Genetic parameters and selection gains in early clonal evaluation trials: implications for cassava breeding

The objective of this study was to estimate and compare genetic parameters in early cassava breeding phases (clonal evaluation trials—CET and preliminary yield trials—PYT) in full-sib (F₁) and self-pollinated (S₁) families, besides estimating the genetic gains. Twenty-three F₁ and six S₁ families were evaluated using the augmented block design in CET and the randomized complete block design in PYT for fresh root yield (FRY), root dry matter content (DMC) and starch yield (STY). In CET, most of the variance was due to environmental (\(\sigma_{e}^{2}\)) followed by variance within F₁ and S₁ (\(\sigma_{Clone/Fam}^{2}\)) families, with the exception of DMC in S₁ families. PYT presented the opposite behavior. In contrast, specifically for S₁ families, the variance between families (\(\sigma_{ Fam}^{2}\)) was more important than \(\sigma_{e}^{2}\) and \(\sigma_{Clone/Fam}^{2}\) in PYT. The heritability of families (\(h_{Fam}^{2}\)) was lower than individual broad-sense heritability (\(h_{g}^{2}\)) in all trials and families. Regardless of the family type and trial, family accuracy (\(r_{ggFam}\)) was lower than the clone accuracies (\(r_{ggCl}\)). Predicted gains using the selection index (SI) applied to best linear unbiased prediction (BLUP) were higher in PYT compared with CET and higher in F₁ families in comparison with S₁. There was also low coincidence in clone selection in both trials (30 and 45% for F₁ and S₁ families, respectively). For cassava breeding, it is recommended to obtain a higher number of clones per family and to use the SI with moderate intensity, particularly in CET.     

Genetic parameters for growth traits and stem-straightness in <Emphasis Type="Italic">Eucalyptus urophylla</Emphasis> × <Emphasis Type="Italic">E. camaldulensis</Emphasis> hybrids from a reciprocal mating design

An inter-specific hybrid breeding program involving Eucalyptus urophylla (U) and Eucalyptus camaldulensis (C) was implemented in order to provide genotypes better adapted to southern China with improved growth rate, stem-straightness and wind-resistance. A trial involving 36 reciprocal crosses from six parents each of C and U that had been preselected for superior growth and stem-straightness was established at a site in Luokeng in Guangdong province. Ten, pure-species families using the hybrid parents as open-pollinated female parents were included as controls. Survival and growth traits at ages 2 and 8.3 years and stem-straightness at age 2 years were assessed. Inter-specific hybrids generally performed better than the pure species in terms of survival, growth traits and stem-straightness. Female U by male C crosses generally outperformed those involving male U and female C. Further indication of the significant reciprocal effect was supported by negative and low correlations between paired groups of full-sibs that differed only in the direction of the cross. Components of female additive genetic variance and narrow-sense heritability calculated from this estimate (\(\sigma_{\rm Af}^{2}\) and \(h_{\rm f}^{2}\)), respectively) were generally higher than those of the male \(\left( {\sigma_{\rm Am,}^{2} h_{\rm m}^{2} } \right)\), providing evidence for maternal effects. The narrow-sense heritability (h²) estimates based on general hybridizing ability for growth traits and stem-straightness were generally low at both ages, and of low precision at 8.3 years. The ratio of hybrid additive-to-dominance variance \(\left( {{{\sigma_{\rm A}^{2} } \mathord{\left/ {\vphantom {{\sigma_{\rm A}^{2} } {\sigma_{\rm D}^{2} }}} \right. \kern-0pt} {\sigma_{\rm D}^{2} }}} \right)\) was of little practical consequence at age 2 years and had further decreased by age 8.3 years. Trait-trait genetic correlations amongst hybrids were generally positive and moderate to high. Hybrid vigour, gauged by comparison with the performance of the pure species progeny was significant, though correlations between pure species and hybrid progeny-based estimates of parental performance were weak, indicating that making parental selections in pure species trials may not be a successful strategy.     

