 bp, and RM4835-230 bp, had phenotypic effects larger than 10°. Nine combinations, which increased FLA by 45.7°–94.7° through pyramiding the favorable alleles contained in seven typical accessions, were predicted.