Selection of cassava accessions with multiple resistance to pathogens associated with root rot disease

Cassava root rot disease (CRRD) severely affects productivity in several countries. The objective of this study was to estimate genetic parameters and to identify multiple resistance sources against pathogens associated with CRRD. The symptoms caused by Fusarium spp., Phytophthora spp., and Botryosphaeriaceae species in peel and pulp from the roots were evaluated in 277 accessions using a whole tuberous root inoculation method. The resistance data were obtained by REML/BLUP (restricted maximum likelihood/best linear unbiased predictor). The classic selection index (CI), multiplicative (MI), and sum of ranks (SRI) were used to identify the accessions with multiple resistance. For all pathogens, the environmental variance (\(\sigma_{e}^{2}\)) was the most important component. Individual heritability \(\left( {h_{g}^{2} } \right)\) was of low magnitude for resistance to most pathogens (0.16 ± 0.02—peel and 0.31 ± 0.03—pulp for Fusarium spp.; 0.26 ± 0.03—peel and 0.30 ± 0.03—pulp for Phytophthora spp.; and 0.28 ± 0.03—peel and 0.27 ± 0.03—pulp for Botryosphaereacea species). The distribution of CRRD symptoms indicated the presence of quantitative inheritance. The direct selection of the 15 more resistant accessions based on the genotypic predicted values result in high reductions of disease (>50%). However, there was a low matching rate of the most resistant accessions for each pathogen and the different parts of the tuberous roots (peel and pulp). The CI and MI were the most promising compared to the SRI to ensure high and balanced resistance for each pathogen. Understanding the genetic basis of resistance to CRRD and the identification of sources with multiple resistance may be useful in various management strategies to control the disease.     

Are tree breeders properly predicting genetic gain? A case study involving <Emphasis Type="Italic">Corymbia</Emphasis> species

The estimation of quantitative genetic parameters in breeding programs is important to ensure efficient selection. In this context, knowledge of the mating system is critical, as it underpins assumptions about inter-relatedness on which variance component estimation depends. However, proper account of the breeding system is not always taken, either because it is unknown and/or because it is ignored. That eucalypts have a mixed-mating system is well-established, however many breeders use models that assume outcrossed mating with an infinite number of male parents (i.e. allogamous mating), from which genetic parameter estimates are then used to predict genetic gains. First-generation, open-pollinated progeny tests of Corymbia citriodora subsp. citriodora and C. citriodora subsp. variegata, being managed for seed production, were used to investigate the likely bias, resulting in overestimation of genetic parameters under the assumption of allogamous mating. When we assumed allogamous mating, we observed inflated predictions of additive variance and narrow-sense heritability (\(\hat{h}_{a}^{2}\)) of diameter at breast height and height. The overestimate of \(\hat{h}_{a}^{2}\) was approximately 32% for C. citriodora subsp. citriodora and 21% for C. citriodora subsp. variegata. Inappropriate modelling of relatedness in eucalypts that assumes panmictic outcrossing when in fact these species have a mixed-mating system results in overestimates of the population genetic gain with selection.     

Breeding of high yielding and dwarf oil palm planting materials using Deli <Emphasis Type="Italic">dura</Emphasis> × Nigerian <Emphasis Type="Italic">pisifera</Emphasis> population

In practice, progeny and individual palm selection are believed to be the most suitable breeding approach for improvement of quantitative traits in oil palm because their phenotypic expressions are strongly influenced by abiotic factors. Therefore progeny selection approach was applied in this study for the selection of high fresh fruit bunch (FFB) and dwarf oil palm planting materials. Cross between Deli dura and Nigerian pisifera resulted into 34 D × P full sib progenies with 1036 seedlings. For six consecutive years, data were collected on yield and yield component traits, while vegetative traits were recorded once. Bi-parental analysis was carried out using analysis of variance, followed by progenies mean comparison, variance components, heritabilities and cluster analysis. Highly significant (P ≤ 0.01) progeny effect was recorded in this study and this had a pronounced effect on the expression of all the quantitative traits. Progenies performance of FFB varied significantly and it ranged from 166.49 to 220.06 kg/palm/year (kg/p/yr) with trial mean of 192.93 kg/p/yr. Palm height after 8 years of field planting ranged from 1.67 to 2.78 m (control cross) with trial mean of 2.12 m. Broad sense heritability (\({\text{h}}_{\text{B}}^{2}\)) was found to be very low (<17.60%) for all the yield traits, however this parameter was high for vegetative traits with palm height having \({\text{h}}_{\text{B}}^{2}\) of 90%. Cluster analysis based on all the quantitative traits grouped all the 34 DP progenies into nine distinct clusters. From this study, five progenies (DP3, DP4, DP5, DP8 and DP24) were identified to be high yielding and dwarf palms compare to trial mean. At density of 140 palm/ha, they will produce FFB of 28.63–30.81 t/ha and average of 29.69 t/ha which is about 27.15% higher in FFB when compared to the current planting material with FFB of 23.35 t/ha. In addition, the selected progenies possessed average annual palm increment of 29.82 cm/yr with range of 26 and 32.5 cm/yr which was 57.33% shorter than the current planting material with palm height increment of 45–75 cm/yr.     

Genetic and phenotypic parameters in common bean segregant populations from intra and inter-gene pool crosses of elite lines

This study aimed compare segregating populations of common bean (Phaseolus vulgaris L.) derived from intra and inter-gene pool crosses of elite lines by estimates of some genetic and phenotypic parameters. Four elite lines highly adapted to Brazilian conditions were used (ESAL 686 and BRS Radiante: Andean gene pool; BRSMG Majestoso and BRS Valente: Mesoamerican gene pool). Two intra-gene pool (“A”: ESAL 686 × BRS Radiante; “B”: BRS Valente × BRSMG Majestoso) and two inter-gene pool segregant populations (“C”: BRS Radiante × BRSMG Majestoso and “D”: ESAL 686 × BRS Valente) were obtained. The parental lines, the cultivar Pérola and fifty-five F_2:3 progenies of each population were evaluated in the rainy season 2010/2011, and afterwards (F_2:4) in dry season of 2011. Estimates of genetic variance ( $\hat{\sigma }_{G}^{2}$ ), heritability on a progeny mean basis ( $\hat{h}_{p}^{2}$ ), heritability realized ( $\hat{h}_{R}^{2}$ ) and gain expected from selection (GS) were obtained at joint analysis, in each population, for the traits number of days to flowering (DTF), 100 seed weight (100SW) and seed yield (SYD). It was observed that for all traits, inter-gene pool crosses (“C” and “D”) showed higher estimates of $\hat{\sigma }_{G}^{2}$ , $\hat{h}_{p}^{2}$ , $\hat{h}_{R}^{2}$ and GS than intra-gene pool crosses (“A” and “B”), which indicates more genetic variability. However, for SYD, the higher variability was associated to lower average of seed yield, showing that even utilizing adapted parents the inter-gene pool crosses are inferior to crosses between lines of the same gene pool.     

Genetic mapping of resistance to <Emphasis Type="Italic">Puccinia hordei</Emphasis> in three barley doubled-haploid populations

The success of breeding for barley leaf rust (BLR) resistance relies on regular discovery, characterization and mapping of new resistance sources. Greenhouse and field studies revealed that the barley cultivars Baronesse, Patty and RAH1995 carry good levels of adult plant resistance (APR) to BLR. Doubled haploid populations [(Baronesse/Stirling (B/S), Patty/Tallon (P/T) and RAH1995/Baudin (R/B)] were investigated in this study to understand inheritance and map resistance to BLR. The seedlings of two populations (B/S and R/B) segregated for leaf rust response that conformed to a single gene ratio (\({\text{X}}_{1:1}^{2}\) = 0.12, P > 0.7 for B/S and \({\text{X}}_{1:1}^{2}\) = 0.34, P > 0.5 for R/B) whereas seedlings of third population (P/T) segregated for two-gene ratio (\({\text{X}}_{1:1}^{2}\) = 0.17, P > 0.6) when tested in greenhouse. It was concluded that the single gene in Baudin and one of the two genes in Tallon is likely Rph12, whereas gene responsible for seedling resistance in Stirling is Rph9.am (allele of Rph12). The second seedling gene in Tallon is uncharacterized. In the field, APR was noted in lines that were susceptible as seedlings. A range of disease responses (CI 5–90) was observed in all three populations. Marker trait association analysis detected three QTLs each in populations B/S (QRph.sun-2H.1, QRph.sun-5H.1 and QRph.sun-6H.1) and R/B (QRph.sun-1H, QRph.sun-2H.2, QRph.sun-3H and QRph.sun-6H.2), and four QTLs in population P/T (QRph.sun-6H.2, QRph.sun-1H.2, QRph.sun-5H.2 and QRph.sun-7H) that significantly contributed to low leaf rust disease coefficients. High frequency of QRph. sun-5H.1, QRph. sun-6H.1, QRph. sun-1H.1, QRph. sun-2H.2, QRph. sun-6H.2, QRph. sun-7H (based on presence of the marker, closely associated to the respective QTLs) was observed in international commercial barley germplasm and hence providing an opportunity for rapid integration into breeding programmes. The identified candidate markers closely linked to these QTLs will assist in selecting and assembling new APR gene combinations; expectantly this will help in achieving good levels of durable resistance for controlling BLR.     

Rubber tree early selection for yield stability in time and among locations

Rubber production in the rubber tree [Hevea brasiliensis (Willd. ex Adr. de Juss.) Muell. Arg.] can be expressed differently in different environments. Thus the objective of the present study was to select productive progenies, stable and responsive in time and among locations. Thirty progenies were assessed by early yield tests at three ages and in three locations. A randomized block design was used with three replications and ten plants per plot, in 3 × 3 m spacing. The procedure of the mixed linear Reml/Blup model—restricted maximum likelihood/best non-biased linear prediction was used in the genetic statistical analyses. In all the individual analyses, the values observed for the progeny average heritability ( $ \hat{h}_{pa}^{2} $ ) were greater than those of the additive effect based on single individuals ( $ \hat{h}_{a}^{2} $ ) and within plot additive ( $ \hat{h}_{ad}^{2} $ ). In the joint analyses in time, there was genotype × test interaction in the three locations. When 20 % of the best progenies were selected the predicted genetic gains were: Colina G_G = 24.63 %, Selvíria G_G = 13.63 %, and Votuporanga G_G = 25.39 %. Two progenies were among the best in the analyses in the time and between locations. In the joint analysis among locations there was only genotype × location interaction in the first early test. In this test, selecting 20 %, the general predicted genetic gain was G_G = 25.10 %. Identifying progenies with high and stable yield over time and among locations contributes to the efficiency of the genetic breeding program. The relative performance of the progenies varies depending of the age of early selection test.     

Genetic variation and environmental stability of grain mineral nutrient concentrations in <Emphasis Type="Italic">Triticum dicoccoides</Emphasis> under five environments

Nineteen wild emmer wheat [Triticum turgidum ssp. dicoccoides (Körn.) Thell.] genotypes were evaluated for the grain concentrations of phosphorous (P), potassium (K), sulfur (S), magnesium (Mg), calcium (Ca), zinc (Zn), manganese (Mn), iron (Fe) and cooper (Cu) under five different environments in Turkey and Israel. Each mineral nutrient has been investigated for the (1) genotype by environment (G × E) interactions, (2) genotype stability, (3) correlation among minerals and (4) mineral stability. Among the macronutrients analyzed, grain concentrations of Ca (range 338–2,034 mg kg^?1) and S (range 0.18–0.43%) showed the largest variation. In the case of micronutrients, the largest variation was observed in the grain Mn concentration (range 13–87 mg kg^?1). Grain concentrations of Fe and Zn also showed important variation (range 27–86 and 39–115 mg kg^?1, respectively). Accessions with higher nutrient concentrations (especially Zn and Fe) had also greater grain weight, suggesting that higher grain Zn and Fe concentrations are not necessarily related to small grain size or weight. Analysis of variance showed that environment was the most important source of variation for K, S, Ca, Fe, Mn and Zn, explaining between 44 and 78% of the total variation and G × E explained between 20 and 40% of the total variation in all the minerals, except for S and Zn where its effect accounted for less than 16%. Genotype was the most important source of variation for Cu (explaining 38% of the total variation). However, genotype effect was also important for Mg, Mn, Zn and S. Sulfur and Zn showed the largest heritability values (77 and 72%, respectively). Iron exhibited low heritability and high ratio value between the G × E and genotype variance components \( \left( {\sigma_{\text{GE}}^{2} /\sigma_{G}^{2} } \right) \), suggesting that specific adaptation for this mineral could be positively exploited. The wild emmer germplasm tested in the current study revealed some outstanding accessions (such as MM 5/4 and 24-39) in terms of grain Zn and Fe concentrations and environmental stability that can be used as potential donors to enhance grain micronutrient concentrations in wheats.     

Cytoplasmic male sterile and doubled haploid lines with desirable combining ability enhances the concentration of important antioxidant attributes in <Emphasis Type="Italic">Brassica oleracea</Emphasis>

The Brassica vegetable crops are rich source of important antioxidant compounds having anticancer and health promoting properties. Development of F₁ hybrids with better nutritional traits is one of the main breeding objectives in different vegetable crops. Our study is the first report of determining heterotic combinations utilizing cytoplasmic male sterile (CMS) and doubled haploid (DH) inbred lines for antioxidant compounds in snowball cauliflower. Twenty genetically diverse Ogura CMS lines of cauliflower and six DH male fertile inbred lines were crossed to develop 120 F₁ hybrids in line?×?tester mating design. The resulting 120 test cross progenies along with 26 parents and 4 standard checks were evaluated in 10?×?15 alpha lattice design with three replications during next cropping season. The CMS lines Ogu33-1A, Ogu122-5A and Ogu119-1A were good general combiner and CMS line Ogu118-6A was poor general combiner for majority of traits. Most of the heterotic hybrids were associated with high positive SCA effects. The proportions of σ²A/D and \(\upsigma^{2}_{\text{gca}} /\upsigma^{2}_{\text{sca}}\) ratios were less than unity in all the cases indicating preponderance of non-additive gene action in the genetic control of all the traits. Highest number of heterotic hybrids with SCA effects in desired positive direction was recorded for ascorbic acid content and phenolic content followed by total carotenoid content. The F₁ hybrids with better combining ability and better per se performance could be useful in accumulation of favourable allele for higher concentration of important anti-oxidant compounds.     

Application of half-sib mating for genetic analysis of forage yield and related traits in Bromus inermis

Despite efforts made, forage yield of smooth bromegrass has increased slowly over the last 50 years of breeding. It therefore seems necessary to investigate more on the genetic basis of agro-morphological traits in this cool-season, highly drought resistant grass. The present study was aimed at estimation of total genetic variance, narrow-sense heritability, general combining ability, phenotypic and genotypic correlation among different quantitative traits in half-sib (HS) families derived from polycross of 25 smooth bromegrass genotypes that were mainly originated from Iran. Families differed significantly for all of the agro-morphological and quality traits measured. Narrow sense heritability ( ${\text{h}}_{\text{n}}^{2}$ ) ranged from about 0.2 (plant height) to 0.7 (day to inflorescence emergence and day to anthesis). Moderate to high heritability for forage dry matter yield (0.42) indicates that phenotypic selection for this trait can be successful. A wide range of general combining ability was observed for most of the studied traits, especially those related to forage yield. Relatively low genetic variation and heritability for crude protein and also negative correlation of this trait with forage yield, indicates a low probability of improving forage yield and quality simultaneously.     

Genetic characterization of an Italian Giant Reed (Arundo donax L.) clones collection: exploiting clonal selection

This study is the first report of combining ability and heterosis for important vitamins and antioxidant plant pigments in cauliflower. Five CMS lines were crossed with 8 male fertile lines in line × tester design to develop 40 hybrids. These hybrids along with parental lines were evaluated for different vitamins and anti-oxidant pigments to reveal extent of heterosis and genetic combining ability. The CMS line Ogu12A was good general combiner (gca effect) and Ogu16A was poor general combiner for most of the important traits under study. Most of the heterotic hybrid combinations were associated high specific combing ability (sca effect). However, gca effect was also important in developing quality heterotic hybrids. The proportions of $\sigma_{\text{gca}}^{ 2} /\sigma_{\text{sca}}^{2}$ were less than unity in all the cases indicating the role of non-additive gene action for most of the traits. Highest number of heterotic hybrids in positive direction was recorded for ascorbic acid content followed by anthocyanin content. The accumulated average heterosis of the 40 hybrids was in positive direction for ascorbic acid, anthocyanin and lycopene concentration whereas it was in negative direction for carotenoids and chlorophyll pigments. Very high heterosis for ascorbic acid, anthocyanin and carotenoids in cauliflower indicated the scope for development of F₁ hybrids with higher concentration of these vitamins and anti-oxidant pigments. It is possible to develop heterotic hybrids for different vitamins and anti-oxidant plant pigments through selection of parental lines based on desirable genetic combing ability.     

Stability of <Emphasis Type="Italic">Solanum aethiopicum</Emphasis> Shum accessions under varied water deficit stress levels and identification of pertinent breeding traits for resistance to water shortage

Drought is a major constraint to productivity of Solanum aethiopicum ‘Shum’ group due to loss in market and nutrient value of stressed plants. This study evaluated S. aethiopicum Shum group accessions to identify genotypes (G) that excel across moisture deficit stress levels (WLs). A split-plot arrangement composed of four WLs and twenty accessions of S. aethiopicum as main plot and sub-plot factors, respectively, was implemented in a screenhouse, and repeated for two experiments. In each experiment, there was a highly significant effect of at least two WLs on mean performance among at least two accessions for most of the traits at p < 0.05. Further, very highly significant WL × G interactions were obtained for leaf relative water content (LRWC), leaves per plant (LPP) and plant height (PH), and non-significant for leaf blade length and leaf blade width. The order of priority as breeding traits for stability superiority across WLs was suggested as LRWC > PH > LPP. Consequently, based on LRWC, the most superiorly stable accessions were identified as accession 160 followed by accessions 145, 137, 108P and 184G while the least stable ones were identified as accessions 163G, 141, 163 and 108. The broad sense heritability (H ²) for each of the three recommended traits for drought resistance breeding was above 0.9 thus supportive for a good response to selection. Drought stress negatively affected the performance of S. aethiopicum Shum group but the exhibited variation allowed for selection of superiorly stable genotypes.     

A heritability-adjusted GGE biplot for test environment evaluation

Test environment evaluation has become an increasingly important issue in plant breeding. In the context of indirect selection, a test environment can be characterized by two parameters: the heritability in the test environment and its genetic correlation with the target environment. In the context of GGE biplot analysis, a test environment is similarly characterized by two parameters: its discrimination power and its similarity with other environments. This paper investigates the relationships between GGE biplots based on different data scaling methods and the theory of indirect selection, and introduces a heritability-adjusted (HA) GGE biplot. We demonstrate that the vector length of an environment in the HA-GGE biplot approximates the square root heritability (\( \sqrt H \)) within the environment and that the cosine of the angle between the vectors of two environments approximates the genetic correlation (r) between them. Moreover, projections of vectors of test environments onto that of a target environment approximate values of \( r\sqrt H \), which are proportional to the predicted genetic gain expected in the target environment from indirect selection in the test environments at a constant selection intensity. Thus, the HA-GGE biplot graphically displays the relative utility of environments in terms of selection response. Therefore, the HA-GGE biplot is the preferred GGE biplot for test environment evaluation. It is also the appropriate GGE biplot for genotype evaluation because it weights information from the different environments proportional to their within-environment square root heritability. Approximation of the HA-GGE biplot by other types of GGE biplots was discussed.     

Association mapping reveals loci associated with multiple traits that affect grain yield and adaptation in soft winter wheat

Genome-wide association studies (GWAS) are useful to facilitate crop improvement via enhanced knowledge of marker-trait associations (MTA). A GWAS for grain yield (GY), yield components, and agronomic traits was conducted using a diverse panel of 239 soft red winter wheat (Triticum aestivum) genotypes evaluated across two growing seasons and eight site-years. Analysis of variance showed significant environment, genotype, and genotype-by-environment effects for GY and yield components. Narrow sense heritability of GY (h ²  = 0.48) was moderate compared to other traits including plant height (h ²  = 0.81) and kernel weight (h ²  = 0.77). There were 112 significant MTA (p < 0.0005) detected for eight measured traits using compressed mixed linear models and 5715 single nucleotide polymorphism markers. MTA for GY and agronomic traits coincided with previously reported QTL for winter and spring wheat. Highly significant MTA for GY showed an overall negative allelic effect for the minor allele, indicating selection against these alleles by breeders. Markers associated with multiple traits observed on chromosomes 1A, 2D, 3B, and 4B with positive minor effects serve as potential targets for marker assisted breeding to select for improvement of GY and related traits. Following marker validation, these multi-trait loci have the potential to be utilized for MAS to improve GY and adaptation of soft red winter wheat.     

Morph-physiological responses of cotton interspecific chromosome substitution lines to low temperature and drought stresses

Limited knowledge about genetic and physiological traits associated with drought and low temperature stresses and narrow genetic diversity in Upland cotton (Gossypium hirsutum L.) are serious impediments in its genetic improvement. The objectives of this research were to determine the genetic and physiological traits associated with drought and low temperature effects and to identify chromosomal effects on these traits using chromosome substitution (CS) lines from three alien species of Gossypium, G. barbadense, G. tomentosum, and G. mustelinum, respectively. Two experiments were conducted to study low temperature and drought stress effects during seedling emergence and early growth stages in 21 cotton CS-lines with parent, Texas Marker (TM)-1. In Experiment I, plants were grown at optimum (30/22 °C) and low (22/14 °C) temperature conditions under optimum water and nutrient conditions. In Experiment II, plants were grown at optimum water (soil moisture content of 0.167 m³ m^?3) and in drought (soil moisture content 0.105 m³ m^?3) conditions under optimum temperature conditions. Above- and below-ground growth traits including several root traits of the CS lines were assessed at 25 days after sowing. The findings suggest which substituted chromosome or chromosome segment from the alien species likely harbors one or more genes for higher and lower tolerance to low temperature, respectively. CS-T04 and CSB08sh showed higher and lower tolerance to low temperature, respectively and CS-T04 and CS-B22sh showed higher and lower tolerance, respectively, to drought. CS lines are valuable analytical tool and useful genetic resources for targeted exploitation of beneficial genes for drought and low temperature stresses in Upland cotton.     

Construction of a high-density genetic map using genotyping by sequencing (GBS) for quantitative trait loci (QTL) analysis of three plant morphological traits in upland cotton (<Emphasis Type="Italic">Gossypium hirsutum</Emphasis> L.)

In recent years, the production costs of cotton (Gossypium hirsutum L.) in China have continued to rise, and this has been accompanied by relatively low productivity, diminished enthusiasm of Chinese farmers for planting cotton, and the difficulty caused by high subsidies as well as the high degree of mechanized harvesting for competing crops like grains. Therefore, it is urgent to improve the level of mechanization and the scale of cotton production in China. Morphological traits play an important role in the mechanized harvesting of cotton. Plant height (PH), height of the first fruiting branch node (HFFBN), and the number of vegetative shoot (NOVS) are key cotton morphological traits that influence mechanical harvesting. The genetic basis of PH, HFFBN, and NOVS were examined in the Z571 and CCRI 49 parents as well as 188 individuals comprising the F₂ mapping population. This F₂ population was examined using genotyping by sequencing (GBS) with 5571 high-density polymorphism single nucleotide polymorphism (SNP) markers to construct a genetic linkage map comprised of 3187 polymorphic markers. The genetic map spanned 3828.551 cM, with an average distance of 0.687 cM between markers. The complete interval mapping method identified 17 quantitative trait loci (QTL) for PH, HFFBN, and NOVS located on chromosomes 3, 4, 5, 7, 9, 17, 19, 23, and 25. Our study provides an efficient approach for fast detection of QTL underlying complex trait variation with high accuracy, thus providing preliminary information that can improve the efficiency of subsequent machine cotton picking through breeding and molecular marker-assisted selection methods.     

Geographical patterns of phenotypic diversity in <Emphasis Type="Italic">Oryza sativa</Emphasis> landraces of Côte d’Ivoire

The knowledge of agro-morphological diversity and the distribution pattern of variation among conserved accessions could be an invaluable aid in germplasm management and crop improvement strategies. In this study, the geographical pattern of morphological variation of 880 landrace rice (Oryza sativa (L.)) accessions in Côte d’Ivoire was evaluated for 13 agro-morphological characters. Shannon –weaver diversity index indicated an overall mean of 0.47 ± 0.07 in the collection, with the greatest diversity from derived Savanna and north-west (H′ = 0.52 and 0.50) while the west-central had the lowest diversity (H′ = 0.41). Canonical discriminant analysis showed that traits such as panicle length, grain size (weight and length), tillering ability, number of days to heading and maturity were the main discriminatory characteristics. Result of the phenotypic frequency shows that, the landraces from the north and north-western zones were mostly tall, early heading and maturity, compared to those from the west and west-central which were mainly dwarf to medium height, late heading and maturing. This differential distribution of landraces with height, heading and maturity period reflected the distribution pattern of different Oryza sativa landraces in Côte d’Ivoire, which could be useful in germplasm management and breeding programs.     

Breeding opportunities for early,free-threshing and semi-dwarf <Emphasis Type="Italic">Triticum monococcum</Emphasis> L.

Einkorn wheat, Triticum monococcum L. (2n = 2x = 14, A^mA^m genome), is a primitive, cultivated form of diploid wheat. The shortcoming of einkorn is that it lacks the free-threshing habit. Early heading and semi-dwarf traits are also required to fit modern agricultural practice. In the present study we developed T. monococcum pre-breeding germplasm having early, free threshing traits by utilizing an early heading source, two sources of soft glume (spike) and three sources of semi-dwarfism to combine their phenotypes into pre-breeding materials. We found two different genes determined free threshing of einkorn wheat. One of them was the sog (soft glume) gene from Triticum sinskajae Filat. et Kurkiev (2n = 2x = 14, A^mA^m genome) and another was the sos (soft spike) gene, which was completely linked or pleiotropic with the gene for semi-dwarfism. The genes sos, spd (short peduncle) and sd17654 (semi-dwarf CItr 17654) were utilized to develop semi-dwarf T. monococcum lines. Field performance of 6 early and free-threshing pre-breeding materials with sos and spd genes were tested over three crop seasons. Five semi-dwarf pre-breeding materials (PBMs) were obtained. However, these materials had slightly less grain yield than #252 (tall and hulled check) and PBM-1 (tall free-threshing check). Harvest index of the pre-breeding materials was improved due to the presence of sos and spd genes. If optimized cultivation practice is performed, these pre-breeding materials can be utilized as sources of early, free-threshing and semi-dwarf traits to produce modern T. monococcum varieties.     

Association analysis of fibre traits in Gossypium arboreum accessions

Advances in the use of diploid Asiatic species in cotton breeding require an understanding of the relatedness and ancestry of diploid cotton accessions, and identification of simple sequence repeat (SSR) markers associated with agronomically important phenotypic traits, for example, fibre quality. Fifty‐six Gossypium arboreum germplasm accessions introduced from nine regions of Africa, Asia and Europe were evaluated for eight fibre characters (lint percentage, lint colour, elongation, micronaire, strength, 50% span length, 2.5% span length and maturity%) and genotyped with 98 SSR markers. When viewed across all accessions most of the SSR markers were polymorphic. Population structure analysis identified six main clusters for the accessions which corresponded to different geographic regions, indicating agreement between genetic and predefined populations. The general linear model method was used to disclose marker–trait associations. Marker–trait associations were investigated by fitting single marker regression models for phenotypic traits on marker band intensities with correction for population structure. This paper illustrates the potential of association mapping in diploid cotton, because existing phenotypic data, a modest number of SSR markers, and a pioneering statistical analysis, identified interesting associations